sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | bedops 2.4.39+dfsg1-2 (armhf) Mon, 15 Mar 2021 07:25:04 +0000 | +==============================================================================+ Package: bedops Version: 2.4.39+dfsg1-2 Source Version: 2.4.39+dfsg1-2 Distribution: unstable Machine Architecture: amd64 Host Architecture: armhf Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-e3df5305-b42a-4dbf-9f75-cb829b009328' with '<>' I: NOTICE: Log filtering will replace 'build/bedops-3HQgRP/resolver-gOy5VZ' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Hit:1 http://debian.oregonstate.edu/debian unstable InRelease Get:2 http://debian.oregonstate.edu/debian unstable/main armhf Packages [8340 kB] Fetched 8340 kB in 2s (4903 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'bedops' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/bedops.git Please use: git clone https://salsa.debian.org/med-team/bedops.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 13.5 MB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main bedops 2.4.39+dfsg1-2 (dsc) [2185 B] Get:2 http://debian.oregonstate.edu/debian unstable/main bedops 2.4.39+dfsg1-2 (tar) [13.4 MB] Get:3 http://debian.oregonstate.edu/debian unstable/main bedops 2.4.39+dfsg1-2 (diff) [11.1 kB] Fetched 13.5 MB in 0s (123 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/bedops-3HQgRP/bedops-2.4.39+dfsg1' with '<>' I: NOTICE: Log filtering will replace 'build/bedops-3HQgRP' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 12), help2man, libbz2-dev, libjansson-dev, python3-distutils, zlib1g-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf Filtered Build-Depends: debhelper-compat (= 12), help2man, libbz2-dev, libjansson-dev, python3-distutils, zlib1g-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [440 B] Get:5 copy:/<>/apt_archive ./ Packages [531 B] Fetched 1928 B in 0s (81.2 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdextrautils build-essential cpp-10-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dpkg-dev dwz file g++ g++-10 g++-10-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-arm-linux-gnueabihf gcc-10-arm-linux-gnueabihf-base gcc-10-base:armhf gcc-10-cross-base gcc-9-base:armhf gcc-arm-linux-gnueabihf gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libasan5:armhf libasan6-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbz2-1.0:armhf libbz2-dev:armhf libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf libc6-dev-armhf-cross libcom-err2:armhf libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libdebhelper-perl libdebian-dpkgcross-perl libdpkg-perl libelf1 libexpat1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev-armhf-cross libgcc-9-dev:armhf libgcc-s1:armhf libgcc-s1-armhf-cross libgomp1:armhf libgomp1-armhf-cross libgssapi-krb5-2:armhf libicu67 libio-string-perl libjansson-dev:armhf libjansson4:armhf libk5crypto3:armhf libkeyutils1:armhf libkrb5-3:armhf libkrb5support0:armhf liblocale-gettext-perl libmagic-mgc libmagic1 libmpdec3 libnsl-dev libnsl-dev:armhf libnsl2:armhf libperl5.32 libpipeline1 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libreadline8 libsigsegv2 libsqlite3-0 libssl1.1:armhf libstdc++-10-dev libstdc++-10-dev-armhf-cross libstdc++-9-dev:armhf libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtirpc-dev libtirpc-dev:armhf libtirpc3:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 man-db media-types perl perl-modules-5.32 po-debconf python3 python3-distutils python3-lib2to3 python3-minimal python3.9 python3.9-minimal readline-common sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-10-locales cpp-doc dh-make binutils-multiarch debian-keyring g++-multilib g++-10-multilib gcc-10-doc manpages-dev flex bison gdb-arm-linux-gnueabihf gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:armhf libc-l10n:armhf locales:armhf glibc-doc manpages-dev:armhf gnupg git bzr krb5-doc:armhf krb5-user:armhf libstdc++-10-doc libstdc++-9-doc:armhf libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libtap-harness-archive-perl libmail-box-perl python3-doc python3-tk python3-venv python3.9-venv python3.9-doc binfmt-support readline-doc Recommended packages: gnupg libalgorithm-merge-perl curl | wget | lynx bzip2-doc:armhf libidn2-0:armhf libnss-nis:armhf libnss-nisplus:armhf libfile-fcntllock-perl libarchive-cpio-perl krb5-locales:armhf ca-certificates libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl netbase libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdextrautils build-essential cpp-10-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dpkg-dev dwz file g++ g++-10 g++-10-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-arm-linux-gnueabihf gcc-10-arm-linux-gnueabihf-base gcc-10-base:armhf gcc-10-cross-base gcc-9-base:armhf gcc-arm-linux-gnueabihf gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libasan5:armhf libasan6-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbz2-1.0:armhf libbz2-dev:armhf libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf libc6-dev-armhf-cross libcom-err2:armhf libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libdebhelper-perl libdebian-dpkgcross-perl libdpkg-perl libelf1 libexpat1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev-armhf-cross libgcc-9-dev:armhf libgcc-s1:armhf libgcc-s1-armhf-cross libgomp1:armhf libgomp1-armhf-cross libgssapi-krb5-2:armhf libicu67 libio-string-perl libjansson-dev:armhf libjansson4:armhf libk5crypto3:armhf libkeyutils1:armhf libkrb5-3:armhf libkrb5support0:armhf liblocale-gettext-perl libmagic-mgc libmagic1 libmpdec3 libnsl-dev libnsl-dev:armhf libnsl2:armhf libperl5.32 libpipeline1 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libreadline8 libsigsegv2 libsqlite3-0 libssl1.1:armhf libstdc++-10-dev libstdc++-10-dev-armhf-cross libstdc++-9-dev:armhf libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtirpc-dev libtirpc-dev:armhf libtirpc3:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 man-db media-types perl perl-modules-5.32 po-debconf python3 python3-distutils python3-lib2to3 python3-minimal python3.9 python3.9-minimal readline-common sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf 0 upgraded, 130 newly installed, 0 to remove and 0 not upgraded. Need to get 218 MB of archives. After this operation, 930 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [956 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 bsdextrautils amd64 2.36.1-7 [145 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 perl-modules-5.32 all 5.32.1-3 [2823 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libperl5.32 amd64 5.32.1-3 [4110 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 perl amd64 5.32.1-3 [293 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4+b1 [19.0 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 python3-minimal amd64 3.9.2-2 [38.2 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 media-types all 4.0.0 [30.3 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 readline-common all 8.1-1 [73.7 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.34.1-3 [797 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3-stdlib amd64 3.9.2-2 [21.3 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 python3 amd64 3.9.2-2 [37.8 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main armhf gcc-10-base armhf 10.2.1-6 [201 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main armhf gcc-9-base armhf 9.3.0-22 [198 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.39-3 [69.1 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.21-4 [175 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0043 [74.0 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-5 [204 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-14 [313 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.3-2 [814 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.21-4 [510 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.35.2-2 [2781 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.18-1 [104 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libtirpc-dev amd64 1.3.1-1 [190 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.31-9 [2346 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-10-dev amd64 10.2.1-6 [1741 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 g++-10 amd64 10.2.1-6 [9380 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:10.2.1-1 [1644 B] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libdpkg-perl all 1.20.7.1 [1537 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-dev all 1.20.7.1 [2149 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.9 [7704 B] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-arm-linux-gnueabihf-base amd64 10.2.1-6cross1 [202 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-10-arm-linux-gnueabihf amd64 10.2.1-6cross1 [44.1 MB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:10.2.1-1 [16.8 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.17 [31.4 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base all 10.2.1-6cross1 [197 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.31-9cross4 [1094 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-armhf-cross all 10.2.1-6cross1 [36.3 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 10.2.1-6cross1 [82.6 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 10.2.1-6cross1 [6688 B] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libasan6-armhf-cross all 10.2.1-6cross1 [2010 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 10.2.1-6cross1 [381 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 10.2.1-6cross1 [745 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-10-dev-armhf-cross all 10.2.1-6cross1 [694 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-arm-linux-gnueabihf amd64 10.2.1-6cross1 [50.4 MB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:10.2.1-1 [1468 B] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 5.10.13-1cross4 [1365 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.31-9cross4 [1845 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-10-dev-armhf-cross all 10.2.1-6cross1 [1760 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 g++-10-arm-linux-gnueabihf amd64 10.2.1-6cross1 [47.1 MB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:10.2.1-1 [1184 B] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libicu67 amd64 67.1-6 [8625 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-6.3+b1 [693 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1.1 [14.9 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1.1 [20.7 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2+b1 [337 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1.1 [19.0 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.17 [30.4 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.17 [41.4 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.9 [6708 B] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-15 [513 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.183-3 [165 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.14-1 [98.3 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.21-4 [1311 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13.3.4 [1049 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main amd64 help2man amd64 1.48.2 [190 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-s1 armhf 10.2.1-6 [36.2 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1 armhf 1:4.4.18-1 [95.0 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.31-9 [2328 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 9.3.0-22 [370 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 10.2.1-6 [6924 B] Get:104 http://debian.oregonstate.edu/debian unstable/main armhf libbz2-1.0 armhf 1.0.8-4 [44.6 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 5.10.19-1 [1259 kB] Get:106 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt-dev armhf 1:4.4.18-1 [113 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main armhf libcom-err2 armhf 1.46.2-1 [73.2 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main armhf libkrb5support0 armhf 1.18.3-4 [62.3 kB] Get:109 http://debian.oregonstate.edu/debian unstable/main armhf libk5crypto3 armhf 1.18.3-4 [110 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main armhf libkeyutils1 armhf 1.6.1-2 [14.4 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main armhf libssl1.1 armhf 1.1.1j-1 [1309 kB] Get:112 http://debian.oregonstate.edu/debian unstable/main armhf libkrb5-3 armhf 1.18.3-4 [319 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main armhf libgssapi-krb5-2 armhf 1.18.3-4 [143 kB] Get:114 http://debian.oregonstate.edu/debian unstable/main armhf libtirpc3 armhf 1.3.1-1 [72.1 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main armhf libnsl2 armhf 1.3.0-2 [33.9 kB] Get:116 http://debian.oregonstate.edu/debian unstable/main armhf libtirpc-dev armhf 1.3.1-1 [182 kB] Get:117 http://debian.oregonstate.edu/debian unstable/main armhf libnsl-dev armhf 1.3.0-2 [62.1 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.31-9 [1874 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main armhf libbz2-dev armhf 1.0.8-4 [29.2 kB] Get:120 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 10.2.1-6 [84.7 kB] Get:121 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 10.2.1-6 [421 kB] Get:122 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 10.2.1-6 [746 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-9-dev armhf 9.3.0-22 [663 kB] Get:124 http://debian.oregonstate.edu/debian unstable/main armhf libjansson4 armhf 2.13.1-1.1 [35.9 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main armhf libjansson-dev armhf 2.13.1-1.1 [39.0 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-9-dev armhf 9.3.0-22 [1762 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main amd64 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main amd64 python3-distutils all 3.9.2-1 [143 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-2 [85.4 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 218 MB in 2s (127 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 10482 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-7_amd64.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_amd64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../03-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package perl-modules-5.32. Preparing to unpack .../05-perl-modules-5.32_5.32.1-3_all.deb ... Unpacking perl-modules-5.32 (5.32.1-3) ... Selecting previously unselected package libperl5.32:amd64. Preparing to unpack .../06-libperl5.32_5.32.1-3_amd64.deb ... Unpacking libperl5.32:amd64 (5.32.1-3) ... Selecting previously unselected package perl. Preparing to unpack .../07-perl_5.32.1-3_amd64.deb ... Unpacking perl (5.32.1-3) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../08-liblocale-gettext-perl_1.07-4+b1_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-4+b1) ... Selecting previously unselected package libpython3.9-minimal:amd64. Preparing to unpack .../09-libpython3.9-minimal_3.9.2-1_amd64.deb ... Unpacking libpython3.9-minimal:amd64 (3.9.2-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../10-libexpat1_2.2.10-2_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../11-python3.9-minimal_3.9.2-1_amd64.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:amd64 (3.9.2-1) ... Setting up libexpat1:amd64 (2.2.10-2) ... Setting up python3.9-minimal (3.9.2-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 13318 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-2_amd64.deb ... Unpacking python3-minimal (3.9.2-2) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package libmpdec3:amd64. Preparing to unpack .../2-libmpdec3_2.5.1-1_amd64.deb ... Unpacking libmpdec3:amd64 (2.5.1-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../3-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../4-libreadline8_8.1-1_amd64.deb ... Unpacking libreadline8:amd64 (8.1-1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../5-libsqlite3-0_3.34.1-3_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.34.1-3) ... Selecting previously unselected package libpython3.9-stdlib:amd64. Preparing to unpack .../6-libpython3.9-stdlib_3.9.2-1_amd64.deb ... Unpacking libpython3.9-stdlib:amd64 (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../7-python3.9_3.9.2-1_amd64.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../8-libpython3-stdlib_3.9.2-2_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.9.2-2) ... Setting up python3-minimal (3.9.2-2) ... Selecting previously unselected package python3. (Reading database ... 13747 files and directories currently installed.) Preparing to unpack .../000-python3_3.9.2-2_amd64.deb ... Unpacking python3 (3.9.2-2) ... Selecting previously unselected package gcc-10-base:armhf. Preparing to unpack .../001-gcc-10-base_10.2.1-6_armhf.deb ... Unpacking gcc-10-base:armhf (10.2.1-6) ... Selecting previously unselected package gcc-9-base:armhf. Preparing to unpack .../002-gcc-9-base_9.3.0-22_armhf.deb ... Unpacking gcc-9-base:armhf (9.3.0-22) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.39-3_amd64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../005-libmagic1_1%3a5.39-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.39-3_amd64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.21-4_amd64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package ucf. Preparing to unpack .../008-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../009-libsigsegv2_2.13-1_amd64.deb ... Unpacking libsigsegv2:amd64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../010-m4_1.4.18-5_amd64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../011-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../012-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../013-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../014-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package binutils-arm-linux-gnueabihf. Preparing to unpack .../015-binutils-arm-linux-gnueabihf_2.35.2-2_amd64.deb ... Unpacking binutils-arm-linux-gnueabihf (2.35.2-2) ... Selecting previously unselected package libcrypt-dev:amd64. Preparing to unpack .../016-libcrypt-dev_1%3a4.4.18-1_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.18-1) ... Selecting previously unselected package libtirpc-dev:amd64. Preparing to unpack .../017-libtirpc-dev_1.3.1-1_amd64.deb ... Unpacking libtirpc-dev:amd64 (1.3.1-1) ... Selecting previously unselected package libnsl-dev:amd64. Preparing to unpack .../018-libnsl-dev_1.3.0-2_amd64.deb ... Unpacking libnsl-dev:amd64 (1.3.0-2) ... Selecting previously unselected package libc6-dev:amd64. Preparing to unpack .../019-libc6-dev_2.31-9_amd64.deb ... Unpacking libc6-dev:amd64 (2.31-9) ... Selecting previously unselected package libstdc++-10-dev:amd64. Preparing to unpack .../020-libstdc++-10-dev_10.2.1-6_amd64.deb ... Unpacking libstdc++-10-dev:amd64 (10.2.1-6) ... Selecting previously unselected package g++-10. Preparing to unpack .../021-g++-10_10.2.1-6_amd64.deb ... Unpacking g++-10 (10.2.1-6) ... Selecting previously unselected package g++. Preparing to unpack .../022-g++_4%3a10.2.1-1_amd64.deb ... Unpacking g++ (4:10.2.1-1) ... Selecting previously unselected package libdpkg-perl. Preparing to unpack .../023-libdpkg-perl_1.20.7.1_all.deb ... Unpacking libdpkg-perl (1.20.7.1) ... Selecting previously unselected package dpkg-dev. Preparing to unpack .../024-dpkg-dev_1.20.7.1_all.deb ... Unpacking dpkg-dev (1.20.7.1) ... Selecting previously unselected package build-essential. Preparing to unpack .../025-build-essential_12.9_amd64.deb ... Unpacking build-essential (12.9) ... Selecting previously unselected package gcc-10-arm-linux-gnueabihf-base:amd64. Preparing to unpack .../026-gcc-10-arm-linux-gnueabihf-base_10.2.1-6cross1_amd64.deb ... Unpacking gcc-10-arm-linux-gnueabihf-base:amd64 (10.2.1-6cross1) ... Selecting previously unselected package cpp-10-arm-linux-gnueabihf. Preparing to unpack .../027-cpp-10-arm-linux-gnueabihf_10.2.1-6cross1_amd64.deb ... Unpacking cpp-10-arm-linux-gnueabihf (10.2.1-6cross1) ... Selecting previously unselected package cpp-arm-linux-gnueabihf. Preparing to unpack .../028-cpp-arm-linux-gnueabihf_4%3a10.2.1-1_amd64.deb ... Unpacking cpp-arm-linux-gnueabihf (4:10.2.1-1) ... Selecting previously unselected package cross-config. Preparing to unpack .../029-cross-config_2.6.17_all.deb ... Unpacking cross-config (2.6.17) ... Selecting previously unselected package gcc-10-cross-base. Preparing to unpack .../030-gcc-10-cross-base_10.2.1-6cross1_all.deb ... Unpacking gcc-10-cross-base (10.2.1-6cross1) ... Selecting previously unselected package libc6-armhf-cross. Preparing to unpack .../031-libc6-armhf-cross_2.31-9cross4_all.deb ... Unpacking libc6-armhf-cross (2.31-9cross4) ... Selecting previously unselected package libgcc-s1-armhf-cross. Preparing to unpack .../032-libgcc-s1-armhf-cross_10.2.1-6cross1_all.deb ... Unpacking libgcc-s1-armhf-cross (10.2.1-6cross1) ... Selecting previously unselected package libgomp1-armhf-cross. Preparing to unpack .../033-libgomp1-armhf-cross_10.2.1-6cross1_all.deb ... Unpacking libgomp1-armhf-cross (10.2.1-6cross1) ... Selecting previously unselected package libatomic1-armhf-cross. Preparing to unpack .../034-libatomic1-armhf-cross_10.2.1-6cross1_all.deb ... Unpacking libatomic1-armhf-cross (10.2.1-6cross1) ... Selecting previously unselected package libasan6-armhf-cross. Preparing to unpack .../035-libasan6-armhf-cross_10.2.1-6cross1_all.deb ... Unpacking libasan6-armhf-cross (10.2.1-6cross1) ... Selecting previously unselected package libstdc++6-armhf-cross. Preparing to unpack .../036-libstdc++6-armhf-cross_10.2.1-6cross1_all.deb ... Unpacking libstdc++6-armhf-cross (10.2.1-6cross1) ... Selecting previously unselected package libubsan1-armhf-cross. Preparing to unpack .../037-libubsan1-armhf-cross_10.2.1-6cross1_all.deb ... Unpacking libubsan1-armhf-cross (10.2.1-6cross1) ... Selecting previously unselected package libgcc-10-dev-armhf-cross. Preparing to unpack .../038-libgcc-10-dev-armhf-cross_10.2.1-6cross1_all.deb ... Unpacking libgcc-10-dev-armhf-cross (10.2.1-6cross1) ... Selecting previously unselected package gcc-10-arm-linux-gnueabihf. Preparing to unpack .../039-gcc-10-arm-linux-gnueabihf_10.2.1-6cross1_amd64.deb ... Unpacking gcc-10-arm-linux-gnueabihf (10.2.1-6cross1) ... Selecting previously unselected package gcc-arm-linux-gnueabihf. Preparing to unpack .../040-gcc-arm-linux-gnueabihf_4%3a10.2.1-1_amd64.deb ... Unpacking gcc-arm-linux-gnueabihf (4:10.2.1-1) ... Selecting previously unselected package linux-libc-dev-armhf-cross. Preparing to unpack .../041-linux-libc-dev-armhf-cross_5.10.13-1cross4_all.deb ... Unpacking linux-libc-dev-armhf-cross (5.10.13-1cross4) ... Selecting previously unselected package libc6-dev-armhf-cross. Preparing to unpack .../042-libc6-dev-armhf-cross_2.31-9cross4_all.deb ... Unpacking libc6-dev-armhf-cross (2.31-9cross4) ... Selecting previously unselected package libstdc++-10-dev-armhf-cross. Preparing to unpack .../043-libstdc++-10-dev-armhf-cross_10.2.1-6cross1_all.deb ... Unpacking libstdc++-10-dev-armhf-cross (10.2.1-6cross1) ... Selecting previously unselected package g++-10-arm-linux-gnueabihf. Preparing to unpack .../044-g++-10-arm-linux-gnueabihf_10.2.1-6cross1_amd64.deb ... Unpacking g++-10-arm-linux-gnueabihf (10.2.1-6cross1) ... Selecting previously unselected package g++-arm-linux-gnueabihf. Preparing to unpack .../045-g++-arm-linux-gnueabihf_4%3a10.2.1-1_amd64.deb ... Unpacking g++-arm-linux-gnueabihf (4:10.2.1-1) ... Selecting previously unselected package libconfig-inifiles-perl. Preparing to unpack .../046-libconfig-inifiles-perl_3.000003-1_all.deb ... Unpacking libconfig-inifiles-perl (3.000003-1) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../047-libio-string-perl_1.08-3.1_all.deb ... Unpacking libio-string-perl (1.08-3.1) ... Selecting previously unselected package libicu67:amd64. Preparing to unpack .../048-libicu67_67.1-6_amd64.deb ... Unpacking libicu67:amd64 (67.