sbuild (Debian sbuild) 0.85.0 (04 January 2023) on mjolnir.einval.org +==============================================================================+ | bifrost 1.3.1-2 (i386) Sun, 28 Sep 2025 07:00:03 +0000 | +==============================================================================+ Package: bifrost Version: 1.3.1-2 Source Version: 1.3.1-2 Distribution: unstable Machine Architecture: arm64 Host Architecture: i386 Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Unpacking /home/helmut/.cache/sbuild/unstable-arm64-sbuild.tar.zst to /tmp/tmp.sbuild.mftAjmk1gK... I: NOTICE: Log filtering will replace 'sbuild-unshare-dummy-location' with '<>' I: NOTICE: Log filtering will replace 'build/bifrost-LY18su/resolver-ynXIGG' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://mirror.einval.org/debian unstable InRelease [207 kB] Get:2 http://mirror.einval.org/debian unstable/main Sources [11.1 MB] Get:3 http://mirror.einval.org/debian unstable/main arm64 Packages [10.1 MB] Get:4 http://mirror.einval.org/debian unstable/main i386 Packages [9944 kB] Fetched 31.4 MB in 7s (4355 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: grep linux-libc-dev 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2983 kB of archives. After this operation, 90.1 kB of additional disk space will be used. Get:1 http://mirror.einval.org/debian unstable/main arm64 grep arm64 3.12-1 [440 kB] Get:2 http://mirror.einval.org/debian unstable/main i386 linux-libc-dev all 6.16.9-1 [2543 kB] Fetched 2983 kB in 0s (53.3 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12064 files and directories currently installed.) Preparing to unpack .../archives/grep_3.12-1_arm64.deb ... Unpacking grep (3.12-1) over (3.11-4+b1) ... Setting up grep (3.12-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12063 files and directories currently installed.) Preparing to unpack .../linux-libc-dev_6.16.9-1_all.deb ... Unpacking linux-libc-dev (6.16.9-1) over (6.16.8-1) ... Setting up linux-libc-dev (6.16.9-1) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'bifrost' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/bifrost.git Please use: git clone https://salsa.debian.org/med-team/bifrost.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 364 kB of source archives. Get:1 http://mirror.einval.org/debian unstable/main bifrost 1.3.1-2 (dsc) [2100 B] Get:2 http://mirror.einval.org/debian unstable/main bifrost 1.3.1-2 (tar) [350 kB] Get:3 http://mirror.einval.org/debian unstable/main bifrost 1.3.1-2 (diff) [12.5 kB] Fetched 364 kB in 0s (3482 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/bifrost-LY18su/bifrost-1.3.1' with '<>' I: NOTICE: Log filtering will replace 'build/bifrost-LY18su' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-i386:arm64, libc-dev:i386, libstdc++-dev:i386 Filtered Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-i386:arm64, libc-dev:i386, libstdc++-dev:i386 dpkg-deb: warning: root directory /<>/sbuild-build-depends-main-dummy has unusual owner or group 998:999 dpkg-deb: hint: you might need to pass --root-owner-group, see for further details dpkg-deb: warning: ignoring 1 warning about the control file(s) 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 [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [740 B] Get:5 copy:/<>/apt_archive ./ Packages [782 B] Fetched 2131 B in 0s (101 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... Execute external solver... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-i686-linux-gnu bsdextrautils cmake cmake-data cpp-15-i686-linux-gnu cpp-i686-linux-gnu crossbuild-essential-i386 d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-15-i686-linux-gnu g++-i686-linux-gnu gcc-15-base:i386 gcc-15-cross-base gcc-15-i686-linux-gnu gcc-15-i686-linux-gnu-base gcc-i686-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13t64 libasan8:i386 libasan8-i386-cross libatomic1:i386 libatomic1-i386-cross libbrotli1 libc6:i386 libc6-dev:i386 libc6-dev-i386-cross libc6-i386-cross libcom-err2 libcrypt-dev:i386 libcrypt1:i386 libcurl4t64 libdebhelper-perl libelf1t64 libexpat1 libfakeroot libffi8 libfile-stripnondeterminism-perl libgcc-15-dev:i386 libgcc-15-dev-i386-cross libgcc-s1:i386 libgcc-s1-i386-cross libgnutls30t64 libgomp1:i386 libgomp1-i386-cross libgssapi-krb5-2 libidn2-0 libitm1:i386 libitm1-i386-cross libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap2 libmagic-mgc libmagic1t64 libncursesw6 libnghttp2-14 libnghttp3-9 libp11-kit0 libpipeline1 libproc2-0 libpsl5t64 libquadmath0:i386 libquadmath0-i386-cross librhash1 librtmp1 libsasl2-2 libsasl2-modules-db libssh2-1t64 libstdc++-15-dev:i386 libstdc++-15-dev-i386-cross libstdc++6:i386 libstdc++6-i386-cross libtasn1-6 libtool libubsan1:i386 libubsan1-i386-cross libuchardet0 libunistring5 libuv1t64 libxml2-16 linux-libc-dev-i386-cross m4 man-db po-debconf procps sensible-utils zlib1g:i386 zlib1g-dev:i386 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc cmake-doc cmake-format elpa-cmake-mode ninja-build gcc-15-locales cpp-15-doc cpp-doc dh-make gcc-15-doc manpages-dev flex bison gdb-i686-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff lrzip glibc-doc:i386 libc-l10n:i386 locales:i386 libnss-nis:i386 libnss-nisplus:i386 manpages-dev:i386 gnutls-bin krb5-doc krb5-user libstdc++-15-doc:i386 libtool-doc gfortran | fortran95-compiler m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:i386 ca-certificates libarchive-cpio-perl krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl psmisc linux-sysctl-defaults The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-i686-linux-gnu bsdextrautils cmake cmake-data cpp-15-i686-linux-gnu cpp-i686-linux-gnu crossbuild-essential-i386 d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-15-i686-linux-gnu g++-i686-linux-gnu gcc-15-base:i386 gcc-15-cross-base gcc-15-i686-linux-gnu gcc-15-i686-linux-gnu-base gcc-i686-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13t64 libasan8:i386 libasan8-i386-cross libatomic1:i386 libatomic1-i386-cross libbrotli1 libc6:i386 libc6-dev:i386 libc6-dev-i386-cross libc6-i386-cross libcom-err2 libcrypt-dev:i386 libcrypt1:i386 libcurl4t64 libdebhelper-perl libelf1t64 libexpat1 libfakeroot libffi8 libfile-stripnondeterminism-perl libgcc-15-dev:i386 libgcc-15-dev-i386-cross libgcc-s1:i386 libgcc-s1-i386-cross libgnutls30t64 libgomp1:i386 libgomp1-i386-cross libgssapi-krb5-2 libidn2-0 libitm1:i386 libitm1-i386-cross libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap2 libmagic-mgc libmagic1t64 libncursesw6 libnghttp2-14 libnghttp3-9 libp11-kit0 libpipeline1 libproc2-0 libpsl5t64 libquadmath0:i386 libquadmath0-i386-cross librhash1 librtmp1 libsasl2-2 libsasl2-modules-db libssh2-1t64 libstdc++-15-dev:i386 libstdc++-15-dev-i386-cross libstdc++6:i386 libstdc++6-i386-cross libtasn1-6 libtool libubsan1:i386 libubsan1-i386-cross libuchardet0 libunistring5 libuv1t64 libxml2-16 linux-libc-dev-i386-cross m4 man-db po-debconf procps sbuild-build-depends-main-dummy:i386 sensible-utils zlib1g:i386 zlib1g-dev:i386 0 upgraded, 104 newly installed, 0 to remove and 0 not upgraded. Need to get 328 MB of archives. After this operation, 1415 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [932 B] Get:2 http://mirror.einval.org/debian unstable/main arm64 libexpat1 arm64 2.7.3-1 [96.5 kB] Get:3 http://mirror.einval.org/debian unstable/main arm64 libncursesw6 arm64 6.5+20250216-2 [124 kB] Get:4 http://mirror.einval.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get:5 http://mirror.einval.org/debian unstable/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get:6 http://mirror.einval.org/debian unstable/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get:7 http://mirror.einval.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get:8 http://mirror.einval.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get:9 http://mirror.einval.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get:10 http://mirror.einval.org/debian unstable/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get:11 http://mirror.einval.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get:12 http://mirror.einval.org/debian unstable/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get:13 http://mirror.einval.org/debian unstable/main arm64 bsdextrautils arm64 2.41.2-1 [94.3 kB] Get:14 http://mirror.einval.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get:15 http://mirror.einval.org/debian unstable/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get:16 http://mirror.einval.org/debian unstable/main arm64 m4 arm64 1.4.20-1 [316 kB] Get:17 http://mirror.einval.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get:18 http://mirror.einval.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get:19 http://mirror.einval.org/debian unstable/main arm64 automake all 1:1.17-4 [862 kB] Get:20 http://mirror.einval.org/debian unstable/main arm64 autopoint all 0.23.1-2 [770 kB] Get:21 http://mirror.einval.org/debian unstable/main arm64 cmake-data all 4.1.1+really3.31.6-2 [2268 kB] Get:22 http://mirror.einval.org/debian unstable/main arm64 libxml2-16 arm64 2.14.5+dfsg-0.2 [582 kB] Get:23 http://mirror.einval.org/debian unstable/main arm64 libarchive13t64 arm64 3.7.4-4+b1 [323 kB] Get:24 http://mirror.einval.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get:25 http://mirror.einval.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get:26 http://mirror.einval.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get:27 http://mirror.einval.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get:28 http://mirror.einval.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get:29 http://mirror.einval.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get:30 http://mirror.einval.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get:31 http://mirror.einval.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get:32 http://mirror.einval.org/debian unstable/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get:33 http://mirror.einval.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get:34 http://mirror.einval.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get:35 http://mirror.einval.org/debian unstable/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get:36 http://mirror.einval.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get:37 http://mirror.einval.org/debian unstable/main arm64 libnghttp3-9 arm64 1.11.0-1 [66.7 kB] Get:38 http://mirror.einval.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get:39 http://mirror.einval.org/debian unstable/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get:40 http://mirror.einval.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.9-2 [420 kB] Get:41 http://mirror.einval.org/debian unstable/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get:42 http://mirror.einval.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.10-2 [1395 kB] Get:43 http://mirror.einval.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get:44 http://mirror.einval.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get:45 http://mirror.einval.org/debian unstable/main arm64 libcurl4t64 arm64 8.16.0-1 [388 kB] Get:46 http://mirror.einval.org/debian unstable/main arm64 libjsoncpp26 arm64 1.9.6-4 [73.2 kB] Get:47 http://mirror.einval.org/debian unstable/main arm64 librhash1 arm64 1.4.6-1 [131 kB] Get:48 http://mirror.einval.org/debian unstable/main arm64 libuv1t64 arm64 1.51.0-2 [150 kB] Get:49 http://mirror.einval.org/debian unstable/main arm64 cmake arm64 4.1.1+really3.31.6-2 [10.1 MB] Get:50 http://mirror.einval.org/debian unstable/main arm64 gcc-15-i686-linux-gnu-base arm64 15.2.0-4cross1 [53.0 kB] Get:51 http://mirror.einval.org/debian unstable/main arm64 cpp-15-i686-linux-gnu arm64 15.2.0-4cross1 [83.7 MB] Get:52 http://mirror.einval.org/debian unstable/main arm64 cpp-i686-linux-gnu arm64 4:15.2.0-4 [5288 B] Get:53 http://mirror.einval.org/debian unstable/main arm64 binutils-i686-linux-gnu arm64 2.45-7 [1564 kB] Get:54 http://mirror.einval.org/debian unstable/main arm64 gcc-15-cross-base all 15.2.0-4cross1 [48.4 kB] Get:55 http://mirror.einval.org/debian unstable/main arm64 libc6-i386-cross all 2.41-11cross1 [1424 kB] Get:56 http://mirror.einval.org/debian unstable/main arm64 libgcc-s1-i386-cross all 15.2.0-4cross1 [87.0 kB] Get:57 http://mirror.einval.org/debian unstable/main arm64 libgomp1-i386-cross all 15.2.0-4cross1 [139 kB] Get:58 http://mirror.einval.org/debian unstable/main arm64 libitm1-i386-cross all 15.2.0-4cross1 [27.5 kB] Get:59 http://mirror.einval.org/debian unstable/main arm64 libatomic1-i386-cross all 15.2.0-4cross1 [7492 B] Get:60 http://mirror.einval.org/debian unstable/main arm64 libasan8-i386-cross all 15.2.0-4cross1 [2642 kB] Get:61 http://mirror.einval.org/debian unstable/main arm64 libstdc++6-i386-cross all 15.2.0-4cross1 [733 kB] Get:62 http://mirror.einval.org/debian unstable/main arm64 libubsan1-i386-cross all 15.2.0-4cross1 [1080 kB] Get:63 http://mirror.einval.org/debian unstable/main arm64 libquadmath0-i386-cross all 15.2.0-4cross1 [229 kB] Get:64 http://mirror.einval.org/debian unstable/main arm64 libgcc-15-dev-i386-cross all 15.2.0-4cross1 [2618 kB] Get:65 http://mirror.einval.org/debian unstable/main arm64 gcc-15-i686-linux-gnu arm64 15.2.0-4cross1 [92.1 MB] Get:66 http://mirror.einval.org/debian unstable/main arm64 gcc-i686-linux-gnu arm64 4:15.2.0-4 [1444 B] Get:67 http://mirror.einval.org/debian unstable/main arm64 linux-libc-dev-i386-cross all 6.12.38-1cross1 [2470 kB] Get:68 http://mirror.einval.org/debian unstable/main arm64 libc6-dev-i386-cross all 2.41-11cross1 [1806 kB] Get:69 http://mirror.einval.org/debian unstable/main arm64 libstdc++-15-dev-i386-cross all 15.2.0-4cross1 [2488 kB] Get:70 http://mirror.einval.org/debian unstable/main arm64 g++-15-i686-linux-gnu arm64 15.2.0-4cross1 [89.1 MB] Get:71 http://mirror.einval.org/debian unstable/main arm64 g++-i686-linux-gnu arm64 4:15.2.0-4 [1192 B] Get:72 http://mirror.einval.org/debian unstable/main arm64 crossbuild-essential-i386 all 12.12 [3544 B] Get:73 http://mirror.einval.org/debian unstable/main arm64 d-shlibs all 0.109 [11.1 kB] Get:74 http://mirror.einval.org/debian unstable/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get:75 http://mirror.einval.org/debian unstable/main arm64 libtool all 2.5.4-5 [540 kB] Get:76 http://mirror.einval.org/debian unstable/main arm64 dh-autoreconf all 21 [12.2 kB] Get:77 http://mirror.einval.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get:78 http://mirror.einval.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get:79 http://mirror.einval.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get:80 http://mirror.einval.org/debian unstable/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get:81 http://mirror.einval.org/debian unstable/main arm64 dwz arm64 0.16-2 [100 kB] Get:82 http://mirror.einval.org/debian unstable/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get:83 http://mirror.einval.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:84 http://mirror.einval.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get:85 http://mirror.einval.org/debian unstable/main arm64 debhelper all 13.28 [941 kB] Get:86 http://mirror.einval.org/debian unstable/main arm64 libfakeroot arm64 1.37.1.2-1 [29.7 kB] Get:87 http://mirror.einval.org/debian unstable/main arm64 fakeroot arm64 1.37.1.2-1 [75.4 kB] Get:88 http://mirror.einval.org/debian unstable/main i386 gcc-15-base i386 15.2.0-4 [52.8 kB] Get:89 http://mirror.einval.org/debian unstable/main i386 libgcc-s1 i386 15.2.0-4 [87.0 kB] Get:90 http://mirror.einval.org/debian unstable/main i386 libc6 i386 2.41-12 [2720 kB] Get:91 http://mirror.einval.org/debian unstable/main i386 libasan8 i386 15.2.0-4 [2650 kB] Get:92 http://mirror.einval.org/debian unstable/main i386 libatomic1 i386 15.2.0-4 [7744 B] Get:93 http://mirror.einval.org/debian unstable/main i386 libcrypt1 i386 1:4.4.38-1 [95.7 kB] Get:94 http://mirror.einval.org/debian unstable/main i386 libcrypt-dev i386 1:4.4.38-1 [126 kB] Get:95 http://mirror.einval.org/debian unstable/main i386 libc6-dev i386 2.41-12 [1809 kB] Get:96 http://mirror.einval.org/debian unstable/main i386 libgomp1 i386 15.2.0-4 [142 kB] Get:97 http://mirror.einval.org/debian unstable/main i386 libitm1 i386 15.2.0-4 [28.0 kB] Get:98 http://mirror.einval.org/debian unstable/main i386 libstdc++6 i386 15.2.0-4 [781 kB] Get:99 http://mirror.einval.org/debian unstable/main i386 libubsan1 i386 15.2.0-4 [1081 kB] Get:100 http://mirror.einval.org/debian unstable/main i386 libquadmath0 i386 15.2.0-4 [229 kB] Get:101 http://mirror.einval.org/debian unstable/main i386 libgcc-15-dev i386 15.2.0-4 [2624 kB] Get:102 http://mirror.einval.org/debian unstable/main i386 libstdc++-15-dev i386 15.2.0-4 [2484 kB] Get:103 http://mirror.einval.org/debian unstable/main i386 zlib1g i386 1:1.3.dfsg+really1.3.1-1+b1 [84.7 kB] Get:104 http://mirror.einval.org/debian unstable/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB] Preconfiguring packages ... Fetched 328 MB in 4s (86.5 MB/s) Selecting previously unselected package libexpat1:arm64. (Reading database ... 12063 files and directories currently installed.) Preparing to unpack .../000-libexpat1_2.7.3-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.3-1) ... Selecting previously unselected package libncursesw6:arm64. Preparing to unpack .../001-libncursesw6_6.5+20250216-2_arm64.deb ... Unpacking libncursesw6:arm64 (6.5+20250216-2) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-9_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-9_arm64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. 