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../049-libxml2_2.9.10+dfsg-6.3+b1_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-6.3+b1) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../050-libxml-namespacesupport-perl_1.12-1.1_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-1.1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../051-libxml-sax-base-perl_1.09-1.1_all.deb ... Unpacking libxml-sax-base-perl (1.09-1.1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../052-libxml-sax-perl_1.02+dfsg-1_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../053-libxml-libxml-perl_2.0134+dfsg-2+b1_amd64.deb ... Unpacking libxml-libxml-perl (2.0134+dfsg-2+b1) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../054-libxml-simple-perl_2.25-1_all.deb ... Unpacking libxml-simple-perl (2.25-1) ... Selecting previously unselected package libyaml-perl. Preparing to unpack .../055-libyaml-perl_1.30-1_all.deb ... Unpacking libyaml-perl (1.30-1) ... Selecting previously unselected package libconfig-auto-perl. Preparing to unpack .../056-libconfig-auto-perl_0.44-1.1_all.deb ... Unpacking libconfig-auto-perl (0.44-1.1) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../057-libfile-which-perl_1.23-1_all.deb ... Unpacking libfile-which-perl (1.23-1) ... Selecting previously unselected package libfile-homedir-perl. Preparing to unpack .../058-libfile-homedir-perl_1.006-1_all.deb ... Unpacking libfile-homedir-perl (1.006-1) ... Selecting previously unselected package libdebian-dpkgcross-perl. Preparing to unpack .../059-libdebian-dpkgcross-perl_2.6.17_all.deb ... Unpacking libdebian-dpkgcross-perl (2.6.17) ... Selecting previously unselected package dpkg-cross. Preparing to unpack .../060-dpkg-cross_2.6.17_all.deb ... Unpacking dpkg-cross (2.6.17) ... Selecting previously unselected package crossbuild-essential-armhf. Preparing to unpack .../061-crossbuild-essential-armhf_12.9_all.deb ... Unpacking crossbuild-essential-armhf (12.9) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../062-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../063-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../064-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../065-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../066-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../067-libfile-stripnondeterminism-perl_1.11.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.11.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../068-dh-strip-nondeterminism_1.11.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.11.0-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../069-libelf1_0.183-3_amd64.deb ... Unpacking libelf1:amd64 (0.183-3) ... Selecting previously unselected package dwz. Preparing to unpack .../070-dwz_0.14-1_amd64.deb ... Unpacking dwz (0.14-1) ... Selecting previously unselected package gettext. Preparing to unpack .../071-gettext_0.21-4_amd64.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../072-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../073-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../074-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package help2man. Preparing to unpack .../075-help2man_1.48.2_amd64.deb ... Unpacking help2man (1.48.2) ... Selecting previously unselected package libgcc-s1:armhf. Preparing to unpack .../076-libgcc-s1_10.2.1-6_armhf.deb ... Unpacking libgcc-s1:armhf (10.2.1-6) ... Selecting previously unselected package libcrypt1:armhf. Preparing to unpack .../077-libcrypt1_1%3a4.4.18-1_armhf.deb ... Unpacking libcrypt1:armhf (1:4.4.18-1) ... Selecting previously unselected package libc6:armhf. Preparing to unpack .../078-libc6_2.31-9_armhf.deb ... Unpacking libc6:armhf (2.31-9) ... Selecting previously unselected package libasan5:armhf. Preparing to unpack .../079-libasan5_9.3.0-22_armhf.deb ... Unpacking libasan5:armhf (9.3.0-22) ... Selecting previously unselected package libatomic1:armhf. Preparing to unpack .../080-libatomic1_10.2.1-6_armhf.deb ... Unpacking libatomic1:armhf (10.2.1-6) ... Selecting previously unselected package libbz2-1.0:armhf. Preparing to unpack .../081-libbz2-1.0_1.0.8-4_armhf.deb ... Unpacking libbz2-1.0:armhf (1.0.8-4) ... Selecting previously unselected package linux-libc-dev:armhf. Preparing to unpack .../082-linux-libc-dev_5.10.19-1_armhf.deb ... Unpacking linux-libc-dev:armhf (5.10.19-1) ... Selecting previously unselected package libcrypt-dev:armhf. Preparing to unpack .../083-libcrypt-dev_1%3a4.4.18-1_armhf.deb ... Unpacking libcrypt-dev:armhf (1:4.4.18-1) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../084-libcom-err2_1.46.2-1_armhf.deb ... Unpacking libcom-err2:armhf (1.46.2-1) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../085-libkrb5support0_1.18.3-4_armhf.deb ... Unpacking libkrb5support0:armhf (1.18.3-4) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../086-libk5crypto3_1.18.3-4_armhf.deb ... Unpacking libk5crypto3:armhf (1.18.3-4) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../087-libkeyutils1_1.6.1-2_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.1-2) ... Selecting previously unselected package libssl1.1:armhf. Preparing to unpack .../088-libssl1.1_1.1.1j-1_armhf.deb ... Unpacking libssl1.1:armhf (1.1.1j-1) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../089-libkrb5-3_1.18.3-4_armhf.deb ... Unpacking libkrb5-3:armhf (1.18.3-4) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../090-libgssapi-krb5-2_1.18.3-4_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.18.3-4) ... Selecting previously unselected package libtirpc3:armhf. Preparing to unpack .../091-libtirpc3_1.3.1-1_armhf.deb ... Unpacking libtirpc3:armhf (1.3.1-1) ... Selecting previously unselected package libnsl2:armhf. Preparing to unpack .../092-libnsl2_1.3.0-2_armhf.deb ... Unpacking libnsl2:armhf (1.3.0-2) ... Selecting previously unselected package libtirpc-dev:armhf. Preparing to unpack .../093-libtirpc-dev_1.3.1-1_armhf.deb ... Unpacking libtirpc-dev:armhf (1.3.1-1) ... Selecting previously unselected package libnsl-dev:armhf. Preparing to unpack .../094-libnsl-dev_1.3.0-2_armhf.deb ... Unpacking libnsl-dev:armhf (1.3.0-2) ... Selecting previously unselected package libc6-dev:armhf. Preparing to unpack .../095-libc6-dev_2.31-9_armhf.deb ... Unpacking libc6-dev:armhf (2.31-9) ... Selecting previously unselected package libbz2-dev:armhf. Preparing to unpack .../096-libbz2-dev_1.0.8-4_armhf.deb ... Unpacking libbz2-dev:armhf (1.0.8-4) ... Selecting previously unselected package libgomp1:armhf. Preparing to unpack .../097-libgomp1_10.2.1-6_armhf.deb ... Unpacking libgomp1:armhf (10.2.1-6) ... Selecting previously unselected package libstdc++6:armhf. Preparing to unpack .../098-libstdc++6_10.2.1-6_armhf.deb ... Unpacking libstdc++6:armhf (10.2.1-6) ... Selecting previously unselected package libubsan1:armhf. Preparing to unpack .../099-libubsan1_10.2.1-6_armhf.deb ... Unpacking libubsan1:armhf (10.2.1-6) ... Selecting previously unselected package libgcc-9-dev:armhf. Preparing to unpack .../100-libgcc-9-dev_9.3.0-22_armhf.deb ... Unpacking libgcc-9-dev:armhf (9.3.0-22) ... Selecting previously unselected package libjansson4:armhf. Preparing to unpack .../101-libjansson4_2.13.1-1.1_armhf.deb ... Unpacking libjansson4:armhf (2.13.1-1.1) ... Selecting previously unselected package libjansson-dev:armhf. Preparing to unpack .../102-libjansson-dev_2.13.1-1.1_armhf.deb ... Unpacking libjansson-dev:armhf (2.13.1-1.1) ... Selecting previously unselected package libstdc++-9-dev:armhf. Preparing to unpack .../103-libstdc++-9-dev_9.3.0-22_armhf.deb ... Unpacking libstdc++-9-dev:armhf (9.3.0-22) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../104-python3-lib2to3_3.9.2-1_all.deb ... Unpacking python3-lib2to3 (3.9.2-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../105-python3-distutils_3.9.2-1_all.deb ... Unpacking python3-distutils (3.9.2-1) ... Selecting previously unselected package zlib1g:armhf. Preparing to unpack .../106-zlib1g_1%3a1.2.11.dfsg-2_armhf.deb ... Unpacking zlib1g:armhf (1:1.2.11.dfsg-2) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../107-zlib1g-dev_1%3a1.2.11.dfsg-2_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Selecting previously unselected package sbuild-build-depends-main-dummy:armhf. Preparing to unpack .../108-sbuild-build-depends-main-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000003-1) ... Setting up media-types (4.0.0) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up libc6-armhf-cross (2.31-9cross4) ... Setting up bsdextrautils (2.36.1-7) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-6) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up perl-modules-5.32 (5.32.1-3) ... Setting up libsqlite3-0:amd64 (3.34.1-3) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up linux-libc-dev:armhf (5.10.19-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up gcc-10-base:armhf (10.2.1-6) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up cross-config (2.6.17) ... Setting up libtirpc-dev:amd64 (1.3.1-1) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up linux-libc-dev-armhf-cross (5.10.13-1cross4) ... Setting up autopoint (0.21-4) ... Setting up libperl5.32:amd64 (5.32.1-3) ... Setting up gcc-10-cross-base (10.2.1-6cross1) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up sensible-utils (0.0.14) ... Setting up libcrypt-dev:amd64 (1:4.4.18-1) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up libc6-dev:amd64 (2.31-9) ... Setting up binutils-arm-linux-gnueabihf (2.35.2-2) ... Setting up libelf1:amd64 (0.183-3) ... Setting up readline-common (8.1-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.3+b1) ... Setting up liblocale-gettext-perl (1.07-4+b1) ... Setting up gcc-10-arm-linux-gnueabihf-base:amd64 (10.2.1-6cross1) ... Setting up gcc-9-base:armhf (9.3.0-22) ... Setting up libgomp1-armhf-cross (10.2.1-6cross1) ... Setting up gettext (0.21-4) ... Setting up libstdc++-10-dev:amd64 (10.2.1-6) ... Setting up g++-10 (10.2.1-6) ... Setting up libtool (2.4.6-15) ... Setting up libgcc-s1-armhf-cross (10.2.1-6cross1) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up libc6-dev-armhf-cross (2.31-9cross4) ... Setting up m4 (1.4.18-5) ... Setting up libatomic1-armhf-cross (10.2.1-6cross1) ... Setting up perl (5.32.1-3) ... Setting up libstdc++6-armhf-cross (10.2.1-6cross1) ... Setting up libasan6-armhf-cross (10.2.1-6cross1) ... Setting up cpp-10-arm-linux-gnueabihf (10.2.1-6cross1) ... Setting up libubsan1-armhf-cross (10.2.1-6cross1) ... Setting up ucf (3.0043) ... Setting up libdpkg-perl (1.20.7.1) ... Setting up autoconf (2.69-14) ... Setting up g++ (4:10.2.1-1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up dwz (0.14-1) ... Setting up groff-base (1.22.4-6) ... Setting up libsub-override-perl (0.09-2) ... Setting up libgcc-10-dev-armhf-cross (10.2.1-6cross1) ... Setting up cpp-arm-linux-gnueabihf (4:10.2.1-1) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-2) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-which-perl (1.23-1) ... Setting up gcc-10-arm-linux-gnueabihf (10.2.1-6cross1) ... Setting up libstdc++-10-dev-armhf-cross (10.2.1-6cross1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libxml-namespacesupport-perl (1.12-1.1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libyaml-perl (1.30-1) ... Setting up dpkg-dev (1.20.7.1) ... Setting up g++-10-arm-linux-gnueabihf (10.2.1-6cross1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up help2man (1.48.2) ... Setting up dh-autoreconf (20) ... Setting up libxml-sax-base-perl (1.09-1.1) ... Setting up libio-string-perl (1.08-3.1) ... Setting up build-essential (12.9) ... Setting up libfile-homedir-perl (1.006-1) ... Setting up python3.9 (3.9.2-1) ... Setting up gcc-arm-linux-gnueabihf (4:10.2.1-1) ... Setting up libfile-stripnondeterminism-perl (1.11.0-1) ... Setting up g++-arm-linux-gnueabihf (4:10.2.1-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.9.2-2) ... Setting up libxml-sax-perl (1.02+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libxml-libxml-perl (2.0134+dfsg-2+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up dh-strip-nondeterminism (1.11.0-1) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-distutils (3.9.2-1) ... Setting up debhelper (13.3.4) ... Setting up libxml-simple-perl (2.25-1) ... Setting up libconfig-auto-perl (0.44-1.1) ... Setting up libdebian-dpkgcross-perl (2.6.17) ... Setting up dpkg-cross (2.6.17) ... Setting up crossbuild-essential-armhf (12.9) ... Setting up libcrypt1:armhf (1:4.4.18-1) ... Setting up libgcc-s1:armhf (10.2.1-6) ... Setting up libc6:armhf (2.31-9) ... Setting up libcrypt-dev:armhf (1:4.4.18-1) ... Setting up libbz2-1.0:armhf (1.0.8-4) ... Setting up libstdc++6:armhf (10.2.1-6) ... Setting up libkeyutils1:armhf (1.6.1-2) ... Setting up libssl1.1:armhf (1.1.1j-1) ... Setting up zlib1g:armhf (1:1.2.11.dfsg-2) ... Setting up libcom-err2:armhf (1.46.2-1) ... Setting up libgomp1:armhf (10.2.1-6) ... Setting up libjansson4:armhf (2.13.1-1.1) ... Setting up libkrb5support0:armhf (1.18.3-4) ... Setting up libasan5:armhf (9.3.0-22) ... Setting up libatomic1:armhf (10.2.1-6) ... Setting up libk5crypto3:armhf (1.18.3-4) ... Setting up libubsan1:armhf (10.2.1-6) ... Setting up libkrb5-3:armhf (1.18.3-4) ... Setting up libjansson-dev:armhf (2.13.1-1.1) ... Setting up libgcc-9-dev:armhf (9.3.0-22) ... Setting up libgssapi-krb5-2:armhf (1.18.3-4) ... Setting up libtirpc3:armhf (1.3.1-1) ... Setting up libtirpc-dev:armhf (1.3.1-1) ... Setting up libnsl2:armhf (1.3.0-2) ... Setting up libnsl-dev:armhf (1.3.0-2) ... Setting up libc6-dev:armhf (2.31-9) ... Setting up libbz2-dev:armhf (1.0.8-4) ... Setting up libstdc++-9-dev:armhf (9.3.0-22) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.31-9) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-14-amd64 #1 SMP Debian 4.19.171-2 (2021-01-30) amd64 (x86_64) Toolchain package versions: binutils_2.35.2-2 dpkg-dev_1.20.7.1 g++-10_10.2.1-6 gcc-10_10.2.1-6 libc6-dev_2.31-9 libstdc++-10-dev_10.2.1-6 libstdc++-10-dev-armhf-cross_10.2.1-6cross1 libstdc++-9-dev_9.3.0-22 libstdc++6_10.2.1-6 libstdc++6-armhf-cross_10.2.1-6cross1 linux-libc-dev_5.10.19-1 Package versions: adduser_3.118 apt_2.2.2 autoconf_2.69-14 automake_1:1.16.3-2 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_11 base-passwd_3.5.49 bash_5.1-2+b1 binutils_2.35.2-2 binutils-arm-linux-gnueabihf_2.35.2-2 binutils-common_2.35.2-2 binutils-x86-64-linux-gnu_2.35.2-2 bsdextrautils_2.36.1-7 bsdutils_1:2.36.1-7 build-essential_12.9 bzip2_1.0.8-4 coreutils_8.32-4+b1 cpp_4:10.2.1-1 cpp-10_10.2.1-6 cpp-10-arm-linux-gnueabihf_10.2.1-6cross1 cpp-8_8.4.0-7 cpp-arm-linux-gnueabihf_4:10.2.1-1 cross-config_2.6.17 crossbuild-essential-armhf_12.9 dash_0.5.11+git20210120+802ebd4-1 debconf_1.5.75 debhelper_13.3.4 debian-archive-keyring_2021.1.1 debianutils_4.11.2 dh-autoreconf_20 dh-strip-nondeterminism_1.11.0-1 diffutils_1:3.7-5 dpkg_1.20.7.1 dpkg-cross_2.6.17 dpkg-dev_1.20.7.1 dwz_0.14-1 e2fsprogs_1.46.2-1 fakeroot_1.25.3-1.1 fdisk_2.36.1-7 file_1:5.39-3 findutils_4.8.0-1 g++_4:10.2.1-1 g++-10_10.2.1-6 g++-10-arm-linux-gnueabihf_10.2.1-6cross1 g++-arm-linux-gnueabihf_4:10.2.1-1 gcc_4:10.2.1-1 gcc-10_10.2.1-6 gcc-10-arm-linux-gnueabihf_10.2.1-6cross1 gcc-10-arm-linux-gnueabihf-base_10.2.1-6cross1 gcc-10-base_10.2.1-6 gcc-10-cross-base_10.2.1-6cross1 gcc-8-base_8.4.0-7 gcc-9-base_9.3.0-22 gcc-arm-linux-gnueabihf_4:10.2.1-1 gettext_0.21-4 gettext-base_0.21-4 gpgv_2.2.27-1 grep_3.6-1 groff-base_1.22.4-6 gzip_1.10-4 help2man_1.48.2 hostname_3.23 init-system-helpers_1.60 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-10 libapt-pkg5.0_1.8.4 libapt-pkg6.0_2.2.2 libarchive-zip-perl_1.68-1 libasan5_9.3.0-22 libasan6_10.2.1-6 libasan6-armhf-cross_10.2.1-6cross1 libatomic1_10.2.1-6 libatomic1-armhf-cross_10.2.1-6cross1 libattr1_1:2.4.48-6 libaudit-common_1:3.0-2 libaudit1_1:3.0-2 libbinutils_2.35.2-2 libblkid1_2.36.1-7 libbz2-1.0_1.0.8-4 libbz2-dev_1.0.8-4 libc-bin_2.31-9 libc-dev-bin_2.31-9 libc6_2.31-9 libc6-armhf-cross_2.31-9cross4 libc6-dev_2.31-9 libc6-dev-armhf-cross_2.31-9cross4 libcap-ng0_0.7.9-2.2+b1 libcc1-0_10.2.1-6 libcom-err2_1.46.2-1 libconfig-auto-perl_0.44-1.1 libconfig-inifiles-perl_3.000003-1 libcrypt-dev_1:4.4.18-1 libcrypt1_1:4.4.18-1 libctf-nobfd0_2.35.2-2 libctf0_2.35.2-2 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.256 libdebhelper-perl_13.3.4 libdebian-dpkgcross-perl_2.6.17 libdpkg-perl_1.20.7.1 libelf1_0.183-3 libexpat1_2.2.10-2 libext2fs2_1.46.2-1 libfakeroot_1.25.3-1.1 libfdisk1_2.36.1-7 libffi6_3.2.1-9 libffi7_3.3-6 libfile-homedir-perl_1.006-1 libfile-stripnondeterminism-perl_1.11.0-1 libfile-which-perl_1.23-1 libgcc-10-dev_10.2.1-6 libgcc-10-dev-armhf-cross_10.2.1-6cross1 libgcc-9-dev_9.3.0-22 libgcc-s1_10.2.1-6 libgcc-s1-armhf-cross_10.2.1-6cross1 libgcrypt20_1.8.7-3 libgdbm-compat4_1.19-2 libgdbm6_1.19-2 libgmp10_2:6.2.1+dfsg-1 libgnutls30_3.7.1-1 libgomp1_10.2.1-6 libgomp1-armhf-cross_10.2.1-6cross1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.18.3-4 libhogweed4_3.5.1+really3.4.1-1 libhogweed6_3.7-2.1 libicu67_67.1-6 libidn2-0_2.3.0-5 libio-string-perl_1.08-3.1 libisl19_0.20-2 libisl23_0.23-1 libitm1_10.2.1-6 libjansson-dev_2.13.1-1.1 libjansson4_2.13.1-1.1 libk5crypto3_1.18.3-4 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-4 libkrb5support0_1.18.3-4 liblocale-gettext-perl_1.07-4+b1 liblsan0_10.2.1-6 liblz4-1_1.9.3-1 liblzma5_5.2.5-2 libmagic-mgc_1:5.39-3 libmagic1_1:5.39-3 libmount1_2.36.1-7 libmpc3_1.2.0-1 libmpdec3_2.5.1-1 libmpfr6_4.1.0-3 libmpx2_8.4.0-7 libncursesw6_6.2+20201114-2 libnettle6_3.5.1+really3.4.1-1 libnettle8_3.7-2.1 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.23.22-1 libpam-modules_1.4.0-6 libpam-modules-bin_1.4.0-6 libpam-runtime_1.4.0-6 libpam0g_1.4.0-6 libpcre2-8-0_10.36-2 libpcre3_2:8.39-13 libperl5.28_5.28.1-6 libperl5.32_5.32.1-3 libpipeline1_1.5.3-1 libpython3-stdlib_3.9.2-2 libpython3.9-minimal_3.9.2-1 libpython3.9-stdlib_3.9.2-1 libquadmath0_10.2.1-6 libreadline8_8.1-1 libseccomp2_2.5.1-1 libselinux1_3.1-3 libsemanage-common_3.1-1 libsemanage1_3.1-1+b2 libsepol1_3.1-1 libsigsegv2_2.13-1 libsmartcols1_2.36.1-7 libsqlite3-0_3.34.1-3 libss2_1.46.2-1 libssl1.1_1.1.1j-1 libstdc++-10-dev_10.2.1-6 libstdc++-10-dev-armhf-cross_10.2.1-6cross1 libstdc++-9-dev_9.3.0-22 libstdc++6_10.2.1-6 libstdc++6-armhf-cross_10.2.1-6cross1 libsub-override-perl_0.09-2 libsystemd0_247.3-3 libtasn1-6_4.16.0-2 libtinfo6_6.2+20201114-2 libtirpc-common_1.3.1-1 libtirpc-dev_1.3.1-1 libtirpc3_1.3.1-1 libtool_2.4.6-15 libtsan0_10.2.1-6 libubsan1_10.2.1-6 libubsan1-armhf-cross_10.2.1-6cross1 libuchardet0_0.0.7-1 libudev1_247.3-3 libunistring2_0.9.10-4 libuuid1_2.36.1-7 libxml-libxml-perl_2.0134+dfsg-2+b1 libxml-namespacesupport-perl_1.12-1.1 libxml-sax-base-perl_1.09-1.1 libxml-sax-perl_1.02+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.10+dfsg-6.3+b1 libxxhash0_0.8.0-2 libyaml-perl_1.30-1 libzstd1_1.4.8+dfsg-2.1 linux-libc-dev_5.10.19-1 linux-libc-dev-armhf-cross_5.10.13-1cross4 login_1:4.8.1-1 logsave_1.46.2-1 lsb-base_11.1.0 m4_1.4.18-5 make_4.3-4 man-db_2.9.4-2 mawk_1.3.4.20200120-2 media-types_4.0.0 mount_2.36.1-7 ncurses-base_6.2+20201114-2 ncurses-bin_6.2+20201114-2 passwd_1:4.8.1-1 patch_2.7.6-7 perl_5.32.1-3 perl-base_5.32.1-3 perl-modules-5.28_5.28.1-6 perl-modules-5.32_5.32.1-3 po-debconf_1.0.21+nmu1 python3_3.9.2-2 python3-distutils_3.9.2-1 python3-lib2to3_3.9.2-1 python3-minimal_3.9.2-2 python3.9_3.9.2-1 python3.9-minimal_3.9.2-1 readline-common_8.1-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.14 sysvinit-utils_2.96-6 tar_1.34+dfsg-1 tzdata_2021a-1 ucf_3.0043 util-linux_2.36.1-7 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: bedops Binary: bedops, bedops-doc Architecture: any all Version: 2.4.39+dfsg1-2 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou Homepage: https://github.com/bedops/bedops Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/bedops Vcs-Git: https://salsa.debian.org/med-team/bedops.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 12), help2man, libbz2-dev, libjansson-dev, python3-distutils, zlib1g-dev Build-Depends-Indep: sphinx-common, libjs-mathjax, python3-sphinx Package-List: bedops deb science optional arch=any bedops-doc deb doc optional arch=all Checksums-Sha1: 4d9474ee3486ac33679866b87651884b45d0ab91 13440720 bedops_2.4.39+dfsg1.orig.tar.xz 37fa86e7d27c344eee083190d132240709a5cd63 11072 bedops_2.4.39+dfsg1-2.debian.tar.xz Checksums-Sha256: 550fe1473e93f406b577b9cdf097fb919e32349741e03a2741563ef45946e788 13440720 bedops_2.4.39+dfsg1.orig.tar.xz 1501befb37a66ff2295884995200251bf88d9207df806147313bada8fa792872 11072 bedops_2.4.39+dfsg1-2.debian.tar.xz Files: a3df3c35bd857999eb0e5b68c4f8f078 13440720 bedops_2.4.39+dfsg1.orig.tar.xz 0136d1fbffd563982a994c0228d28641 11072 bedops_2.4.39+dfsg1-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmAvvlMRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFxBQ/+OkgTNAJavFJjPT/S3qb8osr+gNHT7M95 HMdtTsBy+mpZcLKNX0EE6ONfsr8b0ffJC5WBch0m+ubuZdD8UuLSxOxDXTQSQGYA tN2gafDCjq65+oU7sUu8+TmrES0N80EziMagvlUUdHS+7zdBX4SwSffrgnEIRugj dazcjGanpTj3xxBvii+YnigO34sqoYK8IcXaRCHlCArqivUO0Gjhkx9naVXGkDeM RHaBJ9JBrdSvQuagDrD9vMjZKXditghYwbyl9+zt5UyMo+DQRBStG+O+LaL9zDxf s0xTKcEuxF6tk4eC4d5swK+n+uAyenYBOcjZtIeN5VBTpHt4dgOVBn/TSSZM++3J ennSzMENfgr/4HvVTOiU0wAakBaCWDKy2zPTuAHAe/5hxlMn8SAYx2q/aq0NFQWo qW4zx9xnSl9+HTUQCnZ0TvMHswRnL0gaHi38bEf6so9qmNai4wdUSm/BgjNx3o28 ry2HU4Xca12GfmLJ073P9tiGmH0ndBVqdnRYk2kWvvyqGrLBSSUUridXBUxP/Uhm nXeJ4d6FEvIoZQnc2x/fQewOlRTMLESX4QbT2k2tQ64z7OZu4GldSg3Zaz2kgX+E PhI7yClVe2LuWR2FfhtI9IBJFYwRySHW9yvahTYU8hVNRuZDo1Xl5UcTfk+4JNRz Z6ys4aIDDKY= =FHKk -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.zmT1FlPI/trustedkeys.kbx': General error gpgv: Signature made Fri Feb 19 13:34:11 2021 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./bedops_2.4.39+dfsg1-2.dsc dpkg-source: info: extracting bedops in /<> dpkg-source: info: unpacking bedops_2.4.39+dfsg1.orig.tar.xz dpkg-source: info: unpacking bedops_2.4.39+dfsg1-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying tests_use_installed_binaries.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying use_debian_libs dpkg-source: info: applying hardening.patch dpkg-source: info: applying parallel.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.armhf DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-e3df5305-b42a-4dbf-9f75-cb829b009328 SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aarmhf -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package bedops dpkg-buildpackage: info: source version 2.4.39+dfsg1-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Juhani Numminen dpkg-architecture: warning: specified GNU system type arm-linux-gnueabihf does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean make -j1 clean make[2]: Entering directory '/<>' make clean -f system.mk/Makefile.linux make[3]: Entering directory '/<>' rm -rf bin rm -rf bin rm -rf bin rm -rf modules make -C applications/bed/bedmap/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/bedmap/src' rm -rf objects_typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/bedmap/src' make -C applications/bed/sort-bed/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/sort-bed/src' rm -rf objects-typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/sort-bed/src' make -C applications/bed/bedops/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/bedops/src' rm -rf objects_typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/bedops/src' make -C applications/bed/closestfeats/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/closestfeats/src' rm -rf objects_typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/closestfeats/src' make -C applications/bed/bedextract/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/bedextract/src' rm -rf objects_typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/bedextract/src' make -C applications/bed/starch/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/starch/src' rm -rf ../lib rm -f ../lib/libstarch_debug.a rm -f ../lib/libstarch_gprof.a rm -rf objects rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/starch/src' make -C applications/bed/conversion/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/conversion/src' rm -rf ../bin rm -rf objects rm -rf *.so *~ make[4]: Leaving directory '/<>/applications/bed/conversion/src' rm -rf third-party/bzip2-1.0.6 rm -f third-party/bzip2 rm -rf third-party/jansson-2.6 rm -f third-party/jansson rm -rf third-party/zlib-1.2.7 rm -f third-party/zlib rm -rf bin make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' rm -rf docs/_build/ make[1]: Leaving directory '/<>' dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a dh_auto_build -a make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=arm-linux-gnueabihf-pkg-config CXX=arm-linux-gnueabihf-g\+\+ CC=arm-linux-gnueabihf-gcc make[1]: Entering directory '/<>' make -f system.mk/Makefile.linux make[2]: Entering directory '/<>' #bzcat | tar -x -C third-party #cd third-party/jansson-2.6 && ./configure --prefix=/<>/third-party/jansson-2.6 && make && make install && cd /<> && rm -f jansson && ln -sf jansson-2.6 third-party/jansson #bzcat | tar -x -C third-party #cd third-party/bzip2-1.0.6 && make libbz2.a && cd /<> && rm -f bzip2 && ln -sf bzip2-1.0.6 third-party/bzip2 #bzcat | tar -x -C third-party #cd third-party/zlib-1.2.7 && ./configure --static && make && cd /<> && rm -f zlib && ln -sf zlib-1.2.7 third-party/zlib make build -f /<>/system.mk/Makefile.linux make[3]: Entering directory '/<>' make -C applications/bed/bedmap/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/bedmap/src' mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/measurement/NaN.cpp -o objects_typical/NaN.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchConstants.c -o objects_typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects_typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchHelpers.c -o objects_typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:359:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:359:87: note: length computed here 359 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:383:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:383:48: note: length computed here 383 | strncpy(*chr, s, strlen(s) + 1); | ~~~~~~^~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:485:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:485:77: note: length computed here 485 | strncpy(*remainder, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:923:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:923:97: note: length computed here 923 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:1411:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:1411:97: note: length computed here 1411 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2416:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2416:97: note: length computed here 2416 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:3695:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3695:97: note: length computed here 3695 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects_typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:57: note: length computed here 2228 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:65: note: length computed here 2244 | strncpy(recChromosome, recTokBuf, strlen(recTokBuf) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:59: note: length computed here 2256 | strncpy(recFilename, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:50: note: length computed here 1684 | strncpy(*note, streamNote, strlen(streamNote) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:52: note: length computed here 1667 | strncpy(*cTime, streamCTime, strlen(streamCTime) + 1); | ~~~~~~^~~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects_typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:83: note: length computed here 1651 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:75: note: length computed here 1678 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:75: note: length computed here 1667 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: note: length computed here 200 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: note: length computed here 2559 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects_typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p ../bin && arm-linux-gnueabihf-g++ -o ../bin/bedmap-typical -s -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security objects_typical/NaN.o objects_typical/starchConstants.o objects_typical/starchFileHelpers.o objects_typical/starchHelpers.o objects_typical/starchMetadataHelpers.o objects_typical/unstarchHelpers.o objects_typical/starchSha1Digest.o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers -Wl,-z,relro -Wl,-z,now -ljansson -lz -lbz2 Bedmap.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/10/algorithm:62, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:28, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator > >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:89: note: length computed here 551 | std::strncpy(_recChromosome, _recTokBuf, std::strlen(_recTokBuf) + 1); | ~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:78: note: length computed here 556 | std::strncpy(_recFilename, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘const char* starch::Starch::getCurrentChromosome()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘void starch::Starch::iterateArchiveMdIter()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::Starch::zReadLine()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentRemainder(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:24, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1810:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:61: note: length computed here 899 | strncpy(currentRemainder, _remainder, strlen(_remainder) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1452:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:31, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1472:37: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/algorithm:62, from ../../../../interfaces/general-headers/data/bed/BedDistances.hpp:28, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:27, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_algo.h: In function ‘void std::nth_element(_RAIter, _RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator > >]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_algo.h:4773:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 4773 | nth_element(_RandomAccessIterator __first, _RandomAccessIterator __nth, | ^~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_algo.h:4773:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_algo.h:4773:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/10/vector:72, from Bedmap.cpp:35: /usr/arm-linux-gnueabihf/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/algorithm/visitors/NumericalVisitors.hpp:32, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:34, from Bedmap.cpp:37: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::Visitor, true>, double, true>, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::Visitor, true>, double, true>, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::Visitor, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::Visitor, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, true>, double, true>, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp: In member function ‘void Visitors::MedianAbsoluteDeviation::DoneReference() [with Process = Visitors::BedHelpers::PrintScorePrecision; BaseVisitor = Visitors::BedBaseVisitor, Bed::NoPool::Bed5, true>, double, true> >; ExceptionType = Ext::Exception, 2>]’: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:99:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 99 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:102:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 102 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:107:25: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 107 | std::nth_element(vec.begin(), n, vec.end()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ rm -rf objects_typical make[4]: Leaving directory '/<>/applications/bed/bedmap/src' make -C applications/bed/sort-bed/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/sort-bed/src' mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchConstants.c -o objects-typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects-typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchHelpers.c -o objects-typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:359:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:359:87: note: length computed here 359 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:383:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:383:48: note: length computed here 383 | strncpy(*chr, s, strlen(s) + 1); | ~~~~~~^~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:485:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:485:77: note: length computed here 485 | strncpy(*remainder, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:923:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:923:97: note: length computed here 923 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:1411:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:1411:97: note: length computed here 1411 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2416:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2416:97: note: length computed here 2416 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:3695:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3695:97: note: length computed here 3695 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects-typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_JSONMetadataExists(FILE**, const char*)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1096:20: warning: comparison is always true due to limited range of data type [-Wtype-limits] 1096 | } while (currC != EOF); | ^ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1097:63: warning: comparison is always false due to limited range of data type [-Wtype-limits] 1097 | if ((nReadBytes == STARCH_LEGACY_METADATA_SIZE) || (currC == EOF)) { | ^ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1313:24: warning: comparison is always true due to limited range of data type [-Wtype-limits] 1313 | } while (currC != EOF); | ^ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:57: note: length computed here 2228 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:65: note: length computed here 2244 | strncpy(recChromosome, recTokBuf, strlen(recTokBuf) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:59: note: length computed here 2256 | strncpy(recFilename, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:50: note: length computed here 1684 | strncpy(*note, streamNote, strlen(streamNote) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:52: note: length computed here 1667 | strncpy(*cTime, streamCTime, strlen(streamCTime) + 1); | ~~~~~~^~~~~~~~~~~~~ mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects-typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘void starch::UNSTARCH_printMetadataSignature(const unsigned char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2276:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2276 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2278:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2278 | static_cast( mdSha1BufferLength )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2640:33: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2640 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2642:33: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2642 | static_cast( STARCH2_MD_FOOTER_SHA1_LENGTH )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:83: note: length computed here 1651 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:75: note: length computed here 1678 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:75: note: length computed here 1667 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: note: length computed here 200 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: note: length computed here 2559 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects-typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects-typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security SortDetails.cpp -o objects-typical/SortDetails.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from SortDetails.cpp:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘ChromBedData* initializeChromBedData(char*, double*)’ at SortDetails.cpp:250:12: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SortDetails.cpp: In function ‘ChromBedData* initializeChromBedData(char*, double*)’: SortDetails.cpp:249:25: note: length computed here 249 | chromBufLen = strlen(chromBuf); // we know >= 1 | ~~~~~~^~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from SortDetails.cpp:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void lexSortBedData(BedData*)’ at SortDetails.cpp:1343:20: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SortDetails.cpp: In function ‘void lexSortBedData(BedData*)’: SortDetails.cpp:1342:33: note: length computed here 1342 | chromBufLen = strlen(beds->chroms[i]->chromName); // we know >= 1 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security Sort.cpp -o objects-typical/Sort.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && arm-linux-gnueabihf-g++ -c -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security CheckSort.cpp -o objects-typical/CheckSort.o -iquote../../../../interfaces/general-headers In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::listJSONMetadata(FILE*, FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1226:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1226 | static_cast( getArchiveType() ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1230:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1230 | static_cast( getArchiveHeaderFlag() ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1231:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1231 | static_cast( getArchiveShowNewlineFlag() )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractAllData(const string&, FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:2003:51: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2003 | static_cast( getArchiveHeaderFlag() )) != 0 ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:2014:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2014 | static_cast( getArchiveHeaderFlag() )) != 0 ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp: In instantiation of ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’: CheckSort.cpp:51:28: required from here ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:268:12: warning: implicitly-declared ‘Bed::bed_check_iterator*, 16>::bed_check_iterator(const Bed::bed_check_iterator*, 16>&)’ is deprecated [-Wdeprecated-copy] 268 | auto __tmp = *this; | ^~~~~ ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:308:10: note: because ‘Bed::bed_check_iterator*, 16>’ has user-provided ‘bool Bed::bed_check_iterator::operator=(const Bed::bed_check_iterator&) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ 308 | bool operator=(const bed_check_iterator& b); | ^~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:295:14: warning: implicitly-declared ‘Bed::bed_check_iterator*, 16>::bed_check_iterator(const Bed::bed_check_iterator*, 16>&)’ is deprecated [-Wdeprecated-copy] 295 | return __tmp; | ^~~~~ ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:308:10: note: because ‘Bed::bed_check_iterator*, 16>’ has user-provided ‘bool Bed::bed_check_iterator::operator=(const Bed::bed_check_iterator&) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ 308 | bool operator=(const bed_check_iterator& b); | ^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:89: note: length computed here 551 | std::strncpy(_recChromosome, _recTokBuf, std::strlen(_recTokBuf) + 1); | ~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:78: note: length computed here 556 | std::strncpy(_recFilename, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::Starch::zReadLine()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1521:82: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1712:86: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1758:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1769:45: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1576:86: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1620:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1628:45: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentRemainder(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:24, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1810:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:61: note: length computed here 899 | strncpy(currentRemainder, _remainder, strlen(_remainder) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1452:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1472:37: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1507:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const string&, Ext::PooledMemory&, const string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:136:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In constructor ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const string&, Ext::PooledMemory&, const string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:27, from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:292:36, inlined from ‘int checkSort(const char**, unsigned int)’ at CheckSort.cpp:51:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In function ‘int checkSort(const char**, unsigned int)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ mkdir -p ../bin && arm-linux-gnueabihf-g++ -o ../bin/sort-bed-typical -s -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -iquote../../../../interfaces/general-headers -Wl,-z,relro -Wl,-z,now objects-typical/starchConstants.o objects-typical/starchFileHelpers.o objects-typical/starchHelpers.o objects-typical/starchMetadataHelpers.o objects-typical/unstarchHelpers.o objects-typical/starchSha1Digest.o objects-typical/starchBase64Coding.o objects-typical/SortDetails.o objects-typical/Sort.o objects-typical/CheckSort.o -ljansson -lz -lbz2 mkdir -p ../bin && cp update-sort-bed-slurm.py ../bin/update-sort-bed-slurm-typical mkdir -p ../bin && cp update-sort-bed-starch-slurm.py ../bin/update-sort-bed-starch-slurm-typical mkdir -p ../bin && cp update-sort-bed-migrate-candidates.py ../bin/update-sort-bed-migrate-candidates-typical rm -rf objects-typical make[4]: Leaving directory '/<>/applications/bed/sort-bed/src' make -C applications/bed/bedops/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/bedops/src' mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/measurement/NaN.cpp -o objects_typical/NaN.