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Setting up file (1:5.46-5) ... Setting up libfakeroot:arm64 (1.37.1.2-1) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up libkrb5support0:arm64 (1.21.3-5) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-9) ... Setting up fakeroot (1.37.1.2-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up linux-libc-dev-i386-cross (6.12.38-1cross1) ... Setting up autotools-dev (20240727.1) ... Setting up libjsoncpp26:arm64 (1.9.6-4) ... Setting up libproc2-0:arm64 (2:4.0.4-9) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up gcc-15-i686-linux-gnu-base:arm64 (15.2.0-4cross1) ... Setting up autopoint (0.23.1-2) ... Setting up d-shlibs (0.109) ... Setting up libncursesw6:arm64 (6.5+20250216-2) ... Setting up libk5crypto3:arm64 (1.21.3-5) ... Setting up libsasl2-2:arm64 (2.1.28+dfsg1-9) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:arm64 (1.11.0-1) ... Setting up libffi8:arm64 (3.5.2-2) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-2) ... Setting up procps (2:4.0.4-9) ... Setting up libtasn1-6:arm64 (4.20.0-2) ... Setting up libc6-i386-cross (2.41-11cross1) ... Setting up cmake-data (4.1.1+really3.31.6-2) ... Setting up librhash1:arm64 (1.4.6-1) ... Setting up libkrb5-3:arm64 (1.21.3-5) ... Setting up libssh2-1t64:arm64 (1.11.1-1) ... Setting up gcc-15-cross-base (15.2.0-4cross1) ... Setting up gcc-15-base:i386 (15.2.0-4) ... Setting up libquadmath0-i386-cross (15.2.0-4cross1) ... Setting up libarchive13t64:arm64 (3.7.4-4+b1) ... Setting up libldap2:arm64 (2.6.10+dfsg-1) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-5) ... Setting up libatomic1-i386-cross (15.2.0-4cross1) ... Setting up cpp-15-i686-linux-gnu (15.2.0-4cross1) ... Setting up libidn2-0:arm64 (2.3.8-4) ... Setting up libgomp1-i386-cross (15.2.0-4cross1) ... Setting up libc6-dev-i386-cross (2.41-11cross1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libgcc-s1-i386-cross (15.2.0-4cross1) ... Setting up dh-autoreconf (21) ... Setting up libitm1-i386-cross (15.2.0-4cross1) ... Setting up libp11-kit0:arm64 (0.25.9-2) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up cpp-i686-linux-gnu (4:15.2.0-4) ... Setting up libgnutls30t64:arm64 (3.8.10-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libasan8-i386-cross (15.2.0-4cross1) ... Setting up libstdc++6-i386-cross (15.2.0-4cross1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libcurl4t64:arm64 (8.16.0-1) ... Setting up debhelper (13.28) ... Setting up libubsan1-i386-cross (15.2.0-4cross1) ... Setting up libgcc-15-dev-i386-cross (15.2.0-4cross1) ... Setting up libstdc++-15-dev-i386-cross (15.2.0-4cross1) ... Setting up cmake (4.1.1+really3.31.6-2) ... Setting up gcc-15-i686-linux-gnu (15.2.0-4cross1) ... Setting up g++-15-i686-linux-gnu (15.2.0-4cross1) ... Setting up gcc-i686-linux-gnu (4:15.2.0-4) ... Setting up g++-i686-linux-gnu (4:15.2.0-4) ... Setting up crossbuild-essential-i386 (12.12) ... Setting up libgcc-s1:i386 (15.2.0-4) ... Setting up libc6:i386 (2.41-12) ... Setting up libasan8:i386 (15.2.0-4) ... Setting up libstdc++6:i386 (15.2.0-4) ... Setting up libitm1:i386 (15.2.0-4) ... Setting up zlib1g:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libcrypt1:i386 (1:4.4.38-1) ... Setting up libgomp1:i386 (15.2.0-4) ... Setting up libquadmath0:i386 (15.2.0-4) ... Setting up libatomic1:i386 (15.2.0-4) ... Setting up libubsan1:i386 (15.2.0-4) ... Setting up libcrypt-dev:i386 (1:4.4.38-1) ... Setting up libc6-dev:i386 (2.41-12) ... Setting up libgcc-15-dev:i386 (15.2.0-4) ... Setting up libstdc++-15-dev:i386 (15.2.0-4) ... Setting up zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up sbuild-build-depends-main-dummy:i386 (0.invalid.0) ... Processing triggers for libc-bin (2.41-12) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (i386 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-37-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) arm64 (aarch64) Toolchain package versions: binutils_2.45-7 dpkg-dev_1.22.21 g++-15_15.2.0-4 gcc-15_15.2.0-4 libc6-dev_2.41-12 libstdc++-15-dev_15.2.0-4 libstdc++-15-dev-i386-cross_15.2.0-4cross1 libstdc++6_15.2.0-4 libstdc++6-i386-cross_15.2.0-4cross1 linux-libc-dev_6.16.9-1 Package versions: apt_3.1.6 apt-utils_3.1.6 autoconf_2.72-3.1 automake_1:1.17-4 autopoint_0.23.1-2 autotools-dev_20240727.1 base-files_14 base-passwd_3.6.7 bash_5.3-1 binutils_2.45-7 binutils-aarch64-linux-gnu_2.45-7 binutils-common_2.45-7 binutils-i686-linux-gnu_2.45-7 bsdextrautils_2.41.2-1 build-essential_12.12 bzip2_1.0.8-6 cmake_4.1.1+really3.31.6-2 cmake-data_4.1.1+really3.31.6-2 coreutils_9.7-3 cpp_4:15.2.0-4 cpp-15_15.2.0-4 cpp-15-aarch64-linux-gnu_15.2.0-4 cpp-15-i686-linux-gnu_15.2.0-4cross1 cpp-aarch64-linux-gnu_4:15.2.0-4 cpp-i686-linux-gnu_4:15.2.0-4 crossbuild-essential-i386_12.12 d-shlibs_0.109 dash_0.5.12-12 debconf_1.5.91 debhelper_13.28 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_21 dh-strip-nondeterminism_1.15.0-1 diffutils_1:3.10-4 dpkg_1.22.21 dpkg-dev_1.22.21 dwz_0.16-2 fakeroot_1.37.1.2-1 file_1:5.46-5 findutils_4.10.0-3 g++_4:15.2.0-4 g++-15_15.2.0-4 g++-15-aarch64-linux-gnu_15.2.0-4 g++-15-i686-linux-gnu_15.2.0-4cross1 g++-aarch64-linux-gnu_4:15.2.0-4 g++-i686-linux-gnu_4:15.2.0-4 gcc_4:15.2.0-4 gcc-15_15.2.0-4 gcc-15-aarch64-linux-gnu_15.2.0-4 gcc-15-base_15.2.0-4 gcc-15-cross-base_15.2.0-4cross1 gcc-15-i686-linux-gnu_15.2.0-4cross1 gcc-15-i686-linux-gnu-base_15.2.0-4cross1 gcc-aarch64-linux-gnu_4:15.2.0-4 gcc-i686-linux-gnu_4:15.2.0-4 gettext_0.23.1-2+b1 gettext-base_0.23.1-2+b1 grep_3.12-1 groff-base_1.23.0-9 gzip_1.13-1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2+b1 libapt-pkg7.0_3.1.6 libarchive-zip-perl_1.68-1 libarchive13t64_3.7.4-4+b1 libasan8_15.2.0-4 libasan8-i386-cross_15.2.0-4cross1 libatomic1_15.2.0-4 libatomic1-i386-cross_15.2.0-4cross1 libattr1_1:2.5.2-3 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1 libbinutils_2.45-7 libblkid1_2.41.2-1 libbrotli1_1.1.0-2+b7 libbz2-1.0_1.0.8-6 libc-bin_2.41-12 libc-dev-bin_2.41-12 libc6_2.41-12 libc6-dev_2.41-12 libc6-dev-i386-cross_2.41-11cross1 libc6-i386-cross_2.41-11cross1 libcap-ng0_0.8.5-4+b1 libcap2_1:2.75-10+b1 libcc1-0_15.2.0-4 libcom-err2_1.47.2-3+b3 libcrypt-dev_1:4.4.38-1 libcrypt1_1:4.4.38-1 libctf-nobfd0_2.45-7 libctf0_2.45-7 libcurl4t64_8.16.0-1 libdb5.3t64_5.3.28+dfsg2-9 libdebconfclient0_0.280 libdebhelper-perl_13.28 libdpkg-perl_1.22.21 libelf1t64_0.193-3 libexpat1_2.7.3-1 libfakeroot_1.37.1.2-1 libffi8_3.5.2-2 libfile-stripnondeterminism-perl_1.15.0-1 libgcc-15-dev_15.2.0-4 libgcc-15-dev-i386-cross_15.2.0-4cross1 libgcc-s1_15.2.0-4 libgcc-s1-i386-cross_15.2.0-4cross1 libgdbm-compat4t64_1.26-1 libgdbm6t64_1.26-1 libgmp10_2:6.3.0+dfsg-5 libgnutls30t64_3.8.10-2 libgomp1_15.2.0-4 libgomp1-i386-cross_15.2.0-4cross1 libgprofng0_2.45-7 libgssapi-krb5-2_1.21.3-5 libhogweed6t64_3.10.2-1 libhwasan0_15.2.0-4 libidn2-0_2.3.8-4 libisl23_0.27-1 libitm1_15.2.0-4 libitm1-i386-cross_15.2.0-4cross1 libjansson4_2.14-2+b3 libjsoncpp26_1.9.6-4 libk5crypto3_1.21.3-5 libkeyutils1_1.6.3-6 libkrb5-3_1.21.3-5 libkrb5support0_1.21.3-5 liblastlog2-2_2.41.2-1 libldap2_2.6.10+dfsg-1 liblsan0_15.2.0-4 liblz4-1_1.10.0-4 liblzma5_5.8.1-1.1 libmagic-mgc_1:5.46-5 libmagic1t64_1:5.46-5 libmd0_1.1.0-2+b1 libmount1_2.41.2-1 libmpc3_1.3.1-2 libmpfr6_4.2.2-2 libncursesw6_6.5+20250216-2 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bifrost Binary: bifrost, libbifrost0, libbifrost-dev Architecture: any Version: 1.3.1-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/pmelsted/bifrost Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/bifrost Vcs-Git: https://salsa.debian.org/med-team/bifrost.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev Package-List: bifrost deb python optional arch=any libbifrost-dev deb libdevel optional arch=any libbifrost0 deb libs optional arch=any Checksums-Sha1: 9daeeab211c6f2bd19b8ac6ad12dac770e8f100f 349856 bifrost_1.3.1.orig.tar.gz 947b2d2ce147f5421c55e6b709865152f3b368e8 12456 bifrost_1.3.1-2.debian.tar.xz Checksums-Sha256: d6a9baacddba8e9508336c5adff15a8a482774c724fc0710392fed7bb9ad1e8b 349856 bifrost_1.3.1.orig.tar.gz 9324ba45d539e98a80853c84f877e21baff8ce707f2b7d8ab150fe4b33dea30c 12456 bifrost_1.3.1-2.debian.tar.xz Files: 71940660817cb6a0af24663bf00cc5db 349856 bifrost_1.3.1.orig.tar.gz b40f8a7cee57f2af6d7ba6a3e40acb65 12456 bifrost_1.3.1-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEI3pUsQKHKL8A7zH00Ot2KGX8XjYFAmjYLmYUHHNlcmdpb2Rq QGRlYmlhbi5vcmcACgkQ0Ot2KGX8XjZ9chAAlWOpzCvH/Usww/vDv48lYqw7GV85 jljQpHwG7+3fPQHBWH1YoTRH7ZvOKaiDC6FSlEtRjiC6eOXUnBLz994geKlMlwQ5 0sKRCFCFFuSX6rpgDi3W3ebNAoKcne6OnGotyZM0eM/Wuc/7mPPHXIXpC8NJT2kw PM7JjB2xmaCE6xgJf0prr+I7H5zkj3g0n6uUqLeqZETh3I8bqa4w2p5i4EEq+Eaq exFrCrSf49aNu8HBMpNx7wFaIAwh3VcW7lm4vfXwyOVF0q0UDeGxs6S87i2M0GiY 9TGEFgx+KJgTdQfoGOjtNvPOLue3iU9PYFvm/l0sPyjRLrDy6QFFdreqdqlnQ9/7 mRvWiW9weppxEI1TnERtJX0gybfqKcFFGlwG5J4/kEWsi7yAZdVPLrsRuQiPZHVF S/fJRcO63VGQygSU+DmijiuMinvi+rdt3vAoro2hcamLzNP+v8CyV8Kim+qxc4DN hT6G5TAI2A6B4U0tFYn3Cq+HNMApiDOoloOGl5vjMhgdibsLdjMHqg2dkyfb3Vqn Crm3t8gYnZ7qgiNVlN+w1PS6XFFkaDP0WKqRgKun0/MDF95i9pLu9vwr9PELR1K4 8Xs0o5gqVMCqlo7wtv+4ZS6q4Hq/hC4JX8GOdGT/K4bTAnVQ9532wJPbz+JYewfV SR+UI2OkhYAR6Jc= =cceh -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./bifrost_1.3.1-2.dsc: no acceptable signature found dpkg-source: info: extracting bifrost in /<> dpkg-source: info: unpacking bifrost_1.3.1.orig.tar.gz dpkg-source: info: unpacking bifrost_1.3.1-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_soname.patch dpkg-source: info: applying 0002-Fix-compilation-error-with-custom-unitig-data.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.i386 DEB_BUILD_OPTIONS=nocheck HOME=/var/lib/sbuild LANG=en_GB.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut OLDPWD=/ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/<> SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -ai386 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package bifrost dpkg-buildpackage: info: source version 1.3.1-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Sergio Durigan Junior dpkg-architecture: warning: specified GNU system type i686-linux-gnu does not match CC system type aarch64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- -DCOMPILATION_ARCH=OFF cd obj-i686-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/i686-linux-gnu-pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_SYSTEM_NAME=Linux -DCMAKE_SYSTEM_PROCESSOR=i686 -DCMAKE_C_COMPILER=i686-linux-gnu-gcc -DCMAKE_CXX_COMPILER=i686-linux-gnu-g\+\+ -DPKG_CONFIG_EXECUTABLE=/usr/bin/i686-linux-gnu-pkg-config -DPKGCONFIG_EXECUTABLE=/usr/bin/i686-linux-gnu-pkg-config -DQMAKE_EXECUTABLE=/usr/bin/i686-linux-gnu-qmake -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu -DBUILD_TESTING:BOOL=OFF -DCOMPILATION_ARCH=OFF .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/i686-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/i686-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE Disabling native architecture compilation (including AVX2) Build type: Release Maximum k-mer size: 31 Maximum g-mer size: 31 -- Found ZLIB: /usr/lib/i386-linux-gnu/libz.so (found version "1.3.1") -- Configuring done (2.0s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: BUILD_TESTING CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED PKGCONFIG_EXECUTABLE PKG_CONFIG_EXECUTABLE QMAKE_EXECUTABLE -- Build files have been written to: /<>/obj-i686-linux-gnu make[1]: Leaving directory '/<>' dh_auto_build -a cd obj-i686-linux-gnu && make -j1 INSTALL="install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/<>/obj-i686-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-i686-linux-gnu/CMakeFiles /<>/obj-i686-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-i686-linux-gnu' make -f src/CMakeFiles/bifrost_static.dir/build.make src/CMakeFiles/bifrost_static.dir/depend make[3]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/src /<>/obj-i686-linux-gnu/src/CMakeFiles/bifrost_static.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-i686-linux-gnu' make -f src/CMakeFiles/bifrost_static.dir/build.make src/CMakeFiles/bifrost_static.dir/build make[3]: Entering directory '/<>/obj-i686-linux-gnu' [ 3%] Building CXX object src/CMakeFiles/bifrost_static.dir/Bifrost.cpp.o cd /<>/obj-i686-linux-gnu/src && /usr/bin/i686-linux-gnu-g++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -O3 -MD -MT src/CMakeFiles/bifrost_static.dir/Bifrost.cpp.o -MF CMakeFiles/bifrost_static.dir/Bifrost.cpp.o.d -o CMakeFiles/bifrost_static.dir/Bifrost.cpp.o -c /<>/src/Bifrost.cpp In file included from /<>/src/BlockedBloomFilter.hpp:14, from /<>/src/CompactedDBG.hpp:27, from /<>/src/Bifrost.cpp:1: /<>/src/fastmod.h: In function ‘uint64_t fastmod::mul128_u32(uint64_t, uint32_t)’: /<>/src/fastmod.h:46:12: error: ‘__uint128_t’ was not declared in this scope; did you mean ‘__uint8_t’? 46 | return ((__uint128_t)lowbits * d) >> 64; | ^~~~~~~~~~~ | __uint8_t /<>/src/fastmod.h:46:24: error: expected ‘)’ before ‘lowbits’ 46 | return ((__uint128_t)lowbits * d) >> 64; | ~ ^~~~~~~ | ) /<>/src/fastmod.h: In function ‘uint64_t fastmod::mul128_s32(uint64_t, int32_t)’: /<>/src/fastmod.h:50:12: error: ‘__int128_t’ was not declared in this scope; did you mean ‘__int128__’? 50 | return ((__int128_t)lowbits * d) >> 64; | ^~~~~~~~~~ | __int128__ /<>/src/fastmod.h:50:23: error: expected ‘)’ before ‘lowbits’ 50 | return ((__int128_t)lowbits * d) >> 64; | ~ ^~~~~~~ | ) /<>/src/fastmod.h: At global scope: /<>/src/fastmod.h:23:21: warning: inline variables are only available with ‘-std=c++17’ or ‘-std=gnu++17’ [-Wc++17-extensions] 23 | #define FASTMOD_API inline | ^~~~~~ /<>/src/fastmod.h:54:1: note: in expansion of macro ‘FASTMOD_API’ 54 | FASTMOD_API uint64_t mul128_u64(__uint128_t lowbits, uint64_t d) { | ^~~~~~~~~~~ /<>/src/fastmod.h:54:33: error: ‘__uint128_t’ was not declared in this scope; did you mean ‘__uint8_t’? 54 | FASTMOD_API uint64_t mul128_u64(__uint128_t lowbits, uint64_t d) { | ^~~~~~~~~~~ | __uint8_t /<>/src/fastmod.h:54:63: error: expected primary-expression before ‘d’ 54 | FASTMOD_API uint64_t mul128_u64(__uint128_t lowbits, uint64_t d) { | ^ /<>/src/fastmod.h:54:64: error: expression list treated as compound expression in initializer [-fpermissive] 54 | FASTMOD_API uint64_t mul128_u64(__uint128_t lowbits, uint64_t d) { | ^ /<>/src/fastmod.h:139:13: error: ‘__uint128_t’ does not name a type; did you mean ‘__uint8_t’? 139 | FASTMOD_API __uint128_t computeM_u64(uint64_t d) { | ^~~~~~~~~~~ | __uint8_t /<>/src/fastmod.h:149:13: error: ‘__uint128_t’ does not name a type; did you mean ‘__uint8_t’? 149 | FASTMOD_API __uint128_t computeM_s64(int64_t d) { | ^~~~~~~~~~~ | __uint8_t /<>/src/fastmod.h:161:46: error: ‘__uint128_t’ has not been declared; did you mean ‘__uint8_t’? 161 | FASTMOD_API uint64_t fastmod_u64(uint64_t a, __uint128_t M, uint64_t d) { | ^~~~~~~~~~~ | __uint8_t /<>/src/fastmod.h: In function ‘uint64_t fastmod::fastmod_u64(uint64_t, int, uint64_t)’: /<>/src/fastmod.h:162:3: error: ‘__uint128_t’ was not declared in this scope; did you mean ‘__uint8_t’? 162 | __uint128_t lowbits = M * a; | ^~~~~~~~~~~ | __uint8_t /<>/src/fastmod.h:163:21: error: ‘lowbits’ was not declared in this scope 163 | return mul128_u64(lowbits, d); | ^~~~~~~ /<>/src/fastmod.h:163:20: error: ‘fastmod::mul128_u64’ cannot be used as a function 163 | return mul128_u64(lowbits, d); | ~~~~~~~~~~^~~~~~~~~~~~ /<>/src/fastmod.h: At global scope: /<>/src/fastmod.h:166:46: error: ‘__uint128_t’ has not been declared; did you mean ‘__uint8_t’? 166 | FASTMOD_API uint64_t fastdiv_u64(uint64_t a, __uint128_t M) { | ^~~~~~~~~~~ | __uint8_t /<>/src/fastmod.h: In function ‘uint64_t fastmod::fastdiv_u64(uint64_t, int)’: /<>/src/fastmod.h:167:20: error: ‘fastmod::mul128_u64’ cannot be used as a function 167 | return mul128_u64(M, a); | ~~~~~~~~~~^~~~~~ /<>/src/BlockedBloomFilter.hpp: At global scope: /<>/src/BlockedBloomFilter.hpp:145:9: error: ‘__uint128_t’ does not name a type; did you mean ‘__uint8_t’? 145 | __uint128_t M_u64; // for fast division/modulo | ^~~~~~~~~~~ | __uint8_t /<>/src/BlockedBloomFilter.hpp:289:9: error: ‘__uint128_t’ does not name a type; did you mean ‘__uint8_t’? 