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchConstants.c -o objects_typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects_typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchHelpers.c -o objects_typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:359:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:359:87: note: length computed here 359 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:383:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:383:48: note: length computed here 383 | strncpy(*chr, s, strlen(s) + 1); | ~~~~~~^~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:485:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:485:77: note: length computed here 485 | strncpy(*remainder, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:923:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:923:97: note: length computed here 923 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:1411:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:1411:97: note: length computed here 1411 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2416:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2416:97: note: length computed here 2416 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:3695:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3695:97: note: length computed here 3695 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects_typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:57: note: length computed here 2228 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:65: note: length computed here 2244 | strncpy(recChromosome, recTokBuf, strlen(recTokBuf) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:59: note: length computed here 2256 | strncpy(recFilename, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:50: note: length computed here 1684 | strncpy(*note, streamNote, strlen(streamNote) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:52: note: length computed here 1667 | strncpy(*cTime, streamCTime, strlen(streamCTime) + 1); | ~~~~~~^~~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects_typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:83: note: length computed here 1651 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:75: note: length computed here 1678 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:75: note: length computed here 1667 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: note: length computed here 200 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: note: length computed here 2559 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects_typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p ../bin && arm-linux-gnueabihf-g++ -o ../bin/bedops-typical -s -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security objects_typical/NaN.o objects_typical/starchConstants.o objects_typical/starchFileHelpers.o objects_typical/starchHelpers.o objects_typical/starchMetadataHelpers.o objects_typical/unstarchHelpers.o objects_typical/starchSha1Digest.o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers -Wl,-z,relro -Wl,-z,now -ljansson -lz -lbz2 Bedops.cpp In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:89: note: length computed here 551 | std::strncpy(_recChromosome, _recTokBuf, std::strlen(_recTokBuf) + 1); | ~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:78: note: length computed here 556 | std::strncpy(_recFilename, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘const char* starch::Starch::getCurrentChromosome()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::Starch::zReadLine()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1769:45: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1628:45: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentRemainder(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:24, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1810:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:61: note: length computed here 899 | strncpy(currentRemainder, _remainder, strlen(_remainder) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1452:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1472:37: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1507:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::allocate_iterator_starch_bed& Bed::allocate_iterator_starch_bed::operator++() [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’ at ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:189:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In function ‘Bed::allocate_iterator_starch_bed& Bed::allocate_iterator_starch_bed::operator++() [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::allocate_iterator_starch_bed& Bed::allocate_iterator_starch_bed::operator++() [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’ at ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:189:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In function ‘Bed::allocate_iterator_starch_bed& Bed::allocate_iterator_starch_bed::operator++() [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::allocate_iterator_starch_bed& Bed::allocate_iterator_starch_bed::operator++() [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’ at ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:189:36, inlined from ‘BedOperations::BedPadReader::BedType* BedOperations::BedPadReader::ReadLine() [with IterType = Bed::allocate_iterator_starch_bed*, 512>]’ at BedPadReader.hpp:140:11: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘BedOperations::BedPadReader::BedType* BedOperations::BedPadReader::ReadLine() [with IterType = Bed::allocate_iterator_starch_bed*, 512>]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from Bedops.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::allocate_iterator_starch_bed& Bed::allocate_iterator_starch_bed::operator++() [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’ at ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:189:36, inlined from ‘BedOperations::BedPadReader::BedType* BedOperations::BedPadReader::ReadLine() [with IterType = Bed::allocate_iterator_starch_bed*, 512>]’ at BedPadReader.hpp:140:11: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘BedOperations::BedPadReader::BedType* BedOperations::BedPadReader::ReadLine() [with IterType = Bed::allocate_iterator_starch_bed*, 512>]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ rm -rf objects_typical make[4]: Leaving directory '/<>/applications/bed/bedops/src' make -C applications/bed/closestfeats/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/closestfeats/src' mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/measurement/NaN.cpp -o objects_typical/NaN.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchConstants.c -o objects_typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects_typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchHelpers.c -o objects_typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:359:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:359:87: note: length computed here 359 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:383:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:383:48: note: length computed here 383 | strncpy(*chr, s, strlen(s) + 1); | ~~~~~~^~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:485:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:485:77: note: length computed here 485 | strncpy(*remainder, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:923:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:923:97: note: length computed here 923 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:1411:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:1411:97: note: length computed here 1411 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2416:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2416:97: note: length computed here 2416 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:3695:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3695:97: note: length computed here 3695 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects_typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:57: note: length computed here 2228 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:65: note: length computed here 2244 | strncpy(recChromosome, recTokBuf, strlen(recTokBuf) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:59: note: length computed here 2256 | strncpy(recFilename, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:50: note: length computed here 1684 | strncpy(*note, streamNote, strlen(streamNote) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:52: note: length computed here 1667 | strncpy(*cTime, streamCTime, strlen(streamCTime) + 1); | ~~~~~~^~~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects_typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:83: note: length computed here 1651 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:75: note: length computed here 1678 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:75: note: length computed here 1667 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: note: length computed here 200 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: note: length computed here 2559 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects_typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p ../bin && arm-linux-gnueabihf-g++ -o ../bin/closest-features-typical -s -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security objects_typical/NaN.o objects_typical/starchConstants.o objects_typical/starchFileHelpers.o objects_typical/starchHelpers.o objects_typical/starchMetadataHelpers.o objects_typical/unstarchHelpers.o objects_typical/starchSha1Digest.o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers -Wl,-z,relro -Wl,-z,now -ljansson -lz -lbz2 ClosestFeature.cpp In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:89: note: length computed here 551 | std::strncpy(_recChromosome, _recTokBuf, std::strlen(_recTokBuf) + 1); | ~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:78: note: length computed here 556 | std::strncpy(_recFilename, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::Starch::zReadLine()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1521:82: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1712:86: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1758:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1769:45: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1576:86: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1620:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1628:45: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentRemainder(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:24, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1810:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:61: note: length computed here 899 | strncpy(currentRemainder, _remainder, strlen(_remainder) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1452:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1472:37: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1507:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const string&, Ext::PooledMemory&, const string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:136:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In constructor ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const string&, Ext::PooledMemory&, const string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:292:36, inlined from ‘FeatDist::BedReader::BedType* FeatDist::BedReader::ReadLine() [with IterType = Bed::bed_check_iterator*, 512>]’ at BedReader.hpp:78:19: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘FeatDist::BedReader::BedType* FeatDist::BedReader::ReadLine() [with IterType = Bed::bed_check_iterator*, 512>]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::allocate_iterator_starch_bed::allocate_iterator_starch_bed(Ext::FPWrap&, Ext::PooledMemory&, const string&) [with ErrorType = Ext::Exception, 0>; BedType = Bed::BasicCoords; unsigned int SZ = 512]’ at ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:117:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In constructor ‘Bed::allocate_iterator_starch_bed::allocate_iterator_starch_bed(Ext::FPWrap&, Ext::PooledMemory&, const string&) [with ErrorType = Ext::Exception, 0>; BedType = Bed::BasicCoords; unsigned int SZ = 512]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ClosestFeature.cpp:26: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::allocate_iterator_starch_bed Bed::allocate_iterator_starch_bed::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 512]’ at ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:207:36, inlined from ‘FeatDist::BedReader::BedType* FeatDist::BedReader::ReadLine() [with IterType = Bed::allocate_iterator_starch_bed*, 512>]’ at BedReader.hpp:78:19: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘FeatDist::BedReader::BedType* FeatDist::BedReader::ReadLine() [with IterType = Bed::allocate_iterator_starch_bed*, 512>]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ rm -rf objects_typical make[4]: Leaving directory '/<>/applications/bed/closestfeats/src' make -C applications/bed/bedextract/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/bedextract/src' mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/measurement/NaN.cpp -o objects_typical/NaN.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchConstants.c -o objects_typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects_typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchHelpers.c -o objects_typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:359:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:359:87: note: length computed here 359 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:383:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:383:48: note: length computed here 383 | strncpy(*chr, s, strlen(s) + 1); | ~~~~~~^~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:485:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:485:77: note: length computed here 485 | strncpy(*remainder, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:923:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:923:97: note: length computed here 923 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:1411:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:1411:97: note: length computed here 1411 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2416:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2416:97: note: length computed here 2416 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:3695:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3695:97: note: length computed here 3695 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects_typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:57: note: length computed here 2228 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:65: note: length computed here 2244 | strncpy(recChromosome, recTokBuf, strlen(recTokBuf) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:59: note: length computed here 2256 | strncpy(recFilename, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:50: note: length computed here 1684 | strncpy(*note, streamNote, strlen(streamNote) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:52: note: length computed here 1667 | strncpy(*cTime, streamCTime, strlen(streamCTime) + 1); | ~~~~~~^~~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects_typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:83: note: length computed here 1651 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:75: note: length computed here 1678 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:75: note: length computed here 1667 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: note: length computed here 200 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: note: length computed here 2559 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects_typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && arm-linux-gnueabihf-g++ -c -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p ../bin && arm-linux-gnueabihf-g++ -o ../bin/bedextract-typical -s -Wall -pedantic -O3 -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security objects_typical/NaN.o objects_typical/starchConstants.o objects_typical/starchFileHelpers.o objects_typical/starchHelpers.o objects_typical/starchMetadataHelpers.o objects_typical/unstarchHelpers.o objects_typical/starchSha1Digest.o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers -Wl,-z,relro -Wl,-z,now -ljansson -lz -lbz2 ExtractRows.cpp In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:551:89: note: length computed here 551 | std::strncpy(_recChromosome, _recTokBuf, std::strlen(_recTokBuf) + 1); | ~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:49: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:556:78: note: length computed here 556 | std::strncpy(_recFilename, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::Starch::zReadLine()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1521:82: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1712:86: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1758:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1769:45: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1576:86: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1620:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1628:45: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentRemainder(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:24, inlined from ‘int starch::Starch::extractLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1810:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:899:61: note: length computed here 899 | strncpy(currentRemainder, _remainder, strlen(_remainder) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1452:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘void starch::Starch::iterateArchiveMdIter()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:874:37, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1472:37: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘bool starch::Starch::extractBEDLine(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1507:22: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘bool starch::Starch::extractBEDLine(std::string&)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/map:60, from ExtractRows.cpp:33: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h: In member function ‘void std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_erase_aux(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator) [with _Key = Bed::BasicCoords; _Val = std::pair, long long int>; _KeyOfValue = std::_Select1st, long long int> >; _Compare = Bed::extract_details::CompBed >; _Alloc = std::allocator, long long int> >]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h:2524:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, long long int>, std::_Select1st, long long int> >, Bed::extract_details::CompBed >, std::allocator, long long int> > >::const_iterator’ changed in GCC 7.1 2524 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h:2524:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, long long int>, std::_Select1st, long long int> >, Bed::extract_details::CompBed >, std::allocator, long long int> > >::const_iterator’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h: In function ‘std::pair Bed::find_bed_range(FILE*, TargetIter, TargetIter, Op) [with TargetIter = __gnu_cxx::__normal_iterator**, std::vector*> >; Op = {anonymous}::Cache >]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h:1245:14: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, long long int>, std::_Select1st, long long int> >, Bed::extract_details::CompBed >, std::allocator, long long int> > >::const_iterator’ changed in GCC 7.1 1245 | _M_erase_aux(__first, __last); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h: In function ‘std::pair Bed::find_bed_range(FILE*, TargetIter, TargetIter, Op) [with TargetIter = __gnu_cxx::__normal_iterator**, std::vector*> >; Op = Visitors::BedHelpers::Println]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h:1245:14: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, long long int>, std::_Select1st, long long int> >, Bed::extract_details::CompBed >, std::allocator, long long int> > >::const_iterator’ changed in GCC 7.1 1245 | _M_erase_aux(__first, __last); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const string&, Ext::PooledMemory&, const string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:136:36: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In constructor ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const string&, Ext::PooledMemory&, const string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/map:60, from ExtractRows.cpp:33: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h:1245:14: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, long long int>, std::_Select1st, long long int> >, Bed::extract_details::CompBed >, std::allocator, long long int> > >::const_iterator’ changed in GCC 7.1 1245 | _M_erase_aux(__first, __last); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ExtractRows.cpp:27: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘void starch::Starch::setCurrentChromosome(char*)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:292:36, inlined from ‘std::pair Bed::find_bed_range(FILE*, TargetIter, TargetIter, Op) [with TargetIter = Bed::bed_check_iterator*, 16>; Op = Visitors::BedHelpers::Println]’ at ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:102:64: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In function ‘std::pair Bed::find_bed_range(FILE*, TargetIter, TargetIter, Op) [with TargetIter = Bed::bed_check_iterator*, 16>; Op = Visitors::BedHelpers::Println]’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/map:60, from ExtractRows.cpp:33: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h:1245:14: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, long long int>, std::_Select1st, long long int> >, Bed::extract_details::CompBed >, std::allocator, long long int> > >::const_iterator’ changed in GCC 7.1 1245 | _M_erase_aux(__first, __last); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ rm -rf objects_typical make[4]: Leaving directory '/<>/applications/bed/bedextract/src' make -C applications/bed/starch/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/starch/src' mkdir -p objects arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ../../../../interfaces/src/data/starch/starchConstants.c -o objects/starchConstants.o -iquote../../../../interfaces/general-headers -iquote../../../.. mkdir -p objects arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects/unstarchHelpers.o -iquote../../../../interfaces/general-headers -iquote../../../.. ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘void starch::UNSTARCH_printMetadataSignature(const unsigned char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2276:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2276 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2278:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2278 | static_cast( mdSha1BufferLength )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2640:33: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2640 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2642:33: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2642 | static_cast( STARCH2_MD_FOOTER_SHA1_LENGTH )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1651:83: note: length computed here 1651 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1678:75: note: length computed here 1678 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1667:75: note: length computed here 1667 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, starch::Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:200:32: note: length computed here 200 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/unstarchHelpers.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’ at ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, starch::CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2559:40: note: length computed here 2559 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ../../../../interfaces/src/data/starch/starchHelpers.c -o objects/starchHelpers.o -iquote../../../../interfaces/general-headers -iquote../../../.. ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:359:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:359:87: note: length computed here 359 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:383:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:383:48: note: length computed here 383 | strncpy(*chr, s, strlen(s) + 1); | ~~~~~~^~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:485:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokens(const char*, char, char**, int64_t*, int64_t*, char**, starch::BedLineType*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:485:77: note: length computed here 485 | strncpy(*remainder, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:923:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:923:97: note: length computed here 923 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:1411:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformHeaderlessInput(starch::Metadata**, const FILE*, starch::CompressionType, const char*, starch::Boolean, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:1411:97: note: length computed here 1411 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2416:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2416:97: note: length computed here 2416 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncat(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:136:34: warning: ‘char* __builtin___strncat_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 136 | return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’ at ../../../../interfaces/src/data/starch/starchHelpers.c:3695:28: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, starch::Metadata**, starch::CompressionType, const char*, const char*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3695:97: note: length computed here 3695 | strncpy(prevChromosome, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers -iquote../../../.. ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_JSONMetadataExists(FILE**, const char*)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1096:20: warning: comparison is always true due to limited range of data type [-Wtype-limits] 1096 | } while (currC != EOF); | ^ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1097:63: warning: comparison is always false due to limited range of data type [-Wtype-limits] 1097 | if ((nReadBytes == STARCH_LEGACY_METADATA_SIZE) || (currC == EOF)) { | ^ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1313:24: warning: comparison is always true due to limited range of data type [-Wtype-limits] 1313 | } while (currC != EOF); | ^ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(starch::Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, starch::Boolean, starch::Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2228:57: note: length computed here 2228 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2244:65: note: length computed here 2244 | strncpy(recChromosome, recTokBuf, strlen(recTokBuf) + 1); | ~~~~~~^~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:32: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, uint64_t*, starch::Boolean*, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2256:59: note: length computed here 2256 | strncpy(recFilename, token, strlen(token) + 1); | ~~~~~~^~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1684:50: note: length computed here 1684 | strncpy(*note, streamNote, strlen(streamNote) + 1); | ~~~~~~^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:30: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’ at ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:24: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readJSONMetadata(json_t**, FILE**, const char*, starch::Metadata**, starch::CompressionType*, starch::ArchiveVersion**, char**, char**, uint64_t*, starch::Boolean*, starch::Boolean, starch::Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:1667:52: note: length computed here 1667 | strncpy(*cTime, streamCTime, strlen(streamCTime) + 1); | ~~~~~~^~~~~~~~~~~~~ mkdir -p objects arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects/starchFileHelpers.o -iquote../../../../interfaces/general-headers -iquote../../../.. mkdir -p objects arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects/starchSha1Digest.o -iquote../../../../interfaces/general-headers -iquote../../../.. mkdir -p objects arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects/starchBase64Coding.o -iquote../../../../interfaces/general-headers -iquote../../../.. mkdir -p ../lib ar rcs ../lib/libstarch.a objects/starchConstants.o objects/unstarchHelpers.o objects/starchHelpers.o objects/starchMetadataHelpers.o objects/starchFileHelpers.o objects/starchSha1Digest.o objects/starchBase64Coding.o mkdir -p ../bin arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c starch.c -o objects/starch.o -iquote../../../../interfaces/general-headers -iquote../../../.. starch.c: In function ‘int main(int, char**)’: starch.c:106:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 106 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:121:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 121 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:123:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 123 | static_cast( kStarchFinalizeTransformTrue ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:146:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 146 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:161:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 161 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:163:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 163 | static_cast( kStarchFinalizeTransformTrue ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:191:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 191 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:194:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 194 | static_cast( bedGeneratePerChrSignatureFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:195:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 195 | static_cast( bedHeaderFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:196:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 196 | static_cast( bedReportProgressFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:197:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 197 | static_cast( bedReportProgressN )) != STARCH_EXIT_SUCCESS) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security objects/starch.o -o ../bin/starch-typical ../lib/libstarch.a -ljansson -lz -lbz2 -Wl,-z,relro -Wl,-z,now mkdir -p ../bin arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c unstarch.c -o objects/unstarch.o -iquote../../../../interfaces/general-headers -iquote../../../.. unstarch.c: In function ‘int main(int, char**)’: unstarch.c:401:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 401 | static_cast( metadataOffset ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:402:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 402 | static_cast( headerFlag )) != 0) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:422:58: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 422 | static_cast( metadataOffset ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:423:58: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 423 | static_cast( headerFlag )) != 0) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:452:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 452 | static_cast( sizeof(starchRevision2HeaderBytes) ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:453:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 453 | static_cast( headerFlag )) != 0) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:473:58: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 473 | static_cast( sizeof(starchRevision2HeaderBytes) ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:474:58: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 474 | static_cast( headerFlag )) != 0) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:567:39: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 567 | UNSTARCH_printCompressionType(static_cast( type )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:798:78: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 798 | static_cast( sizeof(starchRevision2HeaderBytes) ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:809:82: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 809 | static_cast( sizeof(starchRevision2HeaderBytes) ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c: In function ‘void starch::UNSTARCH_printMetadataSha1Signature(unsigned char*)’: unstarch.c:1334:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1334 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:1336:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1336 | static_cast( sha1BufferLength )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security objects/unstarch.o -o ../bin/unstarch-typical ../lib/libstarch.a -ljansson -lz -lbz2 -Wl,-z,relro -Wl,-z,now mkdir -p ../bin arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c starchcat.c -o objects/starchcat.o -iquote../../../../interfaces/general-headers -iquote../../../.. In file included from /usr/arm-linux-gnueabihf/include/c++/10/cassert:44, from starchcat.c:33: starchcat.c: In function ‘int main(int, char**)’: starchcat.c:136:71: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 136 | assert( STARCHCAT_allocMetadataRecords ( &mdRecords, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:137:75: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 137 | assert( STARCHCAT_allocMetadataJSONObjects ( &metadataJSONs, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:138:87: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 138 | assert( STARCHCAT_buildMetadataRecords ( &metadataJSONs, &mdRecords, static_cast( firstArgc ), static_cast( argc ), const_cast( argv ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:138:133: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 138 | assert( STARCHCAT_buildMetadataRecords ( &metadataJSONs, &mdRecords, static_cast( firstArgc ), static_cast( argc ), const_cast( argv ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:139:75: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 139 | assert( STARCHCAT_checkMetadataJSONVersions ( &metadataJSONs, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:140:145: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 140 | assert( STARCHCAT_buildUniqueChromosomeList ( &chromosomes, &numChromosomes, reinterpret_cast( mdRecords ), static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:141:69: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 141 | assert( STARCHCAT_allocChromosomeSummary ( &summary, static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:142:124: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 142 | assert( STARCHCAT_buildChromosomeSummary ( &summary, reinterpret_cast( mdRecords ), static_cast( numRecords ), const_cast( chromosomes ), static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:142:213: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 142 | assert( STARCHCAT_buildChromosomeSummary ( &summary, reinterpret_cast( mdRecords ), static_cast( numRecords ), const_cast( chromosomes ), static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:143:71: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 143 | assert( STARCHCAT_allocChromosomeSummaries ( &summaries, static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:144:127: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 144 | assert( STARCHCAT_buildChromosomeSummaries ( &summaries, reinterpret_cast( summary ), static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:164:61: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 164 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:178:61: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 178 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:223:60: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 223 | assert( STARCHCAT_freeMetadataRecords( &mdRecords, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:233:68: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 233 | assert (STARCHCAT_freeMetadataJSONObjects( &metadataJSONs, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_rewriteInputRecordToOutput(starch::Metadata**, const char*, starch::CompressionType, const char*, const MetadataRecord*, size_t*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: starchcat.c:1338:71: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1338 | UNSTARCH_reverseTransformCoordinates( static_cast( t_lineIdx ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:1806:71: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1806 | UNSTARCH_reverseTransformCoordinates( static_cast( t_lineIdx ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2131:78: warning: left shift count >= width of type [-Wshift-count-overflow] 2131 | bzOutBytesWritten = static_cast( bzOutBytesWrittenHi32 ) << 32 | bzOutBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ starchcat.c: In function ‘int starch::STARCHCAT_rewriteInputRecordToOutput(starch::Metadata**, const char*, starch::CompressionType, const char*, const MetadataRecord*)’: starchcat.c:2450:25: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2450 | static_cast( inRec->mdOffset ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2451:25: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2451 | static_cast( inRec->hFlag )) != 0 ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2471:28: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2471 | static_cast( inRec->mdOffset ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2472:28: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2472 | static_cast( inRec->hFlag )) != 0 ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2509:23: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2509 | static_cast( outType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2511:23: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2511 | static_cast( kStarchFinalizeTransformFalse ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_mergeInputRecordsToOutput(const char*, starch::Metadata**, const char*, starch::CompressionType, const ChromosomeSummary*, size_t*)’: starchcat.c:3152:54: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 3152 | if (STARCHCAT2_setupBzip2InputStream(static_cast( inRecIdx ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:3316:69: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 3316 | static_cast( summary->numRecords ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:3455:77: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 3455 | static_cast( flushZStreamFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT_mergeInputRecordsToOutput(starch::Metadata**, const char*, starch::CompressionType, const ChromosomeSummary*)’: starchcat.c:4265:43: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4265 | static_cast( outType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:4267:43: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4267 | static_cast( kStarchFinalizeTransformFalse ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/cassert:44, from starchcat.c:33: starchcat.c: In function ‘int starch::STARCHCAT_mergeChromosomeStreams(const ChromosomeSummaries*, starch::CompressionType, const char*)’: starchcat.c:4402:60: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4402 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:4420:63: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4420 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:4447:57: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4447 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:4479:39: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4479 | static_cast( hFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT_freeChromosomeSummaries(starch::ChromosomeSummaries**)’: starchcat.c:4541:62: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4541 | STARCHCAT_freeChromosomeSummary( &((*chrSums)->summary), static_cast( (*chrSums)->numChromosomes )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/cassert:44, from starchcat.c:33: starchcat.c: In function ‘int starch::STARCHCAT2_mergeChromosomeStreams(const ChromosomeSummaries*, starch::CompressionType, const char*, size_t*, starch::Boolean, starch::Boolean, Bed::LineCountType)’: starchcat.c:5902:61: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 5902 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:5929:64: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 5929 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:5952:64: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 5952 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:5990:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 5990 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:6025:38: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 6025 | static_cast( hFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:6053:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 6053 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:6055:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 6055 | static_cast( STARCH2_MD_FOOTER_SHA1_LENGTH )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_fillExtractionBufferFromBzip2Stream(starch::Boolean*, char*, char*, size_t*, BZFILE**, size_t*, char*, size_t*, starch::TransformState*)’: starchcat.c:6719:55: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 6719 | UNSTARCH_reverseTransformCoordinates( static_cast( *t_lineIdxPtr ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_fillExtractionBufferFromGzipStream(starch::Boolean*, FILE**, char*, char*, size_t*, z_stream*, size_t*, char**, size_t*, starch::TransformState*)’: starchcat.c:7060:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 7060 | UNSTARCH_reverseTransformCoordinates( static_cast( *t_lineIdxPtr ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from starchcat.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCHCAT_buildMetadataRecords(json_t***, starch::MetadataRecord**, unsigned int, int, const char**)’ at starchcat.c:5368:20: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT_buildMetadataRecords(json_t***, starch::MetadataRecord**, unsigned int, int, const char**)’: starchcat.c:5368:53: note: length computed here 5368 | strncpy(cTime, creationTimestamp, strlen(creationTimestamp) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/10/cstring:42, from starchcat.c:31: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘int starch::STARCHCAT2_mergeInputRecordsToOutput(const char*, starch::Metadata**, const char*, starch::CompressionType, const ChromosomeSummary*, size_t*)’ at starchcat.c:3123:16: /usr/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, unsigned int, unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_mergeInputRecordsToOutput(const char*, starch::Metadata**, const char*, starch::CompressionType, const ChromosomeSummary*, size_t*)’: starchcat.c:3123:78: note: length computed here 3123 | strncpy(transformStates[inRecIdx]->t_currentChromosome, inChr, strlen(inChr) + 1); | ~~~~~~^~~~~~~ arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security objects/starchcat.o -o ../bin/starchcat-typical ../lib/libstarch.a -ljansson -lz -lbz2 -Wl,-z,relro -Wl,-z,now mkdir -p ../bin cp starchcluster_gnuParallel.tcsh ../bin/starchcluster_gnuParallel-typical mkdir -p ../bin cp starchcluster_sge.tcsh ../bin/starchcluster_sge-typical mkdir -p ../bin cp starchcluster_slurm.tcsh ../bin/starchcluster_slurm-typical mkdir -p ../bin cp starch-diff.py ../bin/starch-diff-typical mkdir -p ../bin arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c starchstrip.c -o objects/starchstrip.o -iquote../../../../interfaces/general-headers -iquote../../../.. starchstrip.c: In function ‘void starch::STARCHSTRIP_write_updated_metadata(FILE*)’: starchstrip.c:124:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 124 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchstrip.c:126:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 126 | static_cast( STARCH2_MD_FOOTER_SHA1_LENGTH )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security objects/starchstrip.o -o ../bin/starchstrip-typical ../lib/libstarch.a -ljansson -lz -lbz2 -Wl,-z,relro -Wl,-z,now rm -rf objects make[4]: Leaving directory '/<>/applications/bed/starch/src' make -C applications/bed/conversion/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/conversion/src' mkdir -p ../bin && arm-linux-gnueabihf-gcc -Wall -Wextra -pedantic -std=c99 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -iquote"/<>/applications/bed/conversion/src" -iquote"../../../../interfaces/general-headers" -Wl,-z,relro -Wl,-z,now convert2bed.c -o ../bin/convert2bed-typical -lpthread convert2bed.c: In function ‘c2b_process_intermediate_bytes_by_lines’: convert2bed.c:6315:103: warning: format ‘%zu’ expects argument of type ‘size_t’, but argument 3 has type ‘long unsigned int’ [-Wformat=] 6315 | fprintf(stderr, "Error: Could not find newline in intermediate buffer; check input [%zu | %zu | %zu]\n", (unsigned long) src_bytes_read, (unsigned long) remainder_length, (unsigned long) src_buffer_capacity); | ~~^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | | unsigned int long unsigned int | %lu convert2bed.c:6315:109: warning: format ‘%zu’ expects argument of type ‘size_t’, but argument 4 has type ‘long unsigned int’ [-Wformat=] 6315 | fprintf(stderr, "Error: Could not find newline in intermediate buffer; check input [%zu | %zu | %zu]\n", (unsigned long) src_bytes_read, (unsigned long) remainder_length, (unsigned long) src_buffer_capacity); | ~~^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | | unsigned int long unsigned int | %lu convert2bed.c:6315:115: warning: format ‘%zu’ expects argument of type ‘size_t’, but argument 5 has type ‘long unsigned int’ [-Wformat=] 6315 | fprintf(stderr, "Error: Could not find newline in intermediate buffer; check input [%zu | %zu | %zu]\n", (unsigned long) src_bytes_read, (unsigned long) remainder_length, (unsigned long) src_buffer_capacity); | ~~^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | | unsigned int long unsigned int | %lu rm -rf objects make[4]: Leaving directory '/<>/applications/bed/conversion/src' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a make -j1 install DESTDIR=/<>/bedops-2.4.39\+dfsg1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>' mkdir -p bin cp applications/bed/conversion/src/wrappers/bam2bed applications/bed/conversion/src/wrappers/bam2bed_gnuParallel applications/bed/conversion/src/wrappers/bam2bed_sge applications/bed/conversion/src/wrappers/bam2bed_slurm applications/bed/conversion/src/wrappers/bam2starch applications/bed/conversion/src/wrappers/bam2starch_gnuParallel applications/bed/conversion/src/wrappers/bam2starch_sge applications/bed/conversion/src/wrappers/bam2starch_slurm applications/bed/conversion/src/wrappers/gff2bed applications/bed/conversion/src/wrappers/gff2starch applications/bed/conversion/src/wrappers/gtf2bed applications/bed/conversion/src/wrappers/gtf2starch applications/bed/conversion/src/wrappers/gvf2bed applications/bed/conversion/src/wrappers/gvf2starch applications/bed/conversion/src/wrappers/psl2bed applications/bed/conversion/src/wrappers/psl2starch applications/bed/conversion/src/wrappers/rmsk2bed applications/bed/conversion/src/wrappers/rmsk2starch applications/bed/conversion/src/wrappers/sam2bed applications/bed/conversion/src/wrappers/sam2starch applications/bed/conversion/src/wrappers/vcf2bed applications/bed/conversion/src/wrappers/vcf2starch applications/bed/conversion/src/wrappers/wig2bed applications/bed/conversion/src/wrappers/wig2starch bin cp applications/bed/starch/bin/starchcluster_sge-typical bin/starchcluster_sge cp applications/bed/starch/bin/starchcluster_gnuParallel-typical bin/starchcluster_gnuParallel cp applications/bed/starch/bin/starchcluster_slurm-typical bin/starchcluster_slurm cp applications/bed/starch/bin/starch-diff-typical bin/starch-diff cp applications/bed/sort-bed/bin/sort-bed-typical bin/sort-bed cp applications/bed/sort-bed/bin/update-sort-bed-slurm-typical bin/update-sort-bed-slurm cp applications/bed/sort-bed/bin/update-sort-bed-starch-slurm-typical bin/update-sort-bed-starch-slurm cp applications/bed/sort-bed/bin/update-sort-bed-migrate-candidates-typical bin/update-sort-bed-migrate-candidates cp applications/bed/bedops/bin/bedops-typical bin/bedops cp applications/bed/closestfeats/bin/closest-features-typical bin/closest-features cp applications/bed/bedmap/bin/bedmap-typical bin/bedmap cp applications/bed/bedextract/bin/bedextract-typical bin/bedextract cp applications/bed/starch/bin/starch-typical bin/starch cp applications/bed/starch/bin/unstarch-typical bin/unstarch cp applications/bed/starch/bin/starchcat-typical bin/starchcat cp applications/bed/starch/bin/starchstrip-typical bin/starchstrip cp applications/bed/conversion/bin/convert2bed-typical bin/convert2bed make[1]: Leaving directory '/<>' debian/rules override_dh_install-arch make[1]: Entering directory '/<>' dh_install -a mv bin/starch bin/bedops-starch mkdir -p debian/bedops/usr/bin/ cp bin/* debian/bedops/usr/bin/ make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installman-arch make[1]: Entering directory '/<>' cd bin && for f in * ; do help2man --no-discard-stderr --version-string="2.4.39+dfsg1" -o $f.1 ./$f; done help2man: can't get `--help' info from ./bam2bed_gnuParallel help2man: can't get `--help' info from ./bam2bed_sge help2man: can't get `--help' info from ./bam2bed_slurm help2man: can't get `--help' info from ./bam2starch_gnuParallel help2man: can't get `--help' info from ./bam2starch_sge help2man: can't get `--help' info from ./bam2starch_slurm help2man: can't get `--help' info from ./starchcluster_gnuParallel help2man: can't get `--help' info from ./starchcluster_sge help2man: can't get `--help' info from ./starchcluster_slurm dh_installman -a make[1]: Leaving directory '/<>' dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a debian/rules override_dh_dwz make[1]: Entering directory '/<>' # Work around: dwz: Too few files for multifile optimization echo "Do not run dh_dwz" Do not run dh_dwz make[1]: Leaving directory '/<>' dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/bedops/usr/bin/closest-features contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/bedops/usr/bin/bedops contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/bedops/usr/bin/bedextract contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/bedops/usr/bin/sort-bed contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/bedops/usr/bin/bedmap contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'bedops' in '../bedops_2.4.39+dfsg1-2_armhf.deb'. dpkg-deb: building package 'bedops-dbgsym' in '../bedops-dbgsym_2.4.39+dfsg1-2_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../bedops_2.4.39+dfsg1-2_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2021-03-15T07:35:28Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ bedops_2.4.39+dfsg1-2_armhf.changes: ------------------------------------ Format: 1.8 Date: Fri, 19 Feb 2021 11:50:32 +0200 Source: bedops Binary: bedops bedops-dbgsym Built-For-Profiles: cross nocheck Architecture: armhf Version: 2.4.39+dfsg1-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Juhani Numminen Description: bedops - high-performance genomic feature operations Changes: bedops (2.4.39+dfsg1-2) unstable; urgency=medium . * Team upload. * Add parallel.patch: toplevel Makefile should use our -jN argument. * Update hardening.patch: our optimization flags now override upstream -O3. Checksums-Sha1: 06e28dd9b535fc7b962e25f42353f5ee0ae8ef99 103628 bedops-dbgsym_2.4.39+dfsg1-2_armhf.deb f45d1a3c76c095958745eea31c38f0cdac17d474 5517 bedops_2.4.39+dfsg1-2_armhf.buildinfo e0e28c5d62c738e27a7514cbf51f4e60bc2aec88 1100392 bedops_2.4.39+dfsg1-2_armhf.deb Checksums-Sha256: 95c66bc526c2ffc7eea4e1cd440682463bdc96cf38358cdb871e8a0f22f88751 103628 bedops-dbgsym_2.4.39+dfsg1-2_armhf.deb db899813701c5a3e62a13f78bc1fc15302b3cf0d47185d86bd6cd56c0bb1b8d8 5517 bedops_2.4.39+dfsg1-2_armhf.buildinfo 68b35edac272880d468a573c18e1087d7d1c133fcb3e7665a4286983d44e84c0 1100392 bedops_2.4.39+dfsg1-2_armhf.deb Files: 812173f544980157001395dab998234d 103628 debug optional bedops-dbgsym_2.4.39+dfsg1-2_armhf.deb 7648d684285decc1ce0ed6de0e7f4b3f 5517 science optional bedops_2.4.39+dfsg1-2_armhf.buildinfo f150a98ae942762d9899f5e94b5ffd83 1100392 science optional bedops_2.4.39+dfsg1-2_armhf.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: bedops Binary: bedops bedops-dbgsym Architecture: armhf Version: 2.4.39+dfsg1-2 Checksums-Md5: 812173f544980157001395dab998234d 103628 bedops-dbgsym_2.4.39+dfsg1-2_armhf.deb f150a98ae942762d9899f5e94b5ffd83 1100392 bedops_2.4.39+dfsg1-2_armhf.deb Checksums-Sha1: 06e28dd9b535fc7b962e25f42353f5ee0ae8ef99 103628 bedops-dbgsym_2.4.39+dfsg1-2_armhf.deb e0e28c5d62c738e27a7514cbf51f4e60bc2aec88 1100392 bedops_2.4.39+dfsg1-2_armhf.deb Checksums-Sha256: 95c66bc526c2ffc7eea4e1cd440682463bdc96cf38358cdb871e8a0f22f88751 103628 bedops-dbgsym_2.4.39+dfsg1-2_armhf.deb 68b35edac272880d468a573c18e1087d7d1c133fcb3e7665a4286983d44e84c0 1100392 bedops_2.4.39+dfsg1-2_armhf.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Mon, 15 Mar 2021 07:35:27 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.69-14), automake (= 1:1.16.3-2), autopoint (= 0.21-4), autotools-dev (= 20180224.1+nmu1), base-files (= 11), base-passwd (= 3.5.49), bash (= 5.1-2+b1), binutils (= 2.35.2-2), binutils-common (= 2.35.2-2), binutils-x86-64-linux-gnu (= 2.35.2-2), bsdextrautils (= 2.36.1-7), bsdutils (= 1:2.36.1-7), build-essential (= 12.9), bzip2 (= 1.0.8-4), coreutils (= 8.32-4+b1), cpp (= 4:10.2.1-1), cpp-10 (= 10.2.1-6), dash (= 0.5.11+git20210120+802ebd4-1), debconf (= 1.5.75), debhelper (= 13.3.4), debianutils (= 4.11.2), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.11.0-1), diffutils (= 1:3.7-5), dpkg (= 1.20.7.1), dpkg-dev (= 1.20.7.1), dwz (= 0.14-1), file (= 1:5.39-3), findutils (= 4.8.0-1), g++ (= 4:10.2.1-1), g++-10 (= 10.2.1-6), gcc (= 4:10.2.1-1), gcc-10 (= 10.2.1-6), gcc-10-base (= 10.2.1-6), gettext (= 0.21-4), gettext-base (= 0.21-4), grep (= 3.6-1), groff-base (= 1.22.4-6), gzip (= 1.10-4), help2man (= 1.48.2), hostname (= 3.23), init-system-helpers (= 1.60), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-10), libarchive-zip-perl (= 1.68-1), libasan6 (= 10.2.1-6), libatomic1 (= 10.2.1-6), libattr1 (= 1:2.4.48-6), libaudit-common (= 1:3.0-2), libaudit1 (= 1:3.0-2), libbinutils (= 2.35.2-2), libblkid1 (= 2.36.1-7), libbz2-1.0 (= 1.0.8-4), libbz2-dev (= 1.0.8-4), libc-bin (= 2.31-9), libc-dev-bin (= 2.31-9), libc6 (= 2.31-9), libc6-dev (= 2.31-9), libcap-ng0 (= 0.7.9-2.2+b1), libcc1-0 (= 10.2.1-6), libcom-err2 (= 1.46.2-1), libcrypt-dev (= 1:4.4.18-1), libcrypt1 (= 1:4.4.18-1), libctf-nobfd0 (= 2.35.2-2), libctf0 (= 2.35.2-2), libdb5.3 (= 5.3.28+dfsg1-0.8), libdebconfclient0 (= 0.256), libdebhelper-perl (= 13.3.4), libdpkg-perl (= 1.20.7.1), libelf1 (= 0.183-3), libexpat1 (= 2.2.10-2), libffi7 (= 3.3-6), libfile-stripnondeterminism-perl (= 1.11.0-1), libgcc-10-dev (= 10.2.1-6), libgcc-s1 (= 10.2.1-6), libgcrypt20 (= 1.8.7-3), libgdbm-compat4 (= 1.19-2), libgdbm6 (= 1.19-2), libgmp10 (= 2:6.2.1+dfsg-1), libgomp1 (= 10.2.1-6), libgpg-error0 (= 1.38-2), libgssapi-krb5-2 (= 1.18.3-4), libicu67 (= 67.1-6), libisl23 (= 0.23-1), libitm1 (= 10.2.1-6), libjansson-dev (= 2.13.1-1.1), libjansson4 (= 2.13.1-1.1), libk5crypto3 (= 1.18.3-4), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.18.3-4), libkrb5support0 (= 1.18.3-4), liblocale-gettext-perl (= 1.07-4+b1), liblsan0 (= 10.2.1-6), liblz4-1 (= 1.9.3-1), liblzma5 (= 5.2.5-2), libmagic-mgc (= 1:5.39-3), libmagic1 (= 1:5.39-3), libmount1 (= 2.36.1-7), libmpc3 (= 1.2.0-1), libmpdec3 (= 2.5.1-1), libmpfr6 (= 4.1.0-3), libncursesw6 (= 6.2+20201114-2), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libpam-modules (= 1.4.0-6), libpam-modules-bin (= 1.4.0-6), libpam-runtime (= 1.4.0-6), libpam0g (= 1.4.0-6), libpcre2-8-0 (= 10.36-2), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.1-3), libpipeline1 (= 1.5.3-1), libpython3-stdlib (= 3.9.2-2), libpython3.9-minimal (= 3.9.2-1), libpython3.9-stdlib (= 3.9.2-1), libquadmath0 (= 10.2.1-6), libreadline8 (= 8.1-1), libseccomp2 (= 2.5.1-1), libselinux1 (= 3.1-3), libsigsegv2 (= 2.13-1), libsmartcols1 (= 2.36.1-7), libsqlite3-0 (= 3.34.1-3), libssl1.1 (= 1.1.1j-1), libstdc++-10-dev (= 10.2.1-6), libstdc++6 (= 10.2.1-6), libsub-override-perl (= 0.09-2), libsystemd0 (= 247.3-3), libtinfo6 (= 6.2+20201114-2), libtirpc-common (= 1.3.1-1), libtirpc-dev (= 1.3.1-1), libtirpc3 (= 1.3.1-1), libtool (= 2.4.6-15), libtsan0 (= 10.2.1-6), libubsan1 (= 10.2.1-6), libuchardet0 (= 0.0.7-1), libudev1 (= 247.3-3), libunistring2 (= 0.9.10-4), libuuid1 (= 2.36.1-7), libxml2 (= 2.9.10+dfsg-6.3+b1), libzstd1 (= 1.4.8+dfsg-2.1), linux-libc-dev (= 5.10.19-1), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-5), make (= 4.3-4), man-db (= 2.9.4-2), mawk (= 1.3.4.20200120-2), media-types (= 4.0.0), ncurses-base (= 6.2+20201114-2), ncurses-bin (= 6.2+20201114-2), patch (= 2.7.6-7), perl (= 5.32.1-3), perl-base (= 5.32.1-3), perl-modules-5.32 (= 5.32.1-3), po-debconf (= 1.0.21+nmu1), python3 (= 3.9.2-2), python3-distutils (= 3.9.2-1), python3-lib2to3 (= 3.9.2-1), python3-minimal (= 3.9.2-2), python3.9 (= 3.9.2-1), python3.9-minimal (= 3.9.2-1), readline-common (= 8.1-1), sed (= 4.7-1), sensible-utils (= 0.0.14), sysvinit-utils (= 2.96-6), tar (= 1.34+dfsg-1), tzdata (= 2021a-1), util-linux (= 2.36.1-7), xz-utils (= 5.2.5-2), zlib1g (= 1:1.2.11.dfsg-2), zlib1g-dev (= 1:1.2.11.dfsg-2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1613728232" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ bedops-dbgsym_2.4.39+dfsg1-2_armhf.deb -------------------------------------- new Debian package, version 2.0. size 103628 bytes: control archive=540 bytes. 380 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: bedops-dbgsym Source: bedops Version: 2.4.39+dfsg1-2 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 119 Depends: bedops (= 2.4.39+dfsg1-2) Section: debug Priority: optional Description: debug symbols for bedops Build-Ids: 6fd5385eb2e7dca2dd3d8ff523552dc0c404fcc3 drwxr-xr-x root/root 0 2021-02-19 09:50 ./ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/lib/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/lib/debug/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/lib/debug/.build-id/6f/ -rw-r--r-- root/root 110896 2021-02-19 09:50 ./usr/lib/debug/.build-id/6f/d5385eb2e7dca2dd3d8ff523552dc0c404fcc3.debug drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/doc/ lrwxrwxrwx root/root 0 2021-02-19 09:50 ./usr/share/doc/bedops-dbgsym -> bedops bedops_2.4.39+dfsg1-2_armhf.deb ------------------------------- new Debian package, version 2.0. size 1100392 bytes: control archive=5376 bytes. 