289 | __uint128_t M_u64; // for fast division/modulo | ^~~~~~~~~~~ | __uint8_t In file included from /<>/src/CompactedDBG.hpp:28: /<>/src/Common.hpp: In function ‘bool isDNA(char)’: /<>/src/Common.hpp:48:47: error: narrowing conversion of ‘4504192333906058’ from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} [-Wnarrowing] 48 | static const size_t DNAbits[4] = {0x0ULL, 0x10008A0010008AULL, 0x0ULL, 0x0ULL}; | ^~~~~~~~~~~~~~~~~~~ /<>/src/Common.hpp: In function ‘size_t rndup(size_t)’: /<>/src/Common.hpp:192:12: warning: right shift count >= width of type [-Wshift-count-overflow] 192 | v |= v >> 32; | ~~^~~~~ /<>/src/Common.hpp: At global scope: /<>/src/Common.hpp:198:21: error: redefinition of ‘uint32_t rndup(uint32_t)’ 198 | BFG_INLINE uint32_t rndup(uint32_t v) { | ^~~~~ /<>/src/Common.hpp:184:19: note: ‘size_t rndup(size_t)’ previously defined here 184 | BFG_INLINE size_t rndup(size_t v) { | ^~~~~ In file included from /<>/src/FASTX_Parser.hpp:17, from /<>/src/File_Parser.hpp:10, from /<>/src/CompactedDBG.hpp:29: /<>/src/FASTX_Parser.hpp: In function ‘int64_t ks_getuntil2(kstream_t*, int, kstring_t*, int*, int)’: /<>/src/kseq.h:95:105: warning: right shift count >= width of type [-Wshift-count-overflow] 95 | #define kroundup64(x) (--(x), (x)|=(x)>>1, (x)|=(x)>>2, (x)|=(x)>>4, (x)|=(x)>>8, (x)|=(x)>>16, (x)|=(x)>>32, ++(x)) | ~~~^~~~ /<>/src/kseq.h:130:33: note: in expansion of macro ‘kroundup64’ 130 | kroundup64(str->m); \ | ^~~~~~~~~~ /<>/src/kseq.h:157:9: note: in expansion of macro ‘__KS_GETUNTIL’ 157 | __KS_GETUNTIL(__read, __bufsize) | ^~~~~~~~~~~~~ /<>/src/kseq.h:234:9: note: in expansion of macro ‘KSTREAM_INIT’ 234 | KSTREAM_INIT(type_t, __read, 16384) \ | ^~~~~~~~~~~~ /<>/src/kseq.h:239:35: note: in expansion of macro ‘KSEQ_INIT2’ 239 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ /<>/src/FASTX_Parser.hpp:18:1: note: in expansion of macro ‘KSEQ_INIT’ 18 | KSEQ_INIT(gzFile, gzread); | ^~~~~~~~~ /<>/src/FASTX_Parser.hpp: In function ‘int64_t kseq_read(kseq_t*)’: /<>/src/kseq.h:95:105: warning: right shift count >= width of type [-Wshift-count-overflow] 95 | #define kroundup64(x) (--(x), (x)|=(x)>>1, (x)|=(x)>>2, (x)|=(x)>>4, (x)|=(x)>>8, (x)|=(x)>>16, (x)|=(x)>>32, ++(x)) | ~~~^~~~ /<>/src/kseq.h:207:25: note: in expansion of macro ‘kroundup64’ 207 | kroundup64(seq->seq.m); /* rounded to the next closest 2^k */ \ | ^~~~~~~~~~ /<>/src/kseq.h:237:9: note: in expansion of macro ‘__KSEQ_READ’ 237 | __KSEQ_READ(SCOPE) | ^~~~~~~~~~~ /<>/src/kseq.h:239:35: note: in expansion of macro ‘KSEQ_INIT2’ 239 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read) | ^~~~~~~~~~ /<>/src/FASTX_Parser.hpp:18:1: note: in expansion of macro ‘KSEQ_INIT’ 18 | KSEQ_INIT(gzFile, gzread); | ^~~~~~~~~ /<>/src/File_Parser.hpp: In static member function ‘static int FileParser::getFileFormat(const char*)’: /<>/src/File_Parser.hpp:230:64: warning: right shift count >= width of type [-Wshift-count-overflow] 230 | else if ((reinterpret_cast(buffer)[0] >> 32) == BFG_GRAPHBIN_FORMAT_HEADER) ret_v = 3; // BFG | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /<>/src/File_Parser.hpp:231:64: warning: right shift count >= width of type [-Wshift-count-overflow] 231 | else if ((reinterpret_cast(buffer)[0] >> 32) == BFG_METABIN_FORMAT_HEADER) ret_v = 4; // BFI | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/src/CompactedDBG.hpp:34: /<>/src/KmerHashTable.hpp: At global scope: /<>/src/KmerHashTable.hpp:19:5: error: ‘__uint128_t’ does not name a type; did you mean ‘__uint8_t’? [-Wtemplate-body] 19 | __uint128_t M_u64; | ^~~~~~~~~~~ | __uint8_t /<>/src/KmerHashTable.hpp: In copy constructor ‘KmerHashTable::KmerHashTable(const KmerHashTable&)’: /<>/src/KmerHashTable.hpp:153:113: error: class ‘KmerHashTable’ does not have any field named ‘M_u64’ [-Wtemplate-body] 153 | size_(o.size_), pop(o.pop), sum_psl(o.sum_psl), max_psl(o.max_psl), M_u64(o.M_u64) { | ^~~~~ /<>/src/KmerHashTable.hpp:153:121: error: ‘const struct KmerHashTable’ has no member named ‘M_u64’ [-Wtemplate-body] 153 | size_(o.size_), pop(o.pop), sum_psl(o.sum_psl), max_psl(o.max_psl), M_u64(o.M_u64) { | ^~~~~ /<>/src/KmerHashTable.hpp: In constructor ‘KmerHashTable::KmerHashTable(KmerHashTable&&)’: /<>/src/KmerHashTable.hpp:167:41: error: class ‘KmerHashTable’ does not have any field named ‘M_u64’ [-Wtemplate-body] 167 | M_u64(o.M_u64), max_ratio_occupancy(o.max_ratio_occupancy) { | ^~~~~ /<>/src/KmerHashTable.hpp:167:49: error: ‘struct KmerHashTable’ has no member named ‘M_u64’ [-Wtemplate-body] 167 | M_u64(o.M_u64), max_ratio_occupancy(o.max_ratio_occupancy) { | ^~~~~ /<>/src/KmerHashTable.hpp: In member function ‘KmerHashTable& KmerHashTable::operator=(const KmerHashTable&)’: /<>/src/KmerHashTable.hpp:186:13: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 186 | M_u64 = o.M_u64; | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp:186:23: error: ‘const struct KmerHashTable’ has no member named ‘M_u64’ [-Wtemplate-body] 186 | M_u64 = o.M_u64; | ^~~~~ /<>/src/KmerHashTable.hpp: In member function ‘KmerHashTable& KmerHashTable::operator=(KmerHashTable&&)’: /<>/src/KmerHashTable.hpp:212:13: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 212 | M_u64 = o.M_u64; | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp:212:23: error: ‘struct KmerHashTable’ has no member named ‘M_u64’ [-Wtemplate-body] 212 | M_u64 = o.M_u64; | ^~~~~ /<>/src/KmerHashTable.hpp: In member function ‘void KmerHashTable::clear()’: /<>/src/KmerHashTable.hpp:249:9: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 249 | M_u64 = 0; | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp: In member function ‘KmerHashTable::iterator KmerHashTable::find(const Kmer&)’: /<>/src/KmerHashTable.hpp:261:57: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 261 | size_t h = fastmod::fastmod_u64(key.hash(), M_u64, size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp: In member function ‘KmerHashTable::const_iterator KmerHashTable::find(const Kmer&) const’: /<>/src/KmerHashTable.hpp:326:57: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 326 | size_t h = fastmod::fastmod_u64(key.hash(), M_u64, size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp: In member function ‘size_t KmerHashTable::erase(const_iterator)’: /<>/src/KmerHashTable.hpp:412:80: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 412 | const size_t h = fastmod::fastmod_u64(table_keys[it.h].hash(), M_u64, size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp:430:110: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 430 | while ((i != size_) && !table_keys[j2].isEmpty() && (fastmod::fastmod_u64(table_keys[j2].hash(), M_u64, size_) != j2)) { | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp: In member function ‘std::pair::iterator_, bool> KmerHashTable::insert(const Kmer&, const T&)’: /<>/src/KmerHashTable.hpp:469:53: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 469 | size_t h = fastmod::fastmod_u64(key.hash(), M_u64, size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp: In member function ‘std::pair::iterator_, bool> KmerHashTable::insert(Kmer&&, T&&)’: /<>/src/KmerHashTable.hpp:569:53: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 569 | size_t h = fastmod::fastmod_u64(key.hash(), M_u64, size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp: In member function ‘void KmerHashTable::recomputeMaxPSL(size_t)’: /<>/src/KmerHashTable.hpp:664:85: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 664 | const size_t h = fastmod::fastmod_u64(table_keys[i].hash(), M_u64, size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp: In lambda function: /<>/src/KmerHashTable.hpp:694:97: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 694 | const size_t h = fastmod::fastmod_u64(table_keys[i].hash(), M_u64, size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp: In member function ‘void KmerHashTable::init_tables(size_t)’: /<>/src/KmerHashTable.hpp:776:9: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 776 | M_u64 = fastmod::computeM_u64(size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp:776:26: error: ‘computeM_u64’ is not a member of ‘fastmod’; did you mean ‘computeM_u32’? [-Wtemplate-body] 776 | M_u64 = fastmod::computeM_u64(size_); | ^~~~~~~~~~~~ | computeM_u32 /<>/src/KmerHashTable.hpp: In member function ‘void KmerHashTable::reserve(size_t)’: /<>/src/KmerHashTable.hpp:804:13: error: ‘M_u64’ was not declared in this scope; did you mean ‘M_Ef64’? [-Wtemplate-body] 804 | M_u64 = fastmod::computeM_u64(size_); | ^~~~~ | M_Ef64 /<>/src/KmerHashTable.hpp:804:30: error: ‘computeM_u64’ is not a member of ‘fastmod’; did you mean ‘computeM_u32’? [-Wtemplate-body] 804 | M_u64 = fastmod::computeM_u64(size_); | ^~~~~~~~~~~~ | computeM_u32 In file included from /<>/src/CompactedDBG.hpp:36: /<>/src/KmerStream.hpp: In member function ‘std::pair ReadQualityHasherMinimizer::update(const char*, size_t, const char*, size_t)’: /<>/src/KmerStream.hpp:119:49: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 119 | size_t i = 0, j = 0, prev_pos_min = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerStream.hpp: In member function ‘std::pair ReadQualityHasherMinimizer::update(const char*, const char*, size_t)’: /<>/src/KmerStream.hpp:201:57: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 201 | size_t i = 0, j = 0, prev_pos_min = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerStream.hpp: In member function ‘std::pair ReadQualityHasherMinimizer::update_p(const char*, size_t, const char*, size_t)’: /<>/src/KmerStream.hpp:270:49: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 270 | size_t i = 0, j = 0, prev_pos_min = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerStream.hpp: In member function ‘std::pair ReadQualityHasherMinimizer::update_p(const char*, const char*, size_t)’: /<>/src/KmerStream.hpp:366:57: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 366 | size_t i = 0, j = 0, prev_pos_min = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerStream.hpp: In member function ‘std::pair ReadHasherMinimizer::update(const char*, size_t, const char*, size_t)’: /<>/src/KmerStream.hpp:577:49: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 577 | size_t i = 0, j = 0, prev_pos_min = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerStream.hpp: In member function ‘std::pair ReadHasherMinimizer::update(const char*, size_t)’: /<>/src/KmerStream.hpp:654:57: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 654 | size_t i = 0, j = 0, prev_pos_min = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerStream.hpp: In member function ‘std::pair ReadHasherMinimizer::update_p(const char*, size_t, const char*, size_t)’: /<>/src/KmerStream.hpp:722:49: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 722 | size_t i = 0, j = 0, prev_pos_min = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerStream.hpp: In member function ‘std::pair ReadHasherMinimizer::update_p(const char*, size_t)’: /<>/src/KmerStream.hpp:817:57: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 817 | size_t i = 0, j = 0, prev_pos_min = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/src/CompactedDBG.hpp:39: /<>/src/MinimizerIndex.hpp: At global scope: /<>/src/MinimizerIndex.hpp:220:9: error: ‘__uint128_t’ does not name a type; did you mean ‘__uint8_t’? 220 | __uint128_t M_u64; | ^~~~~~~~~~~ | __uint8_t In file included from /<>/src/CompactedDBG.hpp:826: /<>/src/CompactedDBG.tcc: In member function ‘bool CompactedDBG::build(CDBG_Build_opt&)’: /<>/src/CompactedDBG.tcc:653:38: error: no matching function for call to ‘max(long unsigned int, size_t)’ [-Wtemplate-body] 653 | nb_unique_kmers = max(1UL, kms.KmerF0()); | ~~~^~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:653:38: note: there are 4 candidates In file included from /usr/i686-linux-gnu/include/c++/15/string:53, from /usr/i686-linux-gnu/include/c++/15/bits/locale_classes.h:42, from /usr/i686-linux-gnu/include/c++/15/bits/ios_base.h:43, from /usr/i686-linux-gnu/include/c++/15/ios:46, from /usr/i686-linux-gnu/include/c++/15/bits/ostream.h:43, from /usr/i686-linux-gnu/include/c++/15/ostream:42, from /usr/i686-linux-gnu/include/c++/15/iostream:43, from /<>/src/CompactedDBG.hpp:12: /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: candidate 1: ‘template const _Tp& std::max(const _Tp&, const _Tp&)’ 258 | max(const _Tp& __a, const _Tp& __b) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: template argument deduction/substitution failed: /<>/src/CompactedDBG.tcc:653:38: note: deduced conflicting types for parameter ‘const _Tp’ (‘long unsigned int’ and ‘size_t’ {aka ‘unsigned int’}) 653 | nb_unique_kmers = max(1UL, kms.KmerF0()); | ~~~^~~~~~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate 2: ‘template const _Tp& std::max(const _Tp&, const _Tp&, _Compare)’ 304 | max(const _Tp& __a, const _Tp& __b, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate expects 3 arguments, 2 provided In file included from /usr/i686-linux-gnu/include/c++/15/algorithm:63, from /<>/src/Common.hpp:5: /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate 3: ‘template _Tp std::max(initializer_list<_Tp>)’ 5784 | max(initializer_list<_Tp> __l) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate expects 1 argument, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: candidate 4: ‘template _Tp std::max(initializer_list<_Tp>, _Compare)’ 5794 | max(initializer_list<_Tp> __l, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: template argument deduction/substitution failed: /<>/src/CompactedDBG.tcc:653:38: note: mismatched types ‘std::initializer_list<_Tp>’ and ‘long unsigned int’ 653 | nb_unique_kmers = max(1UL, kms.KmerF0()); | ~~~^~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:654:43: error: no matching function for call to ‘max(long unsigned int, size_t)’ [-Wtemplate-body] 654 | nb_unique_minimizers = max(1UL, kms.MinimizerF0()); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:654:43: note: there are 4 candidates /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: candidate 1: ‘template const _Tp& std::max(const _Tp&, const _Tp&)’ 258 | max(const _Tp& __a, const _Tp& __b) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: template argument deduction/substitution failed: /<>/src/CompactedDBG.tcc:654:43: note: deduced conflicting types for parameter ‘const _Tp’ (‘long unsigned int’ and ‘size_t’ {aka ‘unsigned int’}) 654 | nb_unique_minimizers = max(1UL, kms.MinimizerF0()); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate 2: ‘template const _Tp& std::max(const _Tp&, const _Tp&, _Compare)’ 304 | max(const _Tp& __a, const _Tp& __b, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate expects 3 arguments, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate 3: ‘template _Tp std::max(initializer_list<_Tp>)’ 5784 | max(initializer_list<_Tp> __l) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate expects 1 argument, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: candidate 4: ‘template _Tp std::max(initializer_list<_Tp>, _Compare)’ 5794 | max(initializer_list<_Tp> __l, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: template argument deduction/substitution failed: /<>/src/CompactedDBG.tcc:654:43: note: mismatched types ‘std::initializer_list<_Tp>’ and ‘long unsigned int’ 654 | nb_unique_minimizers = max(1UL, kms.MinimizerF0()); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:655:63: error: no matching function for call to ‘max(long unsigned int, size_t)’ [-Wtemplate-body] 655 | nb_non_unique_kmers = reference_mode ? 0 : max(1UL, nb_unique_kmers - min(nb_unique_kmers, kms.Kmerf1())); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:655:63: note: there are 4 candidates /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: candidate 1: ‘template const _Tp& std::max(const _Tp&, const _Tp&)’ 258 | max(const _Tp& __a, const _Tp& __b) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: template argument deduction/substitution failed: /<>/src/CompactedDBG.tcc:655:63: note: deduced conflicting types for parameter ‘const _Tp’ (‘long unsigned int’ and ‘size_t’ {aka ‘unsigned int’}) 655 | nb_non_unique_kmers = reference_mode ? 0 : max(1UL, nb_unique_kmers - min(nb_unique_kmers, kms.Kmerf1())); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate 2: ‘template const _Tp& std::max(const _Tp&, const _Tp&, _Compare)’ 304 | max(const _Tp& __a, const _Tp& __b, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate expects 3 arguments, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate 3: ‘template _Tp std::max(initializer_list<_Tp>)’ 5784 | max(initializer_list<_Tp> __l) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate expects 1 argument, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: candidate 4: ‘template _Tp std::max(initializer_list<_Tp>, _Compare)’ 5794 | max(initializer_list<_Tp> __l, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: template argument deduction/substitution failed: /<>/src/CompactedDBG.tcc:655:63: note: mismatched types ‘std::initializer_list<_Tp>’ and ‘long unsigned int’ 655 | nb_non_unique_kmers = reference_mode ? 0 : max(1UL, nb_unique_kmers - min(nb_unique_kmers, kms.Kmerf1())); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:656:68: error: no matching function for call to ‘max(long unsigned int, size_t)’ [-Wtemplate-body] 656 | nb_non_unique_minimizers = reference_mode ? 0 : max(1UL, nb_unique_minimizers - min(nb_unique_minimizers, kms.Minimizerf1())); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:656:68: note: there are 4 candidates /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: candidate 1: ‘template const _Tp& std::max(const _Tp&, const _Tp&)’ 258 | max(const _Tp& __a, const _Tp& __b) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: template argument deduction/substitution failed: /<>/src/CompactedDBG.tcc:656:68: note: deduced conflicting types for parameter ‘const _Tp’ (‘long unsigned int’ and ‘size_t’ {aka ‘unsigned int’}) 656 | nb_non_unique_minimizers = reference_mode ? 0 : max(1UL, nb_unique_minimizers - min(nb_unique_minimizers, kms.Minimizerf1())); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate 2: ‘template const _Tp& std::max(const _Tp&, const _Tp&, _Compare)’ 304 | max(const _Tp& __a, const _Tp& __b, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate expects 3 arguments, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate 3: ‘template _Tp std::max(initializer_list<_Tp>)’ 5784 | max(initializer_list<_Tp> __l) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate expects 1 argument, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: candidate 4: ‘template _Tp std::max(initializer_list<_Tp>, _Compare)’ 5794 | max(initializer_list<_Tp> __l, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: template argument deduction/substitution failed: /<>/src/CompactedDBG.tcc:656:68: note: mismatched types ‘std::initializer_list<_Tp>’ and ‘long unsigned int’ 656 | nb_non_unique_minimizers = reference_mode ? 0 : max(1UL, nb_unique_minimizers - min(nb_unique_minimizers, kms.Minimizerf1())); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In member function ‘const_UnitigMap CompactedDBG::find(const char*, size_t, const minHashIterator&, bool) const’: /<>/src/CompactedDBG.tcc:768:43: warning: right shift count >= width of type [-Wshift-count-overflow] 768 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘UnitigMap CompactedDBG::find(const char*, size_t, const minHashIterator&, bool)’: /<>/src/CompactedDBG.tcc:892:43: warning: right shift count >= width of type [-Wshift-count-overflow] 892 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘const_UnitigMap CompactedDBG::find(const Kmer&, bool) const’: /<>/src/CompactedDBG.tcc:1016:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1016 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘UnitigMap CompactedDBG::find(const Kmer&, bool)’: /<>/src/CompactedDBG.tcc:1219:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1219 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘std::vector > CompactedDBG::findPredecessors(const Kmer&, bool) const’: /<>/src/CompactedDBG.tcc:1342:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1342 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘std::vector > CompactedDBG::findPredecessors(const Kmer&, bool)’: /<>/src/CompactedDBG.tcc:1498:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1498 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘std::vector > CompactedDBG::findSuccessors(const Kmer&, size_t, bool) const’: /<>/src/CompactedDBG.tcc:1658:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1658 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘std::vector > CompactedDBG::findSuccessors(const Kmer&, size_t, bool)’: /<>/src/CompactedDBG.tcc:1848:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1848 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘bool CompactedDBG::addUnitig(const std::string&, size_t)’: /<>/src/CompactedDBG.tcc:4725:38: warning: left shift count >= width of type [-Wshift-count-overflow] 4725 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:4727:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744071562067968’ to ‘2147483648’ [-Woverflow] 4727 | const size_t mask = MASK_CONTIG_ID | MASK_CONTIG_TYPE; /<>/src/CompactedDBG.tcc: In member function ‘void CompactedDBG::moveToAbundant()’: /<>/src/CompactedDBG.tcc:4912:92: warning: right shift count >= width of type [-Wshift-count-overflow] 4912 | if (static_cast(unitig_id_pos & MASK_CONTIG_TYPE) && ((unitig_id_pos >> 32) != RESERVED_ID)) v_km_rm.push_back(unitig_id_pos >> 32); | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:4912:148: warning: right shift count >= width of type [-Wshift-count-overflow] 4912 | if (static_cast(unitig_id_pos & MASK_CONTIG_TYPE) && ((unitig_id_pos >> 32) != RESERVED_ID)) v_km_rm.push_back(unitig_id_pos >> 32); | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘bool CompactedDBG::addUnitig(const std::string&, size_t, size_t, size_t)’: /<>/src/CompactedDBG.tcc:5119:49: warning: left shift count >= width of type [-Wshift-count-overflow] 5119 | const size_t pos_id_unitig_r = (id_unitig_r << 32) | ((static_cast(!is_short_r) - 1) & MASK_CONTIG_TYPE); | ~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:5122:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744071562067968’ to ‘2147483648’ [-Woverflow] 5122 | const size_t mask = MASK_CONTIG_ID | MASK_CONTIG_TYPE; /<>/src/CompactedDBG.tcc:5124:38: warning: left shift count >= width of type [-Wshift-count-overflow] 5124 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘void CompactedDBG::swapUnitigs(bool, size_t, size_t)’: /<>/src/CompactedDBG.tcc:5315:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744071562067968’ to ‘2147483648’ [-Woverflow] 5315 | const size_t mask = MASK_CONTIG_ID | MASK_CONTIG_TYPE; /<>/src/CompactedDBG.tcc:5317:37: warning: left shift count >= width of type [-Wshift-count-overflow] 5317 | size_t shift_id_unitig_a = id_a << 32; | ~~~~~^~~~~ /<>/src/CompactedDBG.tcc:5318:37: warning: left shift count >= width of type [-Wshift-count-overflow] 5318 | size_t shift_id_unitig_b = id_b << 32; | ~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In member function ‘typename std::enable_if<(! is_void), void>::type CompactedDBG::deleteUnitig_(bool, bool, size_t, bool)’: /<>/src/CompactedDBG.tcc:6010:42: warning: left shift count >= width of type [-Wshift-count-overflow] 6010 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:6011:44: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744071562067968’ to ‘2147483648’ [-Woverflow] 6011 | const size_t mask = MASK_CONTIG_ID | MASK_CONTIG_TYPE; /<>/src/CompactedDBG.tcc: In member function ‘typename std::enable_if::type CompactedDBG::deleteUnitig_(bool, bool, size_t, bool)’: /<>/src/CompactedDBG.tcc:6170:42: warning: left shift count >= width of type [-Wshift-count-overflow] 6170 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:6171:44: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744071562067968’ to ‘2147483648’ [-Woverflow] 6171 | const size_t mask = MASK_CONTIG_ID | MASK_CONTIG_TYPE; /<>/src/CompactedDBG.tcc: In member function ‘void CompactedDBG::deleteUnitig_(bool, bool, size_t, const std::string&)’: /<>/src/CompactedDBG.tcc:6315:42: warning: left shift count >= width of type [-Wshift-count-overflow] 6315 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:6316:44: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744071562067968’ to ‘2147483648’ [-Woverflow] 6316 | const size_t mask = MASK_CONTIG_ID | MASK_CONTIG_TYPE; /<>/src/CompactedDBG.tcc: In member function ‘UnitigMap CompactedDBG::find(const Kmer&, const preAllocMinHashIterator&)’: /<>/src/CompactedDBG.tcc:6594:42: warning: right shift count >= width of type [-Wshift-count-overflow] 6594 | unitig_id = v(i, flag_v) >> 32; | ~~~~~~~~~~~~~^~~~~ In file included from /<>/src/CompactedDBG.hpp:828: /<>/src/IO.tcc: In member function ‘bool CompactedDBG::read(const std::string&, size_t, bool)’: /<>/src/IO.tcc:191:60: error: no matching function for call to ‘max(long unsigned int, size_t)’ [-Wtemplate-body] 191 | MinimizerIndex hmap_min_unitigs_tmp(max(1UL, kms.MinimizerF0()) * 1.05); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:191:60: note: there are 4 candidates /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: candidate 1: ‘template const _Tp& std::max(const _Tp&, const _Tp&)’ 258 | max(const _Tp& __a, const _Tp& __b) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: template argument deduction/substitution failed: /<>/src/IO.tcc:191:60: note: deduced conflicting types for parameter ‘const _Tp’ (‘long unsigned int’ and ‘size_t’ {aka ‘unsigned int’}) 191 | MinimizerIndex hmap_min_unitigs_tmp(max(1UL, kms.MinimizerF0()) * 1.05); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate 2: ‘template const _Tp& std::max(const _Tp&, const _Tp&, _Compare)’ 304 | max(const _Tp& __a, const _Tp& __b, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate expects 3 arguments, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate 3: ‘template _Tp std::max(initializer_list<_Tp>)’ 5784 | max(initializer_list<_Tp> __l) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate expects 1 argument, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: candidate 4: ‘template _Tp std::max(initializer_list<_Tp>, _Compare)’ 5794 | max(initializer_list<_Tp> __l, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: template argument deduction/substitution failed: /<>/src/IO.tcc:191:60: note: mismatched types ‘std::initializer_list<_Tp>’ and ‘long unsigned int’ 191 | MinimizerIndex hmap_min_unitigs_tmp(max(1UL, kms.MinimizerF0()) * 1.05); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:261:60: error: no matching function for call to ‘max(long unsigned int, size_t)’ [-Wtemplate-body] 261 | MinimizerIndex hmap_min_unitigs_tmp(max(1UL, kms.MinimizerF0()) * 1.05); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:261:60: note: there are 4 candidates /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: candidate 1: ‘template const _Tp& std::max(const _Tp&, const _Tp&)’ 258 | max(const _Tp& __a, const _Tp& __b) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:258:5: note: template argument deduction/substitution failed: /<>/src/IO.tcc:261:60: note: deduced conflicting types for parameter ‘const _Tp’ (‘long unsigned int’ and ‘size_t’ {aka ‘unsigned int’}) 261 | MinimizerIndex hmap_min_unitigs_tmp(max(1UL, kms.MinimizerF0()) * 1.05); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate 2: ‘template const _Tp& std::max(const _Tp&, const _Tp&, _Compare)’ 304 | max(const _Tp& __a, const _Tp& __b, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algobase.h:304:5: note: candidate expects 3 arguments, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate 3: ‘template _Tp std::max(initializer_list<_Tp>)’ 5784 | max(initializer_list<_Tp> __l) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5784:5: note: candidate expects 1 argument, 2 provided /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: candidate 4: ‘template _Tp std::max(initializer_list<_Tp>, _Compare)’ 5794 | max(initializer_list<_Tp> __l, _Compare __comp) | ^~~ /usr/i686-linux-gnu/include/c++/15/bits/stl_algo.h:5794:5: note: template argument deduction/substitution failed: /<>/src/IO.tcc:261:60: note: mismatched types ‘std::initializer_list<_Tp>’ and ‘long unsigned int’ 261 | MinimizerIndex hmap_min_unitigs_tmp(max(1UL, kms.MinimizerF0()) * 1.05); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc: In member function ‘bool CompactedDBG::readBinaryIndex(std::istream&, uint64_t)’: /<>/src/IO.tcc:993:55: warning: right shift count >= width of type [-Wshift-count-overflow] 993 | const size_t file_format_header = file_format >> 32; | ~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1037:41: warning: left shift count >= width of type [-Wshift-count-overflow] 1037 | const size_t id_bmp = i << 32; | ~~^~~~~ /<>/src/IO.tcc:1052:61: warning: left shift count >= width of type [-Wshift-count-overflow] 1052 | const size_t pos_id_unitig = (unitig_id << 32) | relative_pos; | ~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1085:41: warning: left shift count >= width of type [-Wshift-count-overflow] 1085 | const size_t id_bmp = i << 32; | ~~^~~~~ /<>/src/IO.tcc:1094:57: warning: left shift count >= width of type [-Wshift-count-overflow] 1094 | const size_t pos_id_unitig = (km_id << 32) | MASK_CONTIG_TYPE | km_pos; | ~~~~~~^~~~~ /<>/src/IO.tcc:1121:66: warning: right shift count >= width of type [-Wshift-count-overflow] 1121 | vector v_bmp_abundant((nb_special_minz >> 32) + 1); | ~~~~~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1122:69: warning: right shift count >= width of type [-Wshift-count-overflow] 1122 | vector v_bmp_overcrowded((nb_special_minz >> 32) + 1); | ~~~~~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1131:58: warning: right shift count >= width of type [-Wshift-count-overflow] 1131 | const bool isAbundant = v_bmp_abundant[i >> 32].contains(i & 0x00000000ffffffffULL); | ~~^~~~~ /<>/src/IO.tcc:1132:64: warning: right shift count >= width of type [-Wshift-count-overflow] 1132 | const bool isOvercrowded = v_bmp_overcrowded[i >> 32].contains(i & 0x00000000ffffffffULL); | ~~^~~~~ /<>/src/IO.tcc: In member function ‘std::pair CompactedDBG::readBinaryGraph(std::istream&)’: /<>/src/IO.tcc:1230:55: warning: right shift count >= width of type [-Wshift-count-overflow] 1230 | const size_t file_format_header = file_format >> 32; | ~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc: In member function ‘bool CompactedDBG::writeBinaryGraph(std::ostream&, size_t) const’: /<>/src/IO.tcc:1373:92: warning: left shift count >= width of type [-Wshift-count-overflow] 1373 | const size_t fileformat_version = (static_cast(BFG_GRAPHBIN_FORMAT_HEADER) << 32) | static_cast(BFG_GRAPHBIN_FORMAT_VERSION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1373:92: warning: left shift count >= width of type [-Wshift-count-overflow] 1373 | const size_t fileformat_version = (static_cast(BFG_GRAPHBIN_FORMAT_HEADER) << 32) | static_cast(BFG_GRAPHBIN_FORMAT_VERSION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc: In member function ‘bool CompactedDBG::writeBinaryIndex(std::ostream&, uint64_t, size_t) const’: /<>/src/IO.tcc:1431:57: warning: right shift count >= width of type [-Wshift-count-overflow] 1431 | const size_t nb_bmp_minz = (hmap_min_unitigs.size() >> 32) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1442:91: warning: left shift count >= width of type [-Wshift-count-overflow] 1442 | const size_t fileformat_version = (static_cast(BFG_METABIN_FORMAT_HEADER) << 32) | static_cast(BFG_METABIN_FORMAT_VERSION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1442:91: warning: left shift count >= width of type [-Wshift-count-overflow] 1442 | const size_t fileformat_version = (static_cast(BFG_METABIN_FORMAT_HEADER) << 32) | static_cast(BFG_METABIN_FORMAT_VERSION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1471:67: warning: right shift count >= width of type [-Wshift-count-overflow] 1471 | const size_t nb_bmp_unitigs = (v_block_len_unitigs.back() >> 32) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc: In lambda function: /<>/src/IO.tcc:1494:57: warning: right shift count >= width of type [-Wshift-count-overflow] 1494 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1501:45: warning: right shift count >= width of type [-Wshift-count-overflow] 1501 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1512:49: warning: right shift count >= width of type [-Wshift-count-overflow] 1512 | lv_bmp_km_short[pos >> 32].add(pos & 0x00000000ffffffffULL); | ~~~~^~~~~ /<>/src/IO.tcc:1516:53: warning: right shift count >= width of type [-Wshift-count-overflow] 1516 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1531:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1531 | lv_bmp_unitigs[pos >> 32].add(pos & 0x00000000ffffffffULL); | ~~~~^~~~~ /<>/src/IO.tcc:1535:61: warning: right shift count >= width of type [-Wshift-count-overflow] 1535 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc: In member function ‘bool CompactedDBG::writeBinaryIndex(std::ostream&, uint64_t, size_t) const’: /<>/src/IO.tcc:1681:61: warning: right shift count >= width of type [-Wshift-count-overflow] 1681 | const size_t nb_bmp_special_minz = (nb_special_minz >> 32) + 1; | ~~~~~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1695:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1695 | if (v_bmp_minz[id_minz >> 32].contains(id_minz & 0x00000000ffffffffULL)) { | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1706:73: warning: right shift count >= width of type [-Wshift-count-overflow] 1706 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1713:70: warning: right shift count >= width of type [-Wshift-count-overflow] 1713 | const size_t id_bmp = id_special >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1762:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1762 | if (v_bmp_minz[id_minz >> 32].contains(id_minz & 0x00000000ffffffffULL)) { | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1773:69: warning: right shift count >= width of type [-Wshift-count-overflow] 1773 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ In file included from /<>/src/DataManager.hpp:10, from /<>/src/ColoredCDBG.hpp:10, from /<>/src/Bifrost.cpp:2: /<>/src/DataStorage.tcc: In instantiation of ‘std::pair, UnitigColors*> DataStorage::insert_(Kmer, size_t, bool) [with Unitig_data_t = void; size_t = unsigned int]’: /<>/src/DataStorage.tcc:1763:60: required from here 1763 | const pair, UnitigColors*> p(insert_(head, unitig_sz, force_overflow)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/DataStorage.tcc:1741:45: warning: narrowing conversion of ‘pos’ from ‘uint64_t’ {aka ‘long long unsigned int’} to ‘unsigned int’ [-Wnarrowing] 1741 | overflow.insert({{head, unitig_sz}, pos}); // Insertion | ^~~ /<>/src/DataStorage.tcc: In instantiation of ‘UnitigColors DataStorage::joinUnitigColors(const_UnitigColorMap&, const_UnitigColorMap&) const [with Unitig_data_t = void; const_UnitigColorMap = UnitigMap, DataStorage, true>]’: /<>/src/DataAccessor.tcc:174:48: required from here 174 | UnitigColors uc_ = ds->joinUnitigColors(um_dest, um_src); // Join the UnitigColors of the two reference unitigs | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /<>/src/DataStorage.tcc:1444:36: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 1444 | size_t prev_color_id = 0xffffffffffffffff; | ^~~~~~~~~~~~~~~~~~ /<>/src/DataStorage.tcc:1445:35: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 1445 | size_t prev_km_dist = 0xffffffffffffffff; | ^~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_() [with bool is_const = true; T = CompressedCoverage_t >]’: /<>/src/UnitigIterator.tcc:7:145: required from ‘unitigIterator::unitigIterator() [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = false]’ 7 | unitigIterator::unitigIterator() : i(0), v_unitigs_sz(0), v_kmers_sz(0), h_kmers_ccov_sz(0), sz(0), invalid(true), cdbg(nullptr) {} | ^ /<>/src/ColoredCDBG.tcc:979:54: required from here 979 | typename ColoredCDBG::iterator l_a, l_b; | ^~~ /<>/src/KmerHashTable.hpp:35:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:70: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_& KmerHashTable::iterator_::operator++() [with bool is_const = true; T = CompressedCoverage_t >]’: /<>/src/UnitigIterator.tcc:55:9: required from ‘unitigIterator& unitigIterator::operator++() [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = false]’ 55 | ++it_h_kmers_ccov; | ^~~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:991:86: required from here 991 | for (size_t cpt = 0; (cpt < chunk) && (l_b != g_b); ++cpt, ++l_b){} | ^~~ /<>/src/KmerHashTable.hpp:88:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 88 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t, size_t) [with bool is_const = false; T = CompressedCoverage_t >; KHT_ptr_t = KmerHashTable > >*; size_t = unsigned int]’: /<>/src/KmerHashTable.hpp:389:61: required from ‘KmerHashTable::iterator KmerHashTable::find(size_t) [with T = CompressedCoverage_t >; iterator = KmerHashTable > >::iterator_; size_t = unsigned int]’ 389 | if ((h < size_) && !table_keys[h].isEmpty()) return iterator(this, h); | ^~~~~~~~~~~~~~~~~ /<>/src/UnitigMap.tcc:96:55: required from ‘Kmer UnitigMap::getUnitigHead() const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = false]’ 96 | if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig).getKey(); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/src/DataStorage.tcc:1600:43: required from here 1600 | const Kmer head = um.getUnitigHead(); | ~~~~~~~~~~~~~~~~^~ /<>/src/KmerHashTable.hpp:37:72: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 37 | iterator_(KHT_ptr_t ht_, size_t h_) : ht(ht_), h(h_), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t) [with bool is_const = false; T = CompressedCoverage_t >; KHT_ptr_t = KmerHashTable > >*]’: /<>/src/KmerHashTable.hpp:391:16: required from ‘KmerHashTable::iterator