732 bytes, 15 lines control 17229 bytes, 204 lines md5sums Package: bedops Version: 2.4.39+dfsg1-2 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 5572 Depends: libbz2-1.0, libc6 (>= 2.28), libgcc-s1 (>= 3.5), libjansson4 (>= 2.3), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), python3, tcsh Section: science Priority: optional Homepage: https://github.com/bedops/bedops Description: high-performance genomic feature operations BEDOPS is a suite of tools to address common questions raised in genomic studies, mostly with regard to overlap and proximity relationships between data sets. It aims to be scalable and flexible, facilitating the efficient and accurate analysis and management of large-scale genomic data. drwxr-xr-x root/root 0 2021-02-19 09:50 ./ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/bin/ -rwxr-xr-x root/root 4711 2021-02-19 09:50 ./usr/bin/bam2bed -rwxr-xr-x root/root 4501 2021-02-19 09:50 ./usr/bin/bam2bed_gnuParallel -rwxr-xr-x root/root 5022 2021-02-19 09:50 ./usr/bin/bam2bed_sge -rwxr-xr-x root/root 5021 2021-02-19 09:50 ./usr/bin/bam2bed_slurm -rwxr-xr-x root/root 5842 2021-02-19 09:50 ./usr/bin/bam2starch -rwxr-xr-x root/root 4507 2021-02-19 09:50 ./usr/bin/bam2starch_gnuParallel -rwxr-xr-x root/root 5076 2021-02-19 09:50 ./usr/bin/bam2starch_sge -rwxr-xr-x root/root 5014 2021-02-19 09:50 ./usr/bin/bam2starch_slurm -rwxr-xr-x root/root 140732 2021-02-19 09:50 ./usr/bin/bedextract -rwxr-xr-x root/root 4077012 2021-02-19 09:50 ./usr/bin/bedmap -rwxr-xr-x root/root 296380 2021-02-19 09:50 ./usr/bin/bedops -rwxr-xr-x root/root 67092 2021-02-19 09:50 ./usr/bin/bedops-starch -rwxr-xr-x root/root 177600 2021-02-19 09:50 ./usr/bin/closest-features -rwxr-xr-x root/root 92184 2021-02-19 09:50 ./usr/bin/convert2bed -rwxr-xr-x root/root 3773 2021-02-19 09:50 ./usr/bin/gff2bed -rwxr-xr-x root/root 4904 2021-02-19 09:50 ./usr/bin/gff2starch -rwxr-xr-x root/root 3532 2021-02-19 09:50 ./usr/bin/gtf2bed -rwxr-xr-x root/root 4663 2021-02-19 09:50 ./usr/bin/gtf2starch -rwxr-xr-x root/root 3773 2021-02-19 09:50 ./usr/bin/gvf2bed -rwxr-xr-x root/root 4904 2021-02-19 09:50 ./usr/bin/gvf2starch -rwxr-xr-x root/root 3976 2021-02-19 09:50 ./usr/bin/psl2bed -rwxr-xr-x root/root 5107 2021-02-19 09:50 ./usr/bin/psl2starch -rwxr-xr-x root/root 3776 2021-02-19 09:50 ./usr/bin/rmsk2bed -rwxr-xr-x root/root 4907 2021-02-19 09:50 ./usr/bin/rmsk2starch -rwxr-xr-x root/root 4711 2021-02-19 09:50 ./usr/bin/sam2bed -rwxr-xr-x root/root 5842 2021-02-19 09:50 ./usr/bin/sam2starch -rwxr-xr-x root/root 144824 2021-02-19 09:50 ./usr/bin/sort-bed -rwxr-xr-x root/root 10163 2021-02-19 09:50 ./usr/bin/starch-diff -rwxr-xr-x root/root 120324 2021-02-19 09:50 ./usr/bin/starchcat -rwxr-xr-x root/root 4299 2021-02-19 09:50 ./usr/bin/starchcluster_gnuParallel -rwxr-xr-x root/root 4810 2021-02-19 09:50 ./usr/bin/starchcluster_sge -rwxr-xr-x root/root 4716 2021-02-19 09:50 ./usr/bin/starchcluster_slurm -rwxr-xr-x root/root 67028 2021-02-19 09:50 ./usr/bin/starchstrip -rwxr-xr-x root/root 91524 2021-02-19 09:50 ./usr/bin/unstarch -rwxr-xr-x root/root 32686 2021-02-19 09:50 ./usr/bin/update-sort-bed-migrate-candidates -rwxr-xr-x root/root 20701 2021-02-19 09:50 ./usr/bin/update-sort-bed-slurm -rwxr-xr-x root/root 22682 2021-02-19 09:50 ./usr/bin/update-sort-bed-starch-slurm -rwxr-xr-x root/root 4675 2021-02-19 09:50 ./usr/bin/vcf2bed -rwxr-xr-x root/root 5806 2021-02-19 09:50 ./usr/bin/vcf2starch -rwxr-xr-x root/root 4598 2021-02-19 09:50 ./usr/bin/wig2bed -rwxr-xr-x root/root 5729 2021-02-19 09:50 ./usr/bin/wig2starch drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/doc/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/doc/bedops/ -rw-r--r-- root/root 267 2021-02-19 09:50 ./usr/share/doc/bedops/README.Debian -rw-r--r-- root/root 1506 2021-02-19 09:50 ./usr/share/doc/bedops/changelog.Debian.gz -rw-r--r-- root/root 1156 2021-02-19 09:50 ./usr/share/doc/bedops/copyright drwxr-xr-x root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/ -rw-r--r-- root/root 718 2020-04-06 20:55 ./usr/share/doc/bedops/tests/Makefile drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/doc/bedops/tests/bedops/ -rw-r--r-- root/root 2166 2021-02-19 09:50 ./usr/share/doc/bedops/tests/bedops/Makefile.gz drwxr-xr-x root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/ -rw-r--r-- root/root 197 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.chop.001.expected -rw-r--r-- root/root 44 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.chop.001a.test -rw-r--r-- root/root 53 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.chop.001b.test -rw-r--r-- root/root 24 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.chrom.001.expected -rw-r--r-- root/root 26 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.complement.001.expected -rw-r--r-- root/root 31 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.difference.001.expected -rw-r--r-- root/root 23 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.ec.001a.test -rw-r--r-- root/root 69 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.element-of.001.expected -rw-r--r-- root/root 91 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.intersection.001.expected -rw-r--r-- root/root 52 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.intersection.001a.test -rw-r--r-- root/root 104 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.intersection.001b.test -rw-r--r-- root/root 37 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.merge.001.expected -rw-r--r-- root/root 111 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.merge.001.test -rw-r--r-- root/root 368 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.named-pipe.001.expected -rw-r--r-- root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.not-element-of.001.expected -rw-r--r-- root/root 148 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.partition.001.expected -rw-r--r-- root/root 39 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.partition.001a.test -rw-r--r-- root/root 56 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.partition.001b.test -rw-r--r-- root/root 40 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.partition.001c.test -rw-r--r-- root/root 257 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.stdin.001.expected -rw-r--r-- root/root 130 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.symdiff.001.expected -rw-r--r-- root/root 134 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.union.001.expected -rw-r--r-- root/root 126 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/001.union.001.test -rw-r--r-- root/root 171 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.chop.002.expected -rw-r--r-- root/root 20 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.chrom.002.expected -rw-r--r-- root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.complement.002.expected -rw-r--r-- root/root 2172 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.difference.002.expected -rw-r--r-- root/root 3033 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.difference.002a.test -rw-r--r-- root/root 2941 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.difference.002b.test -rw-r--r-- root/root 18 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.element-of.002.expected -rw-r--r-- root/root 13 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.intersection.002.expected -rw-r--r-- root/root 26 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.intersection.002.test -rw-r--r-- root/root 11 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.merge.002.expected -rw-r--r-- root/root 11 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.not-element-of.002.expected -rw-r--r-- root/root 376 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002.expected -rw-r--r-- root/root 48 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002a.test -rw-r--r-- root/root 49 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002b.test -rw-r--r-- root/root 101 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002c.test -rw-r--r-- root/root 39 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002d.test -rw-r--r-- root/root 131 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002e.test -rw-r--r-- root/root 118 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.symdiff.002.expected -rw-r--r-- root/root 56 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/002.union.002.expected -rw-r--r-- root/root 368 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.chop.003.expected -rw-r--r-- root/root 24 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.chrom.003.expected -rw-r--r-- root/root 61 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.complement.003.expected -rw-r--r-- root/root 3794 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.difference.003.expected -rw-r--r-- root/root 42 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.element-of.003.expected -rw-r--r-- root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.intersection.003.expected -rw-r--r-- root/root 35 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.merge.003.expected -rw-r--r-- root/root 46 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.merge.003.test -rw-r--r-- root/root 21 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.not-element-of.003.expected -rw-r--r-- root/root 63 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.not-element-of.003a.test -rw-r--r-- root/root 42 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.not-element-of.003b.test -rw-r--r-- root/root 153 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.partition.003.expected -rw-r--r-- root/root 398 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.partition.003.test -rw-r--r-- root/root 22 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003.expected -rw-r--r-- root/root 18 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003a.test -rw-r--r-- root/root 29 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003b.test -rw-r--r-- root/root 9 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003c.test -rw-r--r-- root/root 11 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003d.test -rw-r--r-- root/root 355 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.union.003.expected -rw-r--r-- root/root 360 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/003.union.003.test -rw-r--r-- root/root 257 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.chop.004.expected -rw-r--r-- root/root 24 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.chrom.004.expected -rw-r--r-- root/root 111 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.complement.004.expected -rw-r--r-- root/root 46 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.complement.004a.test -rw-r--r-- root/root 132 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.complement.004b.test -rw-r--r-- root/root 94 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.complement.004c.test -rw-r--r-- root/root 30 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.difference.004.expected -rw-r--r-- root/root 30 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.difference.004a.test -rw-r--r-- root/root 31 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.difference.004b.test -rw-r--r-- root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.element-of.004.expected -rw-r--r-- root/root 92 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.element-of.004a.test -rw-r--r-- root/root 23 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.element-of.004b.test -rw-r--r-- root/root 49 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.intersection.004.expected -rw-r--r-- root/root 103 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.intersection.004a.test -rw-r--r-- root/root 85 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.intersection.004b.test -rw-r--r-- root/root 47 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.intersection.004c.test -rw-r--r-- root/root 72 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.merge.004.expected -rw-r--r-- root/root 117 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.partition.004.expected -rw-r--r-- root/root 117 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.partition.004.test -rw-r--r-- root/root 52 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.symdiff.004.expected -rw-r--r-- root/root 22 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.union.004.expected -rw-r--r-- root/root 32 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/004.union.004.test -rw-r--r-- root/root 385 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.chop.005.expected -rw-r--r-- root/root 87 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.chop.005.test -rw-r--r-- root/root 20 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.complement.005.expected -rw-r--r-- root/root 40 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.complement.005.test -rw-r--r-- root/root 31 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.difference.005.expected -rw-r--r-- root/root 93 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.merge.005.expected -rw-r--r-- root/root 43 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.merge.005.test -rw-r--r-- root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.symdiff.005.expected -rw-r--r-- root/root 11 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/005.union.005.expected -rw-r--r-- root/root 35 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/006.complement.006.expected -rw-r--r-- root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/006.difference.006.expected -rw-r--r-- root/root 41 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/006.merge.006.expected -rw-r--r-- root/root 37 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/006.merge.006a.test -rw-r--r-- root/root 35 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/006.merge.006b.test -rw-r--r-- root/root 31 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/006.merge.006c.test -rw-r--r-- root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/006.union.006.expected -rw-r--r-- root/root 9 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/007.complement.007.expected -rw-r--r-- root/root 0 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/007.difference.007.expected -rw-r--r-- root/root 55 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/007.merge.007.expected -rw-r--r-- root/root 56 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/007.merge.007a.test -rw-r--r-- root/root 69 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/007.merge.007b.test -rw-r--r-- root/root 33 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/007.union.007.expected -rw-r--r-- root/root 79 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/008.complement.008.expected -rw-r--r-- root/root 197 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/008.merge.008.expected -rw-r--r-- root/root 33 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/008.union.008.expected -rw-r--r-- root/root 175 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/009.complement.009.expected -rw-r--r-- root/root 52 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/009.merge.009.expected -rw-r--r-- root/root 33 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/009.union.009.expected -rw-r--r-- root/root 43 2020-04-06 20:55 ./usr/share/doc/bedops/tests/bedops/data/009.union.009.test drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/doc/bedops/tests/starch/ -rw-r--r-- root/root 1078 2021-02-19 09:50 ./usr/share/doc/bedops/tests/starch/Makefile.gz drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/doc/bedops/tests/starch/data/ -rw-r--r-- root/root 1935 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/001.starch_api.bedmap.001.expected -rw-r--r-- root/root 2813 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/001.starch_api.bedmap.001.test.gz -rw-r--r-- root/root 772 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/001.starchcat.disjoint_chrs.chr1.001.test -rw-r--r-- root/root 1166 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/001.starchcat.disjoint_chrs.chr1andChr2.001.expected -rw-r--r-- root/root 772 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/001.starchcat.disjoint_chrs.chr2.001.test -rw-r--r-- root/root 764 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/001.unstarch.signature.001.expected -rw-r--r-- root/root 2851 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/001.unstarch.signature.001.test.gz -rw-r--r-- root/root 218 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/002.unstarch.signature.001.expected -rw-r--r-- root/root 2254 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/002.unstarch.signature.001.test.gz -rw-r--r-- root/root 109 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/README -rw-r--r-- root/root 426 2020-04-06 20:55 ./usr/share/doc/bedops/tests/starch/data/hg38.bed -rw-r--r-- root/root 1516 2021-02-19 09:50 ./usr/share/doc/bedops/tests/starch/generate_random_intervals.sh drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/man/ drwxr-xr-x root/root 0 2021-02-19 09:50 ./usr/share/man/man1/ -rw-r--r-- root/root 348 2021-02-19 09:50 ./usr/share/man/man1/bam2bed.1.gz -rw-r--r-- root/root 356 2021-02-19 09:50 ./usr/share/man/man1/bam2starch.1.gz -rw-r--r-- root/root 366 2021-02-19 09:50 ./usr/share/man/man1/bedextract.1.gz -rw-r--r-- root/root 361 2021-02-19 09:50 ./usr/share/man/man1/bedmap.1.gz -rw-r--r-- root/root 375 2021-02-19 09:50 ./usr/share/man/man1/bedops-starch.1.gz -rw-r--r-- root/root 358 2021-02-19 09:50 ./usr/share/man/man1/bedops.1.gz -rw-r--r-- root/root 380 2021-02-19 09:50 ./usr/share/man/man1/closest-features.1.gz -rw-r--r-- root/root 370 2021-02-19 09:50 ./usr/share/man/man1/convert2bed.1.gz -rw-r--r-- root/root 348 2021-02-19 09:50 ./usr/share/man/man1/gff2bed.1.gz -rw-r--r-- root/root 355 2021-02-19 09:50 ./usr/share/man/man1/gff2starch.1.gz -rw-r--r-- root/root 348 2021-02-19 09:50 ./usr/share/man/man1/gtf2bed.1.gz -rw-r--r-- root/root 358 2021-02-19 09:50 ./usr/share/man/man1/gtf2starch.1.gz -rw-r--r-- root/root 349 2021-02-19 09:50 ./usr/share/man/man1/gvf2bed.1.gz -rw-r--r-- root/root 356 2021-02-19 09:50 ./usr/share/man/man1/gvf2starch.1.gz -rw-r--r-- root/root 348 2021-02-19 09:50 ./usr/share/man/man1/psl2bed.1.gz -rw-r--r-- root/root 356 2021-02-19 09:50 ./usr/share/man/man1/psl2starch.1.gz -rw-r--r-- root/root 351 2021-02-19 09:50 ./usr/share/man/man1/rmsk2bed.1.gz -rw-r--r-- root/root 358 2021-02-19 09:50 ./usr/share/man/man1/rmsk2starch.1.gz -rw-r--r-- root/root 348 2021-02-19 09:50 ./usr/share/man/man1/sam2bed.1.gz -rw-r--r-- root/root 356 2021-02-19 09:50 ./usr/share/man/man1/sam2starch.1.gz -rw-r--r-- root/root 364 2021-02-19 09:50 ./usr/share/man/man1/sort-bed.1.gz -rw-r--r-- root/root 722 2021-02-19 09:50 ./usr/share/man/man1/starch-diff.1.gz -rw-r--r-- root/root 364 2021-02-19 09:50 ./usr/share/man/man1/starchcat.1.gz -rw-r--r-- root/root 368 2021-02-19 09:50 ./usr/share/man/man1/starchstrip.1.gz -rw-r--r-- root/root 361 2021-02-19 09:50 ./usr/share/man/man1/unstarch.1.gz -rw-r--r-- root/root 1765 2021-02-19 09:50 ./usr/share/man/man1/update-sort-bed-migrate-candidates.1.gz -rw-r--r-- root/root 1331 2021-02-19 09:50 ./usr/share/man/man1/update-sort-bed-slurm.1.gz -rw-r--r-- root/root 1384 2021-02-19 09:50 ./usr/share/man/man1/update-sort-bed-starch-slurm.1.gz -rw-r--r-- root/root 349 2021-02-19 09:50 ./usr/share/man/man1/vcf2bed.1.gz -rw-r--r-- root/root 356 2021-02-19 09:50 ./usr/share/man/man1/vcf2starch.1.gz -rw-r--r-- root/root 349 2021-02-19 09:50 ./usr/share/man/man1/wig2bed.1.gz -rw-r--r-- root/root 357 2021-02-19 09:50 ./usr/share/man/man1/wig2starch.1.gz lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [573 B] Get:5 copy:/<>/apt_archive ./ Packages [663 B] Fetched 2199 B in 0s (93.5 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libproc-processtable-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils t1utils unzip Suggested packages: libxml-parser-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libwww-perl binutils-multiarch libtext-template-perl zip Recommended packages: gnupg libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl The following NEW packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libproc-processtable-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils sbuild-build-depends-lintian-dummy:armhf t1utils unzip 0 upgraded, 87 newly installed, 0 to remove and 0 not upgraded. Need to get 6587 kB of archives. After this operation, 19.5 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [848 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.64-1 [36.6 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.4-1 [51.1 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.27-1 [547 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.27-1 [927 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libaliased-perl all 0.34-1.1 [14.1 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.40 [72.2 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b3 [11.3 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 libdynaloader-functions-perl all 0.003-1.1 [12.7 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.008-1+b2 [15.9 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-classify-perl amd64 0.015-1+b3 [25.7 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-implementation-perl all 0.09-1.1 [12.4 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libvariable-magic-perl amd64 0.62-1+b3 [45.7 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-endofscope-perl all 0.24-1.1 [18.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-data-inheritable-perl all 0.08-3 [8588 B] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-method-modifiers-perl all 2.13-1 [19.2 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-3+b7 [38.1 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libclone-perl amd64 0.45-1+b1 [15.4 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-tiny-perl all 2.26-1 [16.5 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libcpanel-json-xs-perl amd64 4.25-1+b1 [129 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-stacktrace-perl all 2.0400-1 [28.6 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libexception-class-perl all 1.44-1 [32.3 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libiterator-perl all 0.03+ds1-1.1 [18.4 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libiterator-util-perl all 0.02+ds1-1.1 [13.7 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libexporter-tiny-perl all 1.002002-1 [37.8 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-xs-perl amd64 0.430-2 [40.9 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl all 0.430-2 [46.9 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-util-perl amd64 1.102-1+b1 [25.6 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-install-perl all 0.928-1.1 [10.8 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-optlist-perl all 0.110-1.1 [10.8 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-perl all 0.987-1 [47.2 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-dpath-perl all 0.58-1 [43.5 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-messagepack-perl amd64 1.00-4+b1 [38.8 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-1.1 [33.5 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-validate-domain-perl all 0.10-1.1 [11.1 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-size-perl amd64 0.83-1+b2 [26.1 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libemail-address-xs-perl amd64 1.04-1+b3 [28.0 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-system-simple-perl all 1.30-1 [28.2 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.08-1 [17.7 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libnumber-compare-perl all 0.03-1.1 [6956 B] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-glob-perl all 0.11-1 [8888 B] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libfont-ttf-perl all 1.06-1.1 [318 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-html5-entities-perl all 0.004-1.1 [21.3 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-run3-perl all 0.048-2 [34.2 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libjson-maybexs-perl all 1.004003-1 [13.1 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-compare-perl all 0.55-1 [66.9 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-utilsby-perl all 0.11-1 [15.4 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 liblzo2-2 amd64 2.10-2 [56.9 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libmarkdown2 amd64 2.2.6-1 [36.8 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libmoo-perl all 2.004004-1 [59.9 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-1.1 [10.8 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libmouse-perl amd64 2.5.10-1+b1 [172 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libpackage-stash-perl all 0.39-1 [21.9 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-identify-perl amd64 0.14-1+b3 [12.0 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.26-1+b1 [13.8 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.118-1 [53.5 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libperlio-gzip-perl amd64 0.19-1+b7 [17.4 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libproc-processtable-perl amd64 0.59-2+b1 [45.9 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-decoder-perl amd64 4.018+ds-1+b1 [99.3 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-encoder-perl amd64 4.018+ds-1+b1 [103 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshteinxs-perl amd64 0.03-4+b8 [8724 B] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-markdown-discount-perl amd64 0.12-1+b1 [13.0 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-xslate-perl amd64 3.5.8-1+b1 [197 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libtime-duration-perl all 1.21-1 [13.7 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libtime-moment-perl amd64 0.44-1+b3 [75.8 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libtype-tiny-perl all 1.012001-2 [351 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-1+b2 [20.3 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 5.08-1 [90.6 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.82+repack-1+b1 [35.8 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 lzip amd64 1.22-3 [88.5 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 lzop amd64 1.04-2 [84.2 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 unzip amd64 6.0-26 [171 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.104.0 [1265 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6587 kB in 0s (30.2 MB/s) Selecting previously unselected package diffstat. (Reading database ... 