KmerHashTable::find(size_t) [with T = CompressedCoverage_t >; iterator = KmerHashTable > >::iterator_; size_t = unsigned int]’ 391 | return iterator(this); | ^~~~~~~~~~~~~~ /<>/src/UnitigMap.tcc:96:55: required from ‘Kmer UnitigMap::getUnitigHead() const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = false]’ 96 | if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig).getKey(); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/src/DataStorage.tcc:1600:43: required from here 1600 | const Kmer head = um.getUnitigHead(); | ~~~~~~~~~~~~~~~~^~ /<>/src/KmerHashTable.hpp:36:51: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:79: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘UnitigMap CompactedDBG::find(const Kmer&, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’: /<>/src/CompactedDBG.tcc:8075:26: required from ‘size_t CompactedDBG::removeUnitigs(bool, bool, std::vector&) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 8075 | if (!find(head.backwardBase(alpha[i]), true).isEmpty){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:706:26: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 706 | size_t removed = removeUnitigs(delete_short_isolated_unitigs, clip_short_tips, v_joins); | ^~~~~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1219:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1219 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘void CompactedDBG::swapUnitigs(bool, size_t, size_t) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:8104:25: required from ‘size_t CompactedDBG::removeUnitigs(bool, bool, std::vector&) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 8104 | swapUnitigs(false, j, v_unitigs_sz), | ^~~~~~~~~~~ /<>/src/CompactedDBG.tcc:706:26: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 706 | size_t removed = removeUnitigs(delete_short_isolated_unitigs, clip_short_tips, v_joins); | ^~~~~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5317:37: warning: left shift count >= width of type [-Wshift-count-overflow] 5317 | size_t shift_id_unitig_a = id_a << 32; | ~~~~~^~~~~ /<>/src/CompactedDBG.tcc:5318:37: warning: left shift count >= width of type [-Wshift-count-overflow] 5318 | size_t shift_id_unitig_b = id_b << 32; | ~~~~~^~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_& KmerHashTable::iterator_::operator++() [with bool is_const = false; T = CompressedCoverage_t >]’: /<>/src/CompactedDBG.tcc:8160:97: required from ‘size_t CompactedDBG::removeUnitigs(bool, bool, std::vector&) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 8160 | for (typename h_kmers_ccov_t::iterator it = h_kmers_ccov.begin(); it != h_kmers_ccov.end(); ++it) { | ^~~~ /<>/src/CompactedDBG.tcc:706:26: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 706 | size_t removed = removeUnitigs(delete_short_isolated_unitigs, clip_short_tips, v_joins); | ^~~~~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:88:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 88 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘typename std::enable_if<(! is_void), void>::type CompactedDBG::deleteUnitig_(bool, bool, size_t, bool) [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; typename std::enable_if<(! is_void), void>::type = void; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:8197:87: required from ‘size_t CompactedDBG::removeUnitigs(bool, bool, std::vector&) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 8197 | for (j = v_unitigs_sz; j < v_unitigs.size(); ++j) deleteUnitig_::value>(false, false, j); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:706:26: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 706 | size_t removed = removeUnitigs(delete_short_isolated_unitigs, clip_short_tips, v_joins); | ^~~~~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:6010:42: warning: left shift count >= width of type [-Wshift-count-overflow] 6010 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_& KmerHashTable::iterator_::operator++() [with bool is_const = false; T = char]’: /<>/src/CompactedDBG.tcc:7469:79: required from ‘typename std::enable_if<(! is_void), unsigned int>::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; typename std::enable_if<(! is_void), unsigned int>::type = unsigned int; size_t = unsigned int]’ 7469 | for (KmerHashTable::iterator it = joins.begin(); it != joins.end(); ++it) { | ^~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:88:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 88 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘bool CompactedDBG::addUnitig(const std::string&, size_t) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:7577:30: required from ‘typename std::enable_if<(! is_void), unsigned int>::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; typename std::enable_if<(! is_void), unsigned int>::type = unsigned int; size_t = unsigned int]’ 7577 | addUnitig(joinSeq, v_unitigs_size); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:4725:38: warning: left shift count >= width of type [-Wshift-count-overflow] 4725 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:4865:62: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744069414584321’ to ‘1’ [-Woverflow] 4865 | else flag_v = v.push_back(MASK_CONTIG_ID + 1, flag_v); /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_& KmerHashTable::iterator_::operator++() [with bool is_const = true; T = CompressedCoverage_t]’: /<>/src/CompactedDBG.tcc:130:9: required from ‘CompactedDBG& CompactedDBG::toDataGraph(CompactedDBG&&, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 130 | ++it_s; | ^~~~~~ /<>/src/CompactedDBG.tcc:611:45: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = void; Graph_data_t = void]’ 611 | if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | ^~~~~~~~~~~ /<>/src/Bifrost.cpp:638:41: required from here 638 | success = cdbg.build(opt); | ~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp:88:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 88 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_& KmerHashTable::iterator_::operator++() [with bool is_const = false; T = CompressedCoverage_t]’: /<>/src/CompactedDBG.tcc:3516:125: required from ‘bool CompactedDBG::construct(const CDBG_Build_opt&, DualBlockedBloomFilter&, Roaring&, size_t, size_t, size_t, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 3516 | for (typename h_kmers_ccov_t::iterator it = dbg_extra.h_kmers_ccov.begin(); it != dbg_extra.h_kmers_ccov.end(); ++it) { | ^~~~ /<>/src/CompactedDBG.tcc:679:62: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = void; Graph_data_t = void]’ 679 | if (construct_finished) construct_finished = construct(opt, dbbf, r, nb_unique_minimizers, nb_non_unique_minimizers, nb_unique_kmers, nb_non_unique_kmers); // Construction step | ^~~~~~~~~ /<>/src/Bifrost.cpp:638:41: required from here 638 | success = cdbg.build(opt); | ~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp:88:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 88 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘UnitigMap CompactedDBG::find(const Kmer&, bool) [with Unitig_data_t = void; Graph_data_t = void]’: /<>/src/CompactedDBG.tcc:3524:53: required from ‘bool CompactedDBG::construct(const CDBG_Build_opt&, DualBlockedBloomFilter&, Roaring&, size_t, size_t, size_t, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 3524 | const UnitigMap um2 = find(km, true); | ~~~~^~~~~~~~~~ /<>/src/CompactedDBG.tcc:679:62: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = void; Graph_data_t = void]’ 679 | if (construct_finished) construct_finished = construct(opt, dbbf, r, nb_unique_minimizers, nb_non_unique_minimizers, nb_unique_kmers, nb_non_unique_kmers); // Construction step | ^~~~~~~~~ /<>/src/Bifrost.cpp:638:41: required from here 638 | success = cdbg.build(opt); | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:1219:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1219 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘void CompactedDBG::swapUnitigs(bool, size_t, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:8104:25: required from ‘size_t CompactedDBG::removeUnitigs(bool, bool, std::vector&) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 8104 | swapUnitigs(false, j, v_unitigs_sz), | ^~~~~~~~~~~ /<>/src/CompactedDBG.tcc:706:26: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = void; Graph_data_t = void]’ 706 | size_t removed = removeUnitigs(delete_short_isolated_unitigs, clip_short_tips, v_joins); | ^~~~~~~~~~~~~ /<>/src/Bifrost.cpp:640:57: required from here 640 | if (success) success = cdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5317:37: warning: left shift count >= width of type [-Wshift-count-overflow] 5317 | size_t shift_id_unitig_a = id_a << 32; | ~~~~~^~~~~ /<>/src/CompactedDBG.tcc:5318:37: warning: left shift count >= width of type [-Wshift-count-overflow] 5318 | size_t shift_id_unitig_b = id_b << 32; | ~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘typename std::enable_if::type CompactedDBG::deleteUnitig_(bool, bool, size_t, bool) [with bool is_void = true; Unitig_data_t = void; Graph_data_t = void; typename std::enable_if::type = void; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:8197:87: required from ‘size_t CompactedDBG::removeUnitigs(bool, bool, std::vector&) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 8197 | for (j = v_unitigs_sz; j < v_unitigs.size(); ++j) deleteUnitig_::value>(false, false, j); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:706:26: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = void; Graph_data_t = void]’ 706 | size_t removed = removeUnitigs(delete_short_isolated_unitigs, clip_short_tips, v_joins); | ^~~~~~~~~~~~~ /<>/src/Bifrost.cpp:640:57: required from here 640 | if (success) success = cdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:6170:42: warning: left shift count >= width of type [-Wshift-count-overflow] 6170 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘bool CompactedDBG::addUnitig(const std::string&, size_t) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:7735:30: required from ‘typename std::enable_if::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = true; Unitig_data_t = void; Graph_data_t = void; typename std::enable_if::type = unsigned int; size_t = unsigned int]’ 7735 | addUnitig(joinSeq, v_unitigs_size); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = void; Graph_data_t = void]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:640:57: required from here 640 | if (success) success = cdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:4725:38: warning: left shift count >= width of type [-Wshift-count-overflow] 4725 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:4865:62: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744069414584321’ to ‘1’ [-Woverflow] 4865 | else flag_v = v.push_back(MASK_CONTIG_ID + 1, flag_v); /<>/src/CompactedDBG.tcc: In instantiation of ‘std::vector > CompactedDBG::findPredecessors(const Kmer&, bool) const [with Unitig_data_t = void; Graph_data_t = void]’: /<>/src/IO.tcc:468:72: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 468 | const vector> pred = findPredecessors(head, true); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1342:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1342 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘std::vector > CompactedDBG::findSuccessors(const Kmer&, size_t, bool) const [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’: /<>/src/IO.tcc:469:70: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 469 | const vector> succ = findSuccessors(tail, 4, true); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1658:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1658 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_& KmerHashTable::iterator_::operator++() [with bool is_const = false; T = unsigned int]’: /<>/src/IO.tcc:667:78: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 667 | for (size_t i = 0; (it != idmap.end()) && (i < chunk_size); ++i, ++it) { | ^~~~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:88:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 88 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_() [with bool is_const = false; T = unsigned int]’: /<>/src/IO.tcc:804:57: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 804 | KmerHashTable::iterator l_it; | ^~~~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:70: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc: In instantiation of ‘bool CompactedDBG::writeBinaryGraph(std::ostream&, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::ostream = std::basic_ostream; size_t = unsigned int]’: /<>/src/IO.tcc:1362:28: required from ‘bool CompactedDBG::writeBinaryGraph(const std::string&, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 1362 | return writeBinaryGraph(out, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:84:62: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 84 | else if (BFG_output) write_success = writeBinaryGraph(fn, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:1373:92: warning: left shift count >= width of type [-Wshift-count-overflow] 1373 | const size_t fileformat_version = (static_cast(BFG_GRAPHBIN_FORMAT_HEADER) << 32) | static_cast(BFG_GRAPHBIN_FORMAT_VERSION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc: In instantiation of ‘bool CompactedDBG::writeBinaryIndex(std::ostream&, uint64_t, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::ostream = std::basic_ostream; uint64_t = long long unsigned int; size_t = unsigned int]’: /<>/src/IO.tcc:1423:28: required from ‘bool CompactedDBG::writeBinaryIndex(const std::string&, uint64_t, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; uint64_t = long long unsigned int; size_t = unsigned int]’ 1423 | return writeBinaryIndex(out, checksum, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:117:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 117 | write_success = writeBinaryIndex(fn, graph_checksum, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:1431:57: warning: right shift count >= width of type [-Wshift-count-overflow] 1431 | const size_t nb_bmp_minz = (hmap_min_unitigs.size() >> 32) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1442:91: warning: left shift count >= width of type [-Wshift-count-overflow] 1442 | const size_t fileformat_version = (static_cast(BFG_METABIN_FORMAT_HEADER) << 32) | static_cast(BFG_METABIN_FORMAT_VERSION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1471:67: warning: right shift count >= width of type [-Wshift-count-overflow] 1471 | const size_t nb_bmp_unitigs = (v_block_len_unitigs.back() >> 32) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1472:77: warning: right shift count >= width of type [-Wshift-count-overflow] 1472 | const size_t nb_bmp_km_short = ((km_unitigs.size() * (k_ - g_ + 1)) >> 32) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1494:57: warning: right shift count >= width of type [-Wshift-count-overflow] 1494 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1501:45: warning: right shift count >= width of type [-Wshift-count-overflow] 1501 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1512:49: warning: right shift count >= width of type [-Wshift-count-overflow] 1512 | lv_bmp_km_short[pos >> 32].add(pos & 0x00000000ffffffffULL); | ~~~~^~~~~ /<>/src/IO.tcc:1516:53: warning: right shift count >= width of type [-Wshift-count-overflow] 1516 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1531:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1531 | lv_bmp_unitigs[pos >> 32].add(pos & 0x00000000ffffffffULL); | ~~~~^~~~~ /<>/src/IO.tcc:1535:61: warning: right shift count >= width of type [-Wshift-count-overflow] 1535 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1681:61: warning: right shift count >= width of type [-Wshift-count-overflow] 1681 | const size_t nb_bmp_special_minz = (nb_special_minz >> 32) + 1; | ~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1695:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1695 | if (v_bmp_minz[id_minz >> 32].contains(id_minz & 0x00000000ffffffffULL)) { | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1706:73: warning: right shift count >= width of type [-Wshift-count-overflow] 1706 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1713:70: warning: right shift count >= width of type [-Wshift-count-overflow] 1713 | const size_t id_bmp = id_special >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1762:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1762 | if (v_bmp_minz[id_minz >> 32].contains(id_minz & 0x00000000ffffffffULL)) { | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1773:69: warning: right shift count >= width of type [-Wshift-count-overflow] 1773 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘bool CompactedDBG::annotateSplitUnitig(const std::string&, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string]’: /<>/src/CompactedDBG.tcc:2243:61: required from ‘bool CompactedDBG::annotateSplitUnitigs(const CompactedDBG&, size_t, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 2243 | for (const auto& unitig : o) annotateSplitUnitig(unitig.referenceUnitigToString(), false); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:203:82: required from ‘bool ColoredCDBG::merge(ColoredCDBG&&, size_t, bool) [with Unitig_data_t = void; size_t = unsigned int]’ 203 | ret = CompactedDBG, DataStorage>::annotateSplitUnitigs(o, nb_threads, verbose); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:673:65: required from here 673 | if (success) success = ccdbg_a.merge(move(ccdbg_b), lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5655:27: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 5655 | size_t nb_prev_pred = 0xFFFFFFFFFFFFFFFF; | ^~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5656:27: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 5656 | size_t nb_prev_succ = 0xFFFFFFFFFFFFFFFF; | ^~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘bool CompactedDBG::annotateSplitUnitig(const std::string&, LockGraph&, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string]’: /<>/src/CompactedDBG.tcc:2284:52: required from ‘bool CompactedDBG::annotateSplitUnitigs(const CompactedDBG&, size_t, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 2284 | annotateSplitUnitig(it_unitig->referenceUnitigToString(), lck_g/*, t*/, false); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:203:82: required from ‘bool ColoredCDBG::merge(ColoredCDBG&&, size_t, bool) [with Unitig_data_t = void; size_t = unsigned int]’ 203 | ret = CompactedDBG, DataStorage>::annotateSplitUnitigs(o, nb_threads, verbose); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:673:65: required from here 673 | if (success) success = ccdbg_a.merge(move(ccdbg_b), lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5806:27: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 5806 | size_t nb_prev_pred = 0xFFFFFFFFFFFFFFFF; | ^~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5807:27: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 5807 | size_t nb_prev_succ = 0xFFFFFFFFFFFFFFFF; | ^~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc: In instantiation of ‘std::pair CompactedDBG::readBinaryGraph(std::istream&) [with Unitig_data_t = void; Graph_data_t = void; std::istream = std::basic_istream]’: /<>/src/IO.tcc:1198:27: required from ‘std::pair CompactedDBG::readBinaryGraph(const std::string&) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string]’ 1198 | return readBinaryGraph(in); | ~~~~~~~~~~~~~~~^~~~ /<>/src/IO.tcc:382:46: required from ‘bool CompactedDBG::read(const std::string&, const std::string&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 382 | p_readSuccess_checksum = readBinaryGraph(input_graph_fn); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:685:46: required from here 685 | else success = cdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:1230:55: warning: right shift count >= width of type [-Wshift-count-overflow] 1230 | const size_t file_format_header = file_format >> 32; | ~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc: In instantiation of ‘bool CompactedDBG::readBinaryIndex(std::istream&, uint64_t) [with Unitig_data_t = void; Graph_data_t = void; std::istream = std::basic_istream; uint64_t = long long unsigned int]’: /<>/src/IO.tcc:945:27: required from ‘bool CompactedDBG::readBinaryIndex(const std::string&, uint64_t) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; uint64_t = long long unsigned int]’ 945 | return readBinaryIndex(in, checksum); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /<>/src/IO.tcc:392:32: required from ‘bool CompactedDBG::read(const std::string&, const std::string&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 392 | invalid = !readBinaryIndex(input_index_fn, p_readSuccess_checksum.first); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:685:46: required from here 685 | else success = cdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:993:55: warning: right shift count >= width of type [-Wshift-count-overflow] 993 | const size_t file_format_header = file_format >> 32; | ~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1037:41: warning: left shift count >= width of type [-Wshift-count-overflow] 1037 | const size_t id_bmp = i << 32; | ~~^~~~~ /<>/src/IO.tcc:1052:61: warning: left shift count >= width of type [-Wshift-count-overflow] 1052 | const size_t pos_id_unitig = (unitig_id << 32) | relative_pos; | ~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1085:41: warning: left shift count >= width of type [-Wshift-count-overflow] 1085 | const size_t id_bmp = i << 32; | ~~^~~~~ /<>/src/IO.tcc:1094:57: warning: left shift count >= width of type [-Wshift-count-overflow] 1094 | const size_t pos_id_unitig = (km_id << 32) | MASK_CONTIG_TYPE | km_pos; | ~~~~~~~^~~~~~ /<>/src/IO.tcc:1121:66: warning: right shift count >= width of type [-Wshift-count-overflow] 1121 | vector v_bmp_abundant((nb_special_minz >> 32) + 1); | ~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1122:69: warning: right shift count >= width of type [-Wshift-count-overflow] 1122 | vector v_bmp_overcrowded((nb_special_minz >> 32) + 1); | ~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1131:58: warning: right shift count >= width of type [-Wshift-count-overflow] 1131 | const bool isAbundant = v_bmp_abundant[i >> 32].contains(i & 0x00000000ffffffffULL); | ~~^~~~~ /<>/src/IO.tcc:1132:64: warning: right shift count >= width of type [-Wshift-count-overflow] 1132 | const bool isOvercrowded = v_bmp_overcrowded[i >> 32].contains(i & 0x00000000ffffffffULL); | ~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘bool CompactedDBG::annotateSplitUnitig(const std::string&, bool) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string]’: /<>/src/CompactedDBG.tcc:2243:61: required from ‘bool CompactedDBG::annotateSplitUnitigs(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2243 | for (const auto& unitig : o) annotateSplitUnitig(unitig.referenceUnitigToString(), false); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:2129:13: required from ‘bool CompactedDBG::merge(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2129 | if (annotateSplitUnitigs(o, nb_threads, verbose)){ | ^~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:705:55: required from here 705 | success = cdbg_a.merge(cdbg_b, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5655:27: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 5655 | size_t nb_prev_pred = 0xFFFFFFFFFFFFFFFF; | ^~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5656:27: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 5656 | size_t nb_prev_succ = 0xFFFFFFFFFFFFFFFF; | ^~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘bool CompactedDBG::annotateSplitUnitig(const std::string&, LockGraph&, bool) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string]’: /<>/src/CompactedDBG.tcc:2284:52: required from ‘bool CompactedDBG::annotateSplitUnitigs(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2284 | annotateSplitUnitig(it_unitig->referenceUnitigToString(), lck_g/*, t*/, false); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:2129:13: required from ‘bool CompactedDBG::merge(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2129 | if (annotateSplitUnitigs(o, nb_threads, verbose)){ | ^~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:705:55: required from here 705 | success = cdbg_a.merge(cdbg_b, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5806:27: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 5806 | size_t nb_prev_pred = 0xFFFFFFFFFFFFFFFF; | ^~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5807:27: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 5807 | size_t nb_prev_succ = 0xFFFFFFFFFFFFFFFF; | ^~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t, size_t) [with bool is_const = true; T = CompressedCoverage_t >; KHT_ptr_t = const KmerHashTable > >*; size_t = unsigned int]’: /<>/src/KmerHashTable.hpp:396:61: required from ‘KmerHashTable::const_iterator KmerHashTable::find(size_t) const [with T = CompressedCoverage_t >; const_iterator = KmerHashTable > >::iterator_; size_t = unsigned int]’ 396 | if ((h < size_) && !table_keys[h].isEmpty()) return const_iterator(this, h); | ^~~~~~~~~~~~~~~~~~~~~~~ /<>/src/UnitigMap.tcc:274:51: required from ‘typename std::enable_if<(! is_void), typename std::conditional::type>::type UnitigMap::getData_() const [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = true; typename std::enable_if<(! is_void), typename std::conditional::type>::type = const DataAccessor*; typename std::conditional::type = const DataAccessor*]’ 274 | if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig)->getData(); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/src/UnitigMap.tcc:253:39: required from ‘UnitigMap::Unitig_data_ptr_t UnitigMap::getData() const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = true; Unitig_data_ptr_t = const DataAccessor*]’ 253 | return getData_::value>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/src/DataAccessor.tcc:243:48: required from here 243 | const UnitigColors* uc_src = um_src.getData()->getUnitigColors(um_src); // Get UnitigColors associated with reference unitig of um_src | ~~~~~~~~~~~~~~^~ /<>/src/KmerHashTable.hpp:37:72: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 37 | iterator_(KHT_ptr_t ht_, size_t h_) : ht(ht_), h(h_), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t) [with bool is_const = true; T = CompressedCoverage_t >; KHT_ptr_t = const KmerHashTable > >*]’: /<>/src/KmerHashTable.hpp:398:16: required from ‘KmerHashTable::const_iterator KmerHashTable::find(size_t) const [with T = CompressedCoverage_t >; const_iterator = KmerHashTable > >::iterator_; size_t = unsigned int]’ 398 | return const_iterator(this); | ^~~~~~~~~~~~~~~~~~~~ /<>/src/UnitigMap.tcc:274:51: required from ‘typename std::enable_if<(! is_void), typename std::conditional::type>::type UnitigMap::getData_() const [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = true; typename std::enable_if<(! is_void), typename std::conditional::type>::type = const DataAccessor*; typename std::conditional::type = const DataAccessor*]’ 274 | if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig)->getData(); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/src/UnitigMap.tcc:253:39: required from ‘UnitigMap::Unitig_data_ptr_t UnitigMap::getData() const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = true; Unitig_data_ptr_t = const DataAccessor*]’ 253 | return getData_::value>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/src/DataAccessor.tcc:243:48: required from here 243 | const UnitigColors* uc_src = um_src.getData()->getUnitigColors(um_src); // Get UnitigColors associated with reference unitig of um_src | ~~~~~~~~~~~~~~^~ /<>/src/KmerHashTable.hpp:36:51: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:79: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘void KmerHashTable::iterator_::get_to_first() [with bool is_const = false; T = CompressedCoverage_t >]’: /<>/src/KmerHashTable.hpp:734:24: required from ‘KmerHashTable::iterator KmerHashTable::begin() [with T = CompressedCoverage_t >; iterator = KmerHashTable > >::iterator_]’ 734 | it.get_to_first(); | ~~~~~~~~~~~~~~~^~ /<>/src/UnitigIterator.tcc:12:165: required from ‘unitigIterator::unitigIterator(CompactedDBG_ptr_t) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; bool is_const = false; CompactedDBG_ptr_t = CompactedDBG, DataStorage >*]’ 12 | it_h_kmers_ccov((cdbg_ == nullptr) || cdbg_->invalid ? typename KmerHashTable>::const_iterator() : cdbg_->h_kmers_ccov.begin()){ | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:2509:14: required from ‘CompactedDBG::iterator CompactedDBG::begin() [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; iterator = unitigIterator, DataStorage, false>]’ 2509 | iterator it(this); | ^~ /<>/src/ColoredCDBG.tcc:968:59: required from here 968 | typename ColoredCDBG::iterator g_a = this->begin(); | ~~~~~~~~~~~^~ /<>/src/KmerHashTable.hpp:109:21: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 109 | h = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:110:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 110 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘const_UnitigMap CompactedDBG::find(const Kmer&, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; const_UnitigMap = UnitigMap, DataStorage, true>]’: /<>/src/CompactedDBG.tcc:7428:50: required from ‘void CompactedDBG::createJoinHT(std::vector*, KmerHashTable&, size_t) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 7428 | const const_UnitigMap cm = find(km, true); | ~~~~^~~~~~~~~~ /<>/src/CompactedDBG.tcc:7465:17: required from ‘typename std::enable_if<(! is_void), unsigned int>::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; typename std::enable_if<(! is_void), unsigned int>::type = unsigned int; size_t = unsigned int]’ 7465 | createJoinHT(v_joins, joins, nb_threads); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1016:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1016 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t) [with bool is_const = false; T = char; KHT_ptr_t = KmerHashTable*]’: /<>/src/KmerHashTable.hpp:732:18: required from ‘KmerHashTable::iterator KmerHashTable::begin() [with T = char; iterator = KmerHashTable::iterator_]’ 732 | iterator it(this); | ^~ /<>/src/CompactedDBG.tcc:7469:56: required from ‘typename std::enable_if<(! is_void), unsigned int>::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; typename std::enable_if<(! is_void), unsigned int>::type = unsigned int; size_t = unsigned int]’ 7469 | for (KmerHashTable::iterator it = joins.begin(); it != joins.end(); ++it) { | ~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:51: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:79: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘void KmerHashTable::iterator_::get_to_first() [with bool is_const = false; T = char]’: /<>/src/KmerHashTable.hpp:734:24: required from ‘KmerHashTable::iterator KmerHashTable::begin() [with T = char; iterator = KmerHashTable::iterator_]’ 734 | it.get_to_first(); | ~~~~~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:7469:56: required from ‘typename std::enable_if<(! is_void), unsigned int>::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; typename std::enable_if<(! is_void), unsigned int>::type = unsigned int; size_t = unsigned int]’ 7469 | for (KmerHashTable::iterator it = joins.begin(); it != joins.end(); ++it) { | ~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:109:21: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 109 | h = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:110:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 110 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘std::vector > CompactedDBG::findPredecessors(const Kmer&, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’: /<>/src/IO.tcc:468:72: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 468 | const vector> pred = findPredecessors(head, true); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/ColoredCDBG.tcc:422:62: required from ‘bool ColoredCDBG::write(const std::string&, size_t, bool, bool, bool) const [with Unitig_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 422 | if (!CompactedDBG, DataStorage>::write(prefix_output_fn, nb_threads, true, false, false, write_index_file, compress_output, verbose)) return false; // Write graph | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:632:55: required from here 632 | if (success) success = ccdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1342:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1342 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘std::vector > CompactedDBG::findSuccessors(const Kmer&, size_t, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’: /<>/src/IO.tcc:469:70: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 469 | const vector> succ = findSuccessors(tail, 4, true); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/ColoredCDBG.tcc:422:62: required from ‘bool ColoredCDBG::write(const std::string&, size_t, bool, bool, bool) const [with Unitig_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 422 | if (!CompactedDBG, DataStorage>::write(prefix_output_fn, nb_threads, true, false, false, write_index_file, compress_output, verbose)) return false; // Write graph | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:632:55: required from here 632 | if (success) success = ccdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1658:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1658 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc: In instantiation of ‘bool CompactedDBG::writeBinaryGraph(std::ostream&, size_t) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::ostream = std::basic_ostream; size_t = unsigned int]’: /<>/src/IO.tcc:1362:28: required from ‘bool CompactedDBG::writeBinaryGraph(const std::string&, size_t) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 1362 | return writeBinaryGraph(out, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:84:62: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 84 | else if (BFG_output) write_success = writeBinaryGraph(fn, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:422:62: required from ‘bool ColoredCDBG::write(const std::string&, size_t, bool, bool, bool) const [with Unitig_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 422 | if (!CompactedDBG, DataStorage>::write(prefix_output_fn, nb_threads, true, false, false, write_index_file, compress_output, verbose)) return false; // Write graph | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:632:55: required from here 632 | if (success) success = ccdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:1373:92: warning: left shift count >= width of type [-Wshift-count-overflow] 1373 | const size_t fileformat_version = (static_cast(BFG_GRAPHBIN_FORMAT_HEADER) << 32) | static_cast(BFG_GRAPHBIN_FORMAT_VERSION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc: In instantiation of ‘bool CompactedDBG::writeBinaryIndex(std::ostream&, uint64_t, size_t) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::ostream = std::basic_ostream; uint64_t = long long unsigned int; size_t = unsigned int]’: /<>/src/IO.tcc:1423:28: required from ‘bool CompactedDBG::writeBinaryIndex(const std::string&, uint64_t, size_t) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; uint64_t = long long unsigned int; size_t = unsigned int]’ 1423 | return writeBinaryIndex(out, checksum, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:117:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 117 | write_success = writeBinaryIndex(fn, graph_checksum, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:422:62: required from ‘bool ColoredCDBG::write(const