21930 files and directories currently installed.) Preparing to unpack .../00-diffstat_1.64-1_amd64.deb ... Unpacking diffstat (1.64-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../01-libassuan0_2.5.4-1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.4-1) ... Selecting previously unselected package gpgconf. Preparing to unpack .../02-gpgconf_2.2.27-1_amd64.deb ... Unpacking gpgconf (2.2.27-1) ... Selecting previously unselected package gpg. Preparing to unpack .../03-gpg_2.2.27-1_amd64.deb ... Unpacking gpg (2.2.27-1) ... Selecting previously unselected package libaliased-perl. Preparing to unpack .../04-libaliased-perl_0.34-1.1_all.deb ... Unpacking libaliased-perl (0.34-1.1) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../05-libapt-pkg-perl_0.1.40_amd64.deb ... Unpacking libapt-pkg-perl (0.1.40) ... Selecting previously unselected package libb-hooks-op-check-perl. Preparing to unpack .../06-libb-hooks-op-check-perl_0.22-1+b3_amd64.deb ... Unpacking libb-hooks-op-check-perl (0.22-1+b3) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../07-libdynaloader-functions-perl_0.003-1.1_all.deb ... Unpacking libdynaloader-functions-perl (0.003-1.1) ... Selecting previously unselected package libdevel-callchecker-perl. Preparing to unpack .../08-libdevel-callchecker-perl_0.008-1+b2_amd64.deb ... Unpacking libdevel-callchecker-perl (0.008-1+b2) ... Selecting previously unselected package libparams-classify-perl. Preparing to unpack .../09-libparams-classify-perl_0.015-1+b3_amd64.deb ... Unpacking libparams-classify-perl (0.015-1+b3) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../10-libmodule-runtime-perl_0.016-1_all.deb ... Unpacking libmodule-runtime-perl (0.016-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../11-libtry-tiny-perl_0.30-1_all.deb ... Unpacking libtry-tiny-perl (0.30-1) ... Selecting previously unselected package libmodule-implementation-perl. Preparing to unpack .../12-libmodule-implementation-perl_0.09-1.1_all.deb ... Unpacking libmodule-implementation-perl (0.09-1.1) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../13-libsub-exporter-progressive-perl_0.001013-1_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-1) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../14-libvariable-magic-perl_0.62-1+b3_amd64.deb ... Unpacking libvariable-magic-perl (0.62-1+b3) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../15-libb-hooks-endofscope-perl_0.24-1.1_all.deb ... Unpacking libb-hooks-endofscope-perl (0.24-1.1) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../16-libcapture-tiny-perl_0.48-1_all.deb ... Unpacking libcapture-tiny-perl (0.48-1) ... Selecting previously unselected package libclass-data-inheritable-perl. Preparing to unpack .../17-libclass-data-inheritable-perl_0.08-3_all.deb ... Unpacking libclass-data-inheritable-perl (0.08-3) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../18-libclass-method-modifiers-perl_2.13-1_all.deb ... Unpacking libclass-method-modifiers-perl (2.13-1) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../19-libclass-xsaccessor-perl_1.19-3+b7_amd64.deb ... Unpacking libclass-xsaccessor-perl (1.19-3+b7) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../20-libclone-perl_0.45-1+b1_amd64.deb ... Unpacking libclone-perl (0.45-1+b1) ... Selecting previously unselected package libconfig-tiny-perl. Preparing to unpack .../21-libconfig-tiny-perl_2.26-1_all.deb ... Unpacking libconfig-tiny-perl (2.26-1) ... Selecting previously unselected package libcpanel-json-xs-perl. Preparing to unpack .../22-libcpanel-json-xs-perl_4.25-1+b1_amd64.deb ... Unpacking libcpanel-json-xs-perl (4.25-1+b1) ... Selecting previously unselected package libdevel-stacktrace-perl. Preparing to unpack .../23-libdevel-stacktrace-perl_2.0400-1_all.deb ... Unpacking libdevel-stacktrace-perl (2.0400-1) ... Selecting previously unselected package libexception-class-perl. Preparing to unpack .../24-libexception-class-perl_1.44-1_all.deb ... Unpacking libexception-class-perl (1.44-1) ... Selecting previously unselected package libiterator-perl. Preparing to unpack .../25-libiterator-perl_0.03+ds1-1.1_all.deb ... Unpacking libiterator-perl (0.03+ds1-1.1) ... Selecting previously unselected package libiterator-util-perl. Preparing to unpack .../26-libiterator-util-perl_0.02+ds1-1.1_all.deb ... Unpacking libiterator-util-perl (0.02+ds1-1.1) ... Selecting previously unselected package libexporter-tiny-perl. Preparing to unpack .../27-libexporter-tiny-perl_1.002002-1_all.deb ... Unpacking libexporter-tiny-perl (1.002002-1) ... Selecting previously unselected package liblist-moreutils-xs-perl. Preparing to unpack .../28-liblist-moreutils-xs-perl_0.430-2_amd64.deb ... Unpacking liblist-moreutils-xs-perl (0.430-2) ... Selecting previously unselected package liblist-moreutils-perl. Preparing to unpack .../29-liblist-moreutils-perl_0.430-2_all.deb ... Unpacking liblist-moreutils-perl (0.430-2) ... Selecting previously unselected package libparams-util-perl. Preparing to unpack .../30-libparams-util-perl_1.102-1+b1_amd64.deb ... Unpacking libparams-util-perl (1.102-1+b1) ... Selecting previously unselected package libsub-install-perl. Preparing to unpack .../31-libsub-install-perl_0.928-1.1_all.deb ... Unpacking libsub-install-perl (0.928-1.1) ... Selecting previously unselected package libdata-optlist-perl. Preparing to unpack .../32-libdata-optlist-perl_0.110-1.1_all.deb ... Unpacking libdata-optlist-perl (0.110-1.1) ... Selecting previously unselected package libsub-exporter-perl. Preparing to unpack .../33-libsub-exporter-perl_0.987-1_all.deb ... Unpacking libsub-exporter-perl (0.987-1) ... Selecting previously unselected package libdata-dpath-perl. Preparing to unpack .../34-libdata-dpath-perl_0.58-1_all.deb ... Unpacking libdata-dpath-perl (0.58-1) ... Selecting previously unselected package libdata-messagepack-perl. Preparing to unpack .../35-libdata-messagepack-perl_1.00-4+b1_amd64.deb ... Unpacking libdata-messagepack-perl (1.00-4+b1) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../36-libnet-domain-tld-perl_1.75-1.1_all.deb ... Unpacking libnet-domain-tld-perl (1.75-1.1) ... Selecting previously unselected package libdata-validate-domain-perl. Preparing to unpack .../37-libdata-validate-domain-perl_0.10-1.1_all.deb ... Unpacking libdata-validate-domain-perl (0.10-1.1) ... Selecting previously unselected package libdevel-size-perl. Preparing to unpack .../38-libdevel-size-perl_0.83-1+b2_amd64.deb ... Unpacking libdevel-size-perl (0.83-1+b2) ... Selecting previously unselected package libemail-address-xs-perl. Preparing to unpack .../39-libemail-address-xs-perl_1.04-1+b3_amd64.deb ... Unpacking libemail-address-xs-perl (1.04-1+b3) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../40-libipc-system-simple-perl_1.30-1_all.deb ... Unpacking libipc-system-simple-perl (1.30-1) ... Selecting previously unselected package libfile-basedir-perl. Preparing to unpack .../41-libfile-basedir-perl_0.08-1_all.deb ... Unpacking libfile-basedir-perl (0.08-1) ... Selecting previously unselected package libnumber-compare-perl. Preparing to unpack .../42-libnumber-compare-perl_0.03-1.1_all.deb ... Unpacking libnumber-compare-perl (0.03-1.1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../43-libtext-glob-perl_0.11-1_all.deb ... Unpacking libtext-glob-perl (0.11-1) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../44-libfile-find-rule-perl_0.34-1_all.deb ... Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package libfont-ttf-perl. Preparing to unpack .../45-libfont-ttf-perl_1.06-1.1_all.deb ... Unpacking libfont-ttf-perl (1.06-1.1) ... Selecting previously unselected package libhtml-html5-entities-perl. Preparing to unpack .../46-libhtml-html5-entities-perl_0.004-1.1_all.deb ... Unpacking libhtml-html5-entities-perl (0.004-1.1) ... Selecting previously unselected package libimport-into-perl. Preparing to unpack .../47-libimport-into-perl_1.002005-1_all.deb ... Unpacking libimport-into-perl (1.002005-1) ... Selecting previously unselected package libipc-run3-perl. Preparing to unpack .../48-libipc-run3-perl_0.048-2_all.deb ... Unpacking libipc-run3-perl (0.048-2) ... Selecting previously unselected package libjson-maybexs-perl. Preparing to unpack .../49-libjson-maybexs-perl_1.004003-1_all.deb ... Unpacking libjson-maybexs-perl (1.004003-1) ... Selecting previously unselected package liblist-compare-perl. Preparing to unpack .../50-liblist-compare-perl_0.55-1_all.deb ... Unpacking liblist-compare-perl (0.55-1) ... Selecting previously unselected package liblist-utilsby-perl. Preparing to unpack .../51-liblist-utilsby-perl_0.11-1_all.deb ... Unpacking liblist-utilsby-perl (0.11-1) ... Selecting previously unselected package liblzo2-2:amd64. Preparing to unpack .../52-liblzo2-2_2.10-2_amd64.deb ... Unpacking liblzo2-2:amd64 (2.10-2) ... Selecting previously unselected package libmarkdown2:amd64. Preparing to unpack .../53-libmarkdown2_2.2.6-1_amd64.deb ... Unpacking libmarkdown2:amd64 (2.2.6-1) ... Selecting previously unselected package librole-tiny-perl. Preparing to unpack .../54-librole-tiny-perl_2.002004-1_all.deb ... Unpacking librole-tiny-perl (2.002004-1) ... Selecting previously unselected package libstrictures-perl. Preparing to unpack .../55-libstrictures-perl_2.000006-1_all.deb ... Unpacking libstrictures-perl (2.000006-1) ... Selecting previously unselected package libsub-quote-perl. Preparing to unpack .../56-libsub-quote-perl_2.006006-1_all.deb ... Unpacking libsub-quote-perl (2.006006-1) ... Selecting previously unselected package libmoo-perl. Preparing to unpack .../57-libmoo-perl_2.004004-1_all.deb ... Unpacking libmoo-perl (2.004004-1) ... Selecting previously unselected package libmoox-aliases-perl. Preparing to unpack .../58-libmoox-aliases-perl_0.001006-1.1_all.deb ... Unpacking libmoox-aliases-perl (0.001006-1.1) ... Selecting previously unselected package libmouse-perl. Preparing to unpack .../59-libmouse-perl_2.5.10-1+b1_amd64.deb ... Unpacking libmouse-perl (2.5.10-1+b1) ... Selecting previously unselected package libpackage-stash-perl. Preparing to unpack .../60-libpackage-stash-perl_0.39-1_all.deb ... Unpacking libpackage-stash-perl (0.39-1) ... Selecting previously unselected package libsub-identify-perl. Preparing to unpack .../61-libsub-identify-perl_0.14-1+b3_amd64.deb ... Unpacking libsub-identify-perl (0.14-1+b3) ... Selecting previously unselected package libsub-name-perl. Preparing to unpack .../62-libsub-name-perl_0.26-1+b1_amd64.deb ... Unpacking libsub-name-perl (0.26-1+b1) ... Selecting previously unselected package libnamespace-clean-perl. Preparing to unpack .../63-libnamespace-clean-perl_0.27-1_all.deb ... Unpacking libnamespace-clean-perl (0.27-1) ... Selecting previously unselected package libpath-tiny-perl. Preparing to unpack .../64-libpath-tiny-perl_0.118-1_all.deb ... Unpacking libpath-tiny-perl (0.118-1) ... Selecting previously unselected package libperlio-gzip-perl. Preparing to unpack .../65-libperlio-gzip-perl_0.19-1+b7_amd64.deb ... Unpacking libperlio-gzip-perl (0.19-1+b7) ... Selecting previously unselected package libproc-processtable-perl. Preparing to unpack .../66-libproc-processtable-perl_0.59-2+b1_amd64.deb ... Unpacking libproc-processtable-perl (0.59-2+b1) ... Selecting previously unselected package libsereal-decoder-perl. Preparing to unpack .../67-libsereal-decoder-perl_4.018+ds-1+b1_amd64.deb ... Unpacking libsereal-decoder-perl (4.018+ds-1+b1) ... Selecting previously unselected package libsereal-encoder-perl. Preparing to unpack .../68-libsereal-encoder-perl_4.018+ds-1+b1_amd64.deb ... Unpacking libsereal-encoder-perl (4.018+ds-1+b1) ... Selecting previously unselected package libtext-levenshteinxs-perl. Preparing to unpack .../69-libtext-levenshteinxs-perl_0.03-4+b8_amd64.deb ... Unpacking libtext-levenshteinxs-perl (0.03-4+b8) ... Selecting previously unselected package libtext-markdown-discount-perl:amd64. Preparing to unpack .../70-libtext-markdown-discount-perl_0.12-1+b1_amd64.deb ... Unpacking libtext-markdown-discount-perl:amd64 (0.12-1+b1) ... Selecting previously unselected package libtext-xslate-perl. Preparing to unpack .../71-libtext-xslate-perl_3.5.8-1+b1_amd64.deb ... Unpacking libtext-xslate-perl (3.5.8-1+b1) ... Selecting previously unselected package libtime-duration-perl. Preparing to unpack .../72-libtime-duration-perl_1.21-1_all.deb ... Unpacking libtime-duration-perl (1.21-1) ... Selecting previously unselected package libtime-moment-perl. Preparing to unpack .../73-libtime-moment-perl_0.44-1+b3_amd64.deb ... Unpacking libtime-moment-perl (0.44-1+b3) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../74-libtimedate-perl_2.3300-2_all.deb ... Unpacking libtimedate-perl (2.3300-2) ... Selecting previously unselected package libtype-tiny-perl. Preparing to unpack .../75-libtype-tiny-perl_1.012001-2_all.deb ... Unpacking libtype-tiny-perl (1.012001-2) ... Selecting previously unselected package libunicode-utf8-perl. Preparing to unpack .../76-libunicode-utf8-perl_0.62-1+b2_amd64.deb ... Unpacking libunicode-utf8-perl (0.62-1+b2) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../77-liburi-perl_5.08-1_all.deb ... Unpacking liburi-perl (5.08-1) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../78-libyaml-0-2_0.2.2-1_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.2-1) ... Selecting previously unselected package libyaml-libyaml-perl. Preparing to unpack .../79-libyaml-libyaml-perl_0.82+repack-1+b1_amd64.deb ... Unpacking libyaml-libyaml-perl (0.82+repack-1+b1) ... Selecting previously unselected package lzip. Preparing to unpack .../80-lzip_1.22-3_amd64.deb ... Unpacking lzip (1.22-3) ... Selecting previously unselected package lzop. Preparing to unpack .../81-lzop_1.04-2_amd64.deb ... Unpacking lzop (1.04-2) ... Selecting previously unselected package patchutils. Preparing to unpack .../82-patchutils_0.4.2-1_amd64.deb ... Unpacking patchutils (0.4.2-1) ... Selecting previously unselected package t1utils. Preparing to unpack .../83-t1utils_1.41-4_amd64.deb ... Unpacking t1utils (1.41-4) ... Selecting previously unselected package unzip. Preparing to unpack .../84-unzip_6.0-26_amd64.deb ... Unpacking unzip (6.0-26) ... Selecting previously unselected package lintian. Preparing to unpack .../85-lintian_2.104.0_all.deb ... Unpacking lintian (2.104.0) ... Selecting previously unselected package sbuild-build-depends-lintian-dummy:armhf. Preparing to unpack .../86-sbuild-build-depends-lintian-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Setting up libapt-pkg-perl (0.1.40) ... Setting up libunicode-utf8-perl (0.62-1+b2) ... Setting up libmouse-perl (2.5.10-1+b1) ... Setting up libdata-messagepack-perl (1.00-4+b1) ... Setting up libdynaloader-functions-perl (0.003-1.1) ... Setting up libtext-glob-perl (0.11-1) ... Setting up libclass-method-modifiers-perl (2.13-1) ... Setting up liblist-compare-perl (0.55-1) ... Setting up libclone-perl (0.45-1+b1) ... Setting up libyaml-0-2:amd64 (0.2.2-1) ... Setting up libsub-identify-perl (0.14-1+b3) ... Setting up libcpanel-json-xs-perl (4.25-1+b1) ... Setting up libdevel-size-perl (0.83-1+b2) ... Setting up unzip (6.0-26) ... Setting up libyaml-libyaml-perl (0.82+repack-1+b1) ... Setting up libtry-tiny-perl (0.30-1) ... Setting up liblzo2-2:amd64 (2.10-2) ... Setting up libtime-moment-perl (0.44-1+b3) ... Setting up libassuan0:amd64 (2.5.4-1) ... Setting up libconfig-tiny-perl (2.26-1) ... Setting up libsereal-encoder-perl (4.018+ds-1+b1) ... Setting up liblist-utilsby-perl (0.11-1) ... Setting up libsub-install-perl (0.928-1.1) ... Setting up libnumber-compare-perl (0.03-1.1) ... Setting up patchutils (0.4.2-1) ... Setting up libjson-maybexs-perl (1.004003-1) ... Setting up libclass-data-inheritable-perl (0.08-3) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up libipc-system-simple-perl (1.30-1) ... Setting up libnet-domain-tld-perl (1.75-1.1) ... Setting up lzip (1.22-3) ... Setting up t1utils (1.41-4) ... Setting up diffstat (1.64-1) ... Setting up libvariable-magic-perl (0.62-1+b3) ... Setting up libb-hooks-op-check-perl (0.22-1+b3) ... Setting up liblist-moreutils-xs-perl (0.430-2) ... Setting up libparams-util-perl (1.102-1+b1) ... Setting up libtime-duration-perl (1.21-1) ... Setting up libtext-xslate-perl (3.5.8-1+b1) ... Setting up libsub-exporter-progressive-perl (0.001013-1) ... Setting up libcapture-tiny-perl (0.48-1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libsub-name-perl (0.26-1+b1) ... Setting up libdata-validate-domain-perl (0.10-1.1) ... Setting up libproc-processtable-perl (0.59-2+b1) ... Setting up libpath-tiny-perl (0.118-1) ... Setting up lzop (1.04-2) ... Setting up gpgconf (2.2.27-1) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libipc-run3-perl (0.048-2) ... Setting up libaliased-perl (0.34-1.1) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libdevel-stacktrace-perl (2.0400-1) ... Setting up libclass-xsaccessor-perl (1.19-3+b7) ... Setting up libexporter-tiny-perl (1.002002-1) ... Setting up libfont-ttf-perl (1.06-1.1) ... Setting up libtext-levenshteinxs-perl (0.03-4+b8) ... Setting up libperlio-gzip-perl (0.19-1+b7) ... Setting up libhtml-html5-entities-perl (0.004-1.1) ... Setting up libsereal-decoder-perl (4.018+ds-1+b1) ... Setting up libmarkdown2:amd64 (2.2.6-1) ... Setting up liburi-perl (5.08-1) ... Setting up gpg (2.2.27-1) ... Setting up libemail-address-xs-perl (1.04-1+b3) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up liblist-moreutils-perl (0.430-2) ... Setting up libtype-tiny-perl (1.012001-2) ... Setting up libtext-markdown-discount-perl:amd64 (0.12-1+b1) ... Setting up libexception-class-perl (1.44-1) ... Setting up libdevel-callchecker-perl (0.008-1+b2) ... Setting up libdata-optlist-perl (0.110-1.1) ... Setting up libsub-exporter-perl (0.987-1) ... Setting up libiterator-perl (0.03+ds1-1.1) ... Setting up libiterator-util-perl (0.02+ds1-1.1) ... Setting up libparams-classify-perl (0.015-1+b3) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libdata-dpath-perl (0.58-1) ... Setting up libmodule-implementation-perl (0.09-1.1) ... Setting up libpackage-stash-perl (0.39-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libmoo-perl (2.004004-1) ... Setting up libmoox-aliases-perl (0.001006-1.1) ... Setting up libb-hooks-endofscope-perl (0.24-1.1) ... Setting up libnamespace-clean-perl (0.27-1) ... Setting up lintian (2.104.0) ... Setting up sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.31-9) ... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 40204 Build-Time: 577 Distribution: unstable Foreign Architectures: armhf Host Architecture: armhf Install-Time: 37 Job: bedops_2.4.39+dfsg1-2 Lintian: pass Machine Architecture: amd64 Package: bedops Package-Time: 624 Source-Version: 2.4.39+dfsg1-2 Space: 40204 Status: successful Version: 2.4.39+dfsg1-2 -------------------------------------------------------------------------------- Finished at 2021-03-15T07:35:28Z Build needed 00:10:24, 40204k disk space