std::string&, size_t, bool, bool, bool) const [with Unitig_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 422 | if (!CompactedDBG, DataStorage>::write(prefix_output_fn, nb_threads, true, false, false, write_index_file, compress_output, verbose)) return false; // Write graph | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:632:55: required from here 632 | if (success) success = ccdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:1431:57: warning: right shift count >= width of type [-Wshift-count-overflow] 1431 | const size_t nb_bmp_minz = (hmap_min_unitigs.size() >> 32) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1442:91: warning: left shift count >= width of type [-Wshift-count-overflow] 1442 | const size_t fileformat_version = (static_cast(BFG_METABIN_FORMAT_HEADER) << 32) | static_cast(BFG_METABIN_FORMAT_VERSION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1471:67: warning: right shift count >= width of type [-Wshift-count-overflow] 1471 | const size_t nb_bmp_unitigs = (v_block_len_unitigs.back() >> 32) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1472:77: warning: right shift count >= width of type [-Wshift-count-overflow] 1472 | const size_t nb_bmp_km_short = ((km_unitigs.size() * (k_ - g_ + 1)) >> 32) + 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1494:57: warning: right shift count >= width of type [-Wshift-count-overflow] 1494 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1501:45: warning: right shift count >= width of type [-Wshift-count-overflow] 1501 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1512:49: warning: right shift count >= width of type [-Wshift-count-overflow] 1512 | lv_bmp_km_short[pos >> 32].add(pos & 0x00000000ffffffffULL); | ~~~~^~~~~ /<>/src/IO.tcc:1516:53: warning: right shift count >= width of type [-Wshift-count-overflow] 1516 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1531:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1531 | lv_bmp_unitigs[pos >> 32].add(pos & 0x00000000ffffffffULL); | ~~~~^~~~~ /<>/src/IO.tcc:1535:61: warning: right shift count >= width of type [-Wshift-count-overflow] 1535 | lv_bmp_minz[id_minz >> 32].add(id_minz & 0x00000000ffffffffULL); | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1681:61: warning: right shift count >= width of type [-Wshift-count-overflow] 1681 | const size_t nb_bmp_special_minz = (nb_special_minz >> 32) + 1; | ~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1695:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1695 | if (v_bmp_minz[id_minz >> 32].contains(id_minz & 0x00000000ffffffffULL)) { | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1706:73: warning: right shift count >= width of type [-Wshift-count-overflow] 1706 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1713:70: warning: right shift count >= width of type [-Wshift-count-overflow] 1713 | const size_t id_bmp = id_special >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1762:48: warning: right shift count >= width of type [-Wshift-count-overflow] 1762 | if (v_bmp_minz[id_minz >> 32].contains(id_minz & 0x00000000ffffffffULL)) { | ~~~~~~~~^~~~~ /<>/src/IO.tcc:1773:69: warning: right shift count >= width of type [-Wshift-count-overflow] 1773 | const size_t unitig_id = unitig_idx >> 32; | ~~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t) [with bool is_const = false; T = CompressedCoverage_t; KHT_ptr_t = KmerHashTable >*]’: /<>/src/KmerHashTable.hpp:732:18: required from ‘KmerHashTable::iterator KmerHashTable::begin() [with T = CompressedCoverage_t; iterator = KmerHashTable >::iterator_]’ 732 | iterator it(this); | ^~ /<>/src/CompactedDBG.tcc:119:90: required from ‘CompactedDBG& CompactedDBG::toDataGraph(CompactedDBG&&, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 119 | KmerHashTable>::const_iterator it_s = o.h_kmers_ccov.begin(); | ~~~~~~~~~~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:611:45: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = void; Graph_data_t = void]’ 611 | if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | ^~~~~~~~~~~ /<>/src/Bifrost.cpp:638:41: required from here 638 | success = cdbg.build(opt); | ~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp:36:51: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:79: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘void KmerHashTable::iterator_::get_to_first() [with bool is_const = false; T = CompressedCoverage_t]’: /<>/src/KmerHashTable.hpp:734:24: required from ‘KmerHashTable::iterator KmerHashTable::begin() [with T = CompressedCoverage_t; iterator = KmerHashTable >::iterator_]’ 734 | it.get_to_first(); | ~~~~~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:119:90: required from ‘CompactedDBG& CompactedDBG::toDataGraph(CompactedDBG&&, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 119 | KmerHashTable>::const_iterator it_s = o.h_kmers_ccov.begin(); | ~~~~~~~~~~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:611:45: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = void; Graph_data_t = void]’ 611 | if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | ^~~~~~~~~~~ /<>/src/Bifrost.cpp:638:41: required from here 638 | success = cdbg.build(opt); | ~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp:109:21: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 109 | h = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:110:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 110 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_() [with bool is_const = false; T = CompressedCoverage_t]’: /usr/i686-linux-gnu/include/c++/15/bits/stl_pair.h:746:9: required from ‘constexpr std::pair<_T1, _T2>::pair() [with _U1 = KmerHashTable >::iterator_; _U2 = bool; typename std::enable_if, std::__is_implicitly_default_constructible<_U2> >::value, bool>::type = true; _T1 = KmerHashTable >::iterator_; _T2 = bool]’ 746 | : first(), second() { } | ^~~~~~~ /<>/src/KmerHashTable.hpp:573:45: required from ‘std::pair::iterator_, bool> KmerHashTable::insert(Kmer&&, T&&) [with T = CompressedCoverage_t]’ 573 | pair it_ret; | ^~~~~~ /<>/src/CompactedDBG.tcc:128:28: required from ‘CompactedDBG& CompactedDBG::toDataGraph(CompactedDBG&&, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 128 | h_kmers_ccov.insert(move(km), move(it_s->ccov)); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:611:45: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = void; Graph_data_t = void]’ 611 | if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | ^~~~~~~~~~~ /<>/src/Bifrost.cpp:638:41: required from here 638 | success = cdbg.build(opt); | ~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp:35:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:70: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_() [with bool is_const = false; T = unsigned char]’: /usr/i686-linux-gnu/include/c++/15/bits/stl_pair.h:746:9: required from ‘constexpr std::pair<_T1, _T2>::pair() [with _U1 = KmerHashTable::iterator_; _U2 = bool; typename std::enable_if, std::__is_implicitly_default_constructible<_U2> >::value, bool>::type = true; _T1 = KmerHashTable::iterator_; _T2 = bool]’ 746 | : first(), second() { } | ^~~~~~~ /<>/src/KmerHashTable.hpp:473:45: required from ‘std::pair::iterator_, bool> KmerHashTable::insert(const Kmer&, const T&) [with T = unsigned char]’ 473 | pair it_ret; | ^~~~~~ /<>/src/CompactedDBG.tcc:3080:135: required from ‘bool CompactedDBG::construct(const CDBG_Build_opt&, DualBlockedBloomFilter&, Roaring&, size_t, size_t, size_t, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 3080 | const pair::const_iterator, bool> p_insert_kmt_fp_cand = kmt_fp_cand.insert(km_rep, 0); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /<>/src/CompactedDBG.tcc:679:62: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = void; Graph_data_t = void]’ 679 | if (construct_finished) construct_finished = construct(opt, dbbf, r, nb_unique_minimizers, nb_non_unique_minimizers, nb_unique_kmers, nb_non_unique_kmers); // Construction step | ^~~~~~~~~ /<>/src/Bifrost.cpp:638:41: required from here 638 | success = cdbg.build(opt); | ~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp:35:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:70: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_() [with bool is_const = true; T = CompressedCoverage_t]’: /<>/src/CompactedDBG.tcc:7309:69: required from ‘void CompactedDBG::createJoinHT(std::vector*, KmerHashTable&, size_t) const [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 7309 | typename h_kmers_ccov_t::const_iterator l_it; | ^~~~ /<>/src/CompactedDBG.tcc:7634:17: required from ‘typename std::enable_if::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = true; Unitig_data_t = void; Graph_data_t = void; typename std::enable_if::type = unsigned int; size_t = unsigned int]’ 7634 | createJoinHT(v_joins, joins, nb_threads); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = void; Graph_data_t = void]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:640:57: required from here 640 | if (success) success = cdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:70: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘const_UnitigMap CompactedDBG::find(const Kmer&, bool) const [with Unitig_data_t = void; Graph_data_t = void; const_UnitigMap = UnitigMap]’: /<>/src/CompactedDBG.tcc:7428:50: required from ‘void CompactedDBG::createJoinHT(std::vector*, KmerHashTable&, size_t) const [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 7428 | const const_UnitigMap cm = find(km, true); | ~~~~^~~~~~~~~~ /<>/src/CompactedDBG.tcc:7634:17: required from ‘typename std::enable_if::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = true; Unitig_data_t = void; Graph_data_t = void; typename std::enable_if::type = unsigned int; size_t = unsigned int]’ 7634 | createJoinHT(v_joins, joins, nb_threads); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = void; Graph_data_t = void]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:640:57: required from here 640 | if (success) success = cdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1016:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1016 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t, size_t) [with bool is_const = false; T = CompressedCoverage_t; KHT_ptr_t = KmerHashTable >*; size_t = unsigned int]’: /<>/src/KmerHashTable.hpp:389:61: required from ‘KmerHashTable::iterator KmerHashTable::find(size_t) [with T = CompressedCoverage_t; iterator = KmerHashTable >::iterator_; size_t = unsigned int]’ 389 | if ((h < size_) && !table_keys[h].isEmpty()) return iterator(this, h); | ^~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:7651:72: required from ‘typename std::enable_if::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = true; Unitig_data_t = void; Graph_data_t = void; typename std::enable_if::type = unsigned int; size_t = unsigned int]’ 7651 | else if (cmHead.isAbundant) cmHead_head = h_kmers_ccov.find(cmHead.pos_unitig).getKey(); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = void; Graph_data_t = void]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:640:57: required from here 640 | if (success) success = cdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:37:72: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 37 | iterator_(KHT_ptr_t ht_, size_t h_) : ht(ht_), h(h_), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t) [with bool is_const = false; T = unsigned int; KHT_ptr_t = KmerHashTable*]’: /<>/src/KmerHashTable.hpp:316:16: required from ‘KmerHashTable::iterator KmerHashTable::find(const Kmer&) [with T = unsigned int; iterator = KmerHashTable::iterator_]’ 316 | return iterator(this); | ^~~~~~~~~~~~~~ /<>/src/IO.tcc:475:65: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 475 | if (unitig.isAbundant) labelB = *(idmap.find(unitig.getUnitigHead().rep())); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:51: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:79: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘void KmerHashTable::iterator_::get_to_first() [with bool is_const = false; T = unsigned int]’: /<>/src/KmerHashTable.hpp:734:24: required from ‘KmerHashTable::iterator KmerHashTable::begin() [with T = unsigned int; iterator = KmerHashTable::iterator_]’ 734 | it.get_to_first(); | ~~~~~~~~~~~~~~~^~ /<>/src/IO.tcc:544:62: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 544 | for (KmerHashTable::iterator it = idmap.begin(); it != idmap.end(); it++) { | ~~~~~~~~~~~^~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:109:21: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 109 | h = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:110:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 110 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t) [with bool is_const = true; T = CompressedCoverage_t; KHT_ptr_t = const KmerHashTable >*]’: /<>/src/KmerHashTable.hpp:741:24: required from ‘KmerHashTable::const_iterator KmerHashTable::begin() const [with T = CompressedCoverage_t; const_iterator = KmerHashTable >::iterator_]’ 741 | const_iterator it(this); | ^~ /<>/src/IO.tcc:876:74: required from ‘bool CompactedDBG::writeFASTA(const std::string&, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string]’ 876 | for (typename h_kmers_ccov_t::const_iterator it = h_kmers_ccov.begin(); !gout.fail() && (it != h_kmers_ccov.end()); ++it, ++i) { | ~~~~~~~~~~~~~~~~~~^~ /<>/src/IO.tcc:83:48: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 83 | else if (FASTA_output) write_success = writeFASTA(fn, compressed_output); | ^~~~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:51: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:79: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘void KmerHashTable::iterator_::get_to_first() [with bool is_const = true; T = CompressedCoverage_t]’: /<>/src/KmerHashTable.hpp:743:24: required from ‘KmerHashTable::const_iterator KmerHashTable::begin() const [with T = CompressedCoverage_t; const_iterator = KmerHashTable >::iterator_]’ 743 | it.get_to_first(); | ~~~~~~~~~~~~~~~^~ /<>/src/IO.tcc:876:74: required from ‘bool CompactedDBG::writeFASTA(const std::string&, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string]’ 876 | for (typename h_kmers_ccov_t::const_iterator it = h_kmers_ccov.begin(); !gout.fail() && (it != h_kmers_ccov.end()); ++it, ++i) { | ~~~~~~~~~~~~~~~~~~^~ /<>/src/IO.tcc:83:48: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 83 | else if (FASTA_output) write_success = writeFASTA(fn, compressed_output); | ^~~~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:109:21: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 109 | h = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:110:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 110 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/MinimizerIndex.hpp: In instantiation of ‘MinimizerIndex::iterator_& MinimizerIndex::iterator_::operator++() [with bool is_const = true]’: /<>/src/IO.tcc:1542:17: required from ‘bool CompactedDBG::writeBinaryIndex(std::ostream&, uint64_t, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::ostream = std::basic_ostream; uint64_t = long long unsigned int; size_t = unsigned int]’ 1542 | ++it; | ^~~~ /<>/src/IO.tcc:1423:28: required from ‘bool CompactedDBG::writeBinaryIndex(const std::string&, uint64_t, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; uint64_t = long long unsigned int; size_t = unsigned int]’ 1423 | return writeBinaryIndex(out, checksum, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:117:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 117 | write_success = writeBinaryIndex(fn, graph_checksum, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/MinimizerIndex.hpp:101:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 101 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/MinimizerIndex.hpp: In instantiation of ‘MinimizerIndex::iterator_::iterator_() [with bool is_const = true]’: /<>/src/IO.tcc:1621:48: required from ‘bool CompactedDBG::writeBinaryIndex(std::ostream&, uint64_t, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::ostream = std::basic_ostream; uint64_t = long long unsigned int; size_t = unsigned int]’ 1621 | MinimizerIndex::const_iterator lit; | ^~~ /<>/src/IO.tcc:1423:28: required from ‘bool CompactedDBG::writeBinaryIndex(const std::string&, uint64_t, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; uint64_t = long long unsigned int; size_t = unsigned int]’ 1423 | return writeBinaryIndex(out, checksum, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:117:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 117 | write_success = writeBinaryIndex(fn, graph_checksum, nb_threads); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/MinimizerIndex.hpp:34:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 34 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/MinimizerIndex.hpp:34:70: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 34 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc: In instantiation of ‘std::pair CompactedDBG::readBinaryGraph(std::istream&) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::istream = std::basic_istream]’: /<>/src/IO.tcc:1198:27: required from ‘std::pair CompactedDBG::readBinaryGraph(const std::string&) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string]’ 1198 | return readBinaryGraph(in); | ~~~~~~~~~~~~~~~^~~~ /<>/src/IO.tcc:382:46: required from ‘bool CompactedDBG::read(const std::string&, const std::string&, size_t, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 382 | p_readSuccess_checksum = readBinaryGraph(input_graph_fn); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:709:71: required from ‘bool ColoredCDBG::read(const std::string&, const std::string&, const std::string&, size_t, bool) [with Unitig_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 709 | invalid = !CompactedDBG, DataStorage>::read(input_graph_fn, input_index_fn, nb_threads, verbose); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:653:47: required from here 653 | else success = ccdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.filename_colors_in, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:1230:55: warning: right shift count >= width of type [-Wshift-count-overflow] 1230 | const size_t file_format_header = file_format >> 32; | ~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc: In instantiation of ‘bool CompactedDBG::readBinaryIndex(std::istream&, uint64_t) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::istream = std::basic_istream; uint64_t = long long unsigned int]’: /<>/src/IO.tcc:945:27: required from ‘bool CompactedDBG::readBinaryIndex(const std::string&, uint64_t) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; uint64_t = long long unsigned int]’ 945 | return readBinaryIndex(in, checksum); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /<>/src/IO.tcc:392:32: required from ‘bool CompactedDBG::read(const std::string&, const std::string&, size_t, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 392 | invalid = !readBinaryIndex(input_index_fn, p_readSuccess_checksum.first); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:709:71: required from ‘bool ColoredCDBG::read(const std::string&, const std::string&, const std::string&, size_t, bool) [with Unitig_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 709 | invalid = !CompactedDBG, DataStorage>::read(input_graph_fn, input_index_fn, nb_threads, verbose); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:653:47: required from here 653 | else success = ccdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.filename_colors_in, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/IO.tcc:993:55: warning: right shift count >= width of type [-Wshift-count-overflow] 993 | const size_t file_format_header = file_format >> 32; | ~~~~~~~~~~~~^~~~~ /<>/src/IO.tcc:1037:41: warning: left shift count >= width of type [-Wshift-count-overflow] 1037 | const size_t id_bmp = i << 32; | ~~^~~~~ /<>/src/IO.tcc:1052:61: warning: left shift count >= width of type [-Wshift-count-overflow] 1052 | const size_t pos_id_unitig = (unitig_id << 32) | relative_pos; | ~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1085:41: warning: left shift count >= width of type [-Wshift-count-overflow] 1085 | const size_t id_bmp = i << 32; | ~~^~~~~ /<>/src/IO.tcc:1094:57: warning: left shift count >= width of type [-Wshift-count-overflow] 1094 | const size_t pos_id_unitig = (km_id << 32) | MASK_CONTIG_TYPE | km_pos; | ~~~~~~~^~~~~~ /<>/src/IO.tcc:1121:66: warning: right shift count >= width of type [-Wshift-count-overflow] 1121 | vector v_bmp_abundant((nb_special_minz >> 32) + 1); | ~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1122:69: warning: right shift count >= width of type [-Wshift-count-overflow] 1122 | vector v_bmp_overcrowded((nb_special_minz >> 32) + 1); | ~~~~~~~~~~~~~~~~~^~~~~~ /<>/src/IO.tcc:1131:58: warning: right shift count >= width of type [-Wshift-count-overflow] 1131 | const bool isAbundant = v_bmp_abundant[i >> 32].contains(i & 0x00000000ffffffffULL); | ~~^~~~~ /<>/src/IO.tcc:1132:64: warning: right shift count >= width of type [-Wshift-count-overflow] 1132 | const bool isOvercrowded = v_bmp_overcrowded[i >> 32].contains(i & 0x00000000ffffffffULL); | ~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘std::vector > CompactedDBG::findPredecessors(const Kmer&, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’: /<>/src/CompactedDBG.tcc:5692:59: required from ‘bool CompactedDBG::annotateSplitUnitig(const std::string&, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string]’ 5692 | vector> um_bw(findPredecessors(p.first)); | ~~~~~~~~~~~~~~~~^~~~~~~~~ /<>/src/CompactedDBG.tcc:2243:61: required from ‘bool CompactedDBG::annotateSplitUnitigs(const CompactedDBG&, size_t, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 2243 | for (const auto& unitig : o) annotateSplitUnitig(unitig.referenceUnitigToString(), false); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:203:82: required from ‘bool ColoredCDBG::merge(ColoredCDBG&&, size_t, bool) [with Unitig_data_t = void; size_t = unsigned int]’ 203 | ret = CompactedDBG, DataStorage>::annotateSplitUnitigs(o, nb_threads, verbose); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:673:65: required from here 673 | if (success) success = ccdbg_a.merge(move(ccdbg_b), lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1498:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1498 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘std::vector > CompactedDBG::findSuccessors(const Kmer&, size_t, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:5693:57: required from ‘bool CompactedDBG::annotateSplitUnitig(const std::string&, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string]’ 5693 | vector> um_fw(findSuccessors(p.first)); | ~~~~~~~~~~~~~~^~~~~~~~~ /<>/src/CompactedDBG.tcc:2243:61: required from ‘bool CompactedDBG::annotateSplitUnitigs(const CompactedDBG&, size_t, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 2243 | for (const auto& unitig : o) annotateSplitUnitig(unitig.referenceUnitigToString(), false); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:203:82: required from ‘bool ColoredCDBG::merge(ColoredCDBG&&, size_t, bool) [with Unitig_data_t = void; size_t = unsigned int]’ 203 | ret = CompactedDBG, DataStorage>::annotateSplitUnitigs(o, nb_threads, verbose); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:673:65: required from here 673 | if (success) success = ccdbg_a.merge(move(ccdbg_b), lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1848:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1848 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘std::vector > CompactedDBG::findPredecessors(const Kmer&, bool) [with Unitig_data_t = void; Graph_data_t = void]’: /<>/src/CompactedDBG.tcc:5692:59: required from ‘bool CompactedDBG::annotateSplitUnitig(const std::string&, bool) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string]’ 5692 | vector> um_bw(findPredecessors(p.first)); | ~~~~~~~~~~~~~~~~^~~~~~~~~ /<>/src/CompactedDBG.tcc:2243:61: required from ‘bool CompactedDBG::annotateSplitUnitigs(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2243 | for (const auto& unitig : o) annotateSplitUnitig(unitig.referenceUnitigToString(), false); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:2129:13: required from ‘bool CompactedDBG::merge(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2129 | if (annotateSplitUnitigs(o, nb_threads, verbose)){ | ^~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:705:55: required from here 705 | success = cdbg_a.merge(cdbg_b, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1498:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1498 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘std::vector > CompactedDBG::findSuccessors(const Kmer&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:5693:57: required from ‘bool CompactedDBG::annotateSplitUnitig(const std::string&, bool) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string]’ 5693 | vector> um_fw(findSuccessors(p.first)); | ~~~~~~~~~~~~~~^~~~~~~~~ /<>/src/CompactedDBG.tcc:2243:61: required from ‘bool CompactedDBG::annotateSplitUnitigs(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2243 | for (const auto& unitig : o) annotateSplitUnitig(unitig.referenceUnitigToString(), false); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:2129:13: required from ‘bool CompactedDBG::merge(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2129 | if (annotateSplitUnitigs(o, nb_threads, verbose)){ | ^~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:705:55: required from here 705 | success = cdbg_a.merge(cdbg_b, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:1848:43: warning: right shift count >= width of type [-Wshift-count-overflow] 1848 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘bool CompactedDBG::addUnitig(const std::string&, size_t, size_t, size_t) [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:6523:30: required from ‘typename std::enable_if::type CompactedDBG::extractUnitig_(size_t&, size_t&, size_t&, size_t&, const std::vector >&) [with bool is_void = true; Unitig_data_t = void; Graph_data_t = void; typename std::enable_if::type = bool; size_t = unsigned int]’ 6523 | if (addUnitig(split_str, v_kmers_sz, pos_v_unitigs, false)) h_kmers_ccov.find(Kmer(split_str.c_str()).rep())->ccov.setFull(); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:6768:46: required from ‘std::pair CompactedDBG::splitAllUnitigs() [with Unitig_data_t = void; Graph_data_t = void]’ 6768 | extractUnitig_::value>(i, nxt_pos_insert, v_unitigs_sz, v_kmers_sz, sp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:2132:44: required from ‘bool CompactedDBG::merge(const CompactedDBG&, size_t, bool) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 2132 | const pair p = splitAllUnitigs(); | ^~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:705:55: required from here 705 | success = cdbg_a.merge(cdbg_b, lopt.nb_threads, lopt.verbose); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:5119:49: warning: left shift count >= width of type [-Wshift-count-overflow] 5119 | const size_t pos_id_unitig_r = (id_unitig_r << 32) | ((static_cast(!is_short_r) - 1) & MASK_CONTIG_TYPE); | ~~~~~~~~~~~~~^~~~~~ /<>/src/CompactedDBG.tcc:5124:38: warning: left shift count >= width of type [-Wshift-count-overflow] 5124 | size_t pos_id_unitig = id_unitig << 32; | ~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc:5291:62: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744069414584321’ to ‘1’ [-Woverflow] 5291 | else flag_v = v.push_back(MASK_CONTIG_ID + 1, flag_v); /<>/src/CompactedDBG.tcc: In instantiation of ‘const_UnitigMap CompactedDBG::find(const char*, size_t, const minHashIterator&, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; const_UnitigMap = UnitigMap, DataStorage, true>; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:4691:36: required from ‘const_UnitigMap CompactedDBG::findUnitig(const char*, size_t, size_t, const minHashIterator&) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; const_UnitigMap = UnitigMap, DataStorage, true>; size_t = unsigned int]’ 4691 | const_UnitigMap um = find(s, pos, it_min); | ~~~~^~~~~~~~~~~~~~~~ /<>/src/Search.tcc:668:72: required from ‘std::vector > > CompactedDBG::searchSequence(const std::string&, bool, bool, bool, bool, bool) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; std::string = std::__cxx11::basic_string]’ 668 | const const_UnitigMap um = findUnitig(s_inexact_str, pos_s, s_inexact_len, mhi); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:1700:90: required from ‘bool ColoredCDBG::search(const std::vector >&, const std::string&, double, bool, bool, bool, size_t, bool) const [with Unitig_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 1700 | const vector>> v_um_e = this->searchSequence(query, true, false, false, false, false); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:725:56: required from here 725 | if (success) success = ccdbg.search(opt.filename_query_in, opt.prefixFilenameOut, opt.ratio_kmers, opt.get_nb_found_km, opt.get_ratio_found_km, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 726 | opt.inexact_search, opt.nb_threads, opt.verbose); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:768:43: warning: right shift count >= width of type [-Wshift-count-overflow] 768 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/CompactedDBG.tcc: In instantiation of ‘const_UnitigMap CompactedDBG::find(const char*, size_t, const minHashIterator&, bool) const [with Unitig_data_t = void; Graph_data_t = void; const_UnitigMap = UnitigMap; size_t = unsigned int]’: /<>/src/CompactedDBG.tcc:4691:36: required from ‘const_UnitigMap CompactedDBG::findUnitig(const char*, size_t, size_t, const minHashIterator&) const [with Unitig_data_t = void; Graph_data_t = void; const_UnitigMap = UnitigMap; size_t = unsigned int]’ 4691 | const_UnitigMap um = find(s, pos, it_min); | ~~~~^~~~~~~~~~~~~~~~ /<>/src/Search.tcc:937:72: required from ‘std::vector > > CompactedDBG::searchSequence(const std::string&, bool, bool, bool, bool, double, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string]’ 937 | const const_UnitigMap um = findUnitig(s_inexact_str, pos_s, s_inexact_len, mhi); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Search.tcc:1152:89: required from ‘bool CompactedDBG::search(const std::vector >&, const std::string&, double, bool, bool, bool, size_t, size_t) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 1152 | const vector>> v = dbg.searchSequence( s, true, inexact_search, inexact_search, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1153 | inexact_search, 1.0, true); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/Bifrost.cpp:735:55: required from here 735 | if (success) success = cdbg.search( opt.filename_query_in, opt.prefixFilenameOut, opt.ratio_kmers, opt.get_nb_found_km, opt.get_ratio_found_km, | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 736 | opt.inexact_search, opt.nb_threads, opt.verbose); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:768:43: warning: right shift count >= width of type [-Wshift-count-overflow] 768 | unitig_id = unitig_id_pos >> 32; | ~~~~~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_() [with bool is_const = false; T = CompressedCoverage_t >]’: /usr/i686-linux-gnu/include/c++/15/bits/stl_pair.h:746:9: required from ‘constexpr std::pair<_T1, _T2>::pair() [with _U1 = KmerHashTable > >::iterator_; _U2 = bool; typename std::enable_if, std::__is_implicitly_default_constructible<_U2> >::value, bool>::type = true; _T1 = KmerHashTable > >::iterator_; _T2 = bool]’ 746 | : first(), second() { } | ^~~~~~~ /<>/src/KmerHashTable.hpp:573:45: required from ‘std::pair::iterator_, bool> KmerHashTable::insert(Kmer&&, T&&) [with T = CompressedCoverage_t >]’ 573 | pair it_ret; | ^~~~~~ /<>/src/CompactedDBG.tcc:128:28: required from ‘CompactedDBG& CompactedDBG::toDataGraph(CompactedDBG&&, size_t) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 128 | h_kmers_ccov.insert(move(km), move(it_s->ccov)); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:611:45: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 611 | if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | ^~~~~~~~~~~ /<>/src/ColoredCDBG.tcc:399:31: required from ‘bool ColoredCDBG::buildGraph(const CCDBG_Build_opt&) [with Unitig_data_t = void]’ 399 | invalid = !this->build(opt_); | ~~~~~~~~~~~^~~~~~ /<>/src/Bifrost.cpp:628:47: required from here 628 | success = ccdbg.buildGraph(opt); | ~~~~~~~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp:35:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:70: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘void KmerHashTable::iterator_::get_to_first() [with bool is_const = true; T = CompressedCoverage_t >]’: /<>/src/KmerHashTable.hpp:743:24: required from ‘KmerHashTable::const_iterator KmerHashTable::begin() const [with T = CompressedCoverage_t >; const_iterator = KmerHashTable > >::iterator_]’ 743 | it.get_to_first(); | ~~~~~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:7143:86: required from ‘void CompactedDBG::createJoinHT(std::vector*, KmerHashTable&, size_t) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 7143 | for (typename h_kmers_ccov_t::const_iterator it_ccov = h_kmers_ccov.begin(); it_ccov != h_kmers_ccov.end(); ++it_ccov) { | ~~~~~~~~~~~~~~~~~~^~ /<>/src/CompactedDBG.tcc:7465:17: required from ‘typename std::enable_if<(! is_void), unsigned int>::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; typename std::enable_if<(! is_void), unsigned int>::type = unsigned int; size_t = unsigned int]’ 7465 | createJoinHT(v_joins, joins, nb_threads); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:109:21: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 109 | h = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:110:23: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 110 | psl = 0xffffffffffffffffULL; | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_() [with bool is_const = false; T = char]’: /usr/i686-linux-gnu/include/c++/15/bits/stl_pair.h:746:9: required from ‘constexpr std::pair<_T1, _T2>::pair() [with _U1 = KmerHashTable::iterator_; _U2 = bool; typename std::enable_if, std::__is_implicitly_default_constructible<_U2> >::value, bool>::type = true; _T1 = KmerHashTable::iterator_; _T2 = bool]’ 746 | : first(), second() { } | ^~~~~~~ /<>/src/KmerHashTable.hpp:573:45: required from ‘std::pair::iterator_, bool> KmerHashTable::insert(Kmer&&, T&&) [with T = char]’ 573 | pair it_ret; | ^~~~~~ /<>/src/CompactedDBG.tcc:7152:95: required from ‘void CompactedDBG::createJoinHT(std::vector*, KmerHashTable&, size_t) const [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; size_t = unsigned int]’ 7152 | if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:7465:17: required from ‘typename std::enable_if<(! is_void), unsigned int>::type CompactedDBG::joinUnitigs_(std::vector*, size_t) [with bool is_void = false; Unitig_data_t = DataAccessor; Graph_data_t = DataStorage; typename std::enable_if<(! is_void), unsigned int>::type = unsigned int; size_t = unsigned int]’ 7465 | createJoinHT(v_joins, joins, nb_threads); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:708:70: required from ‘bool CompactedDBG::simplify(bool, bool, bool) [with Unitig_data_t = DataAccessor; Graph_data_t = DataStorage]’ 708 | if (clip_short_tips) joined = joinUnitigs_::value>(&v_joins); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /<>/src/Bifrost.cpp:630:58: required from here 630 | if (success) success = ccdbg.simplify(opt.deleteIsolated, opt.clipTips, opt.verbose); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:35:70: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 35 | iterator_() : ht(nullptr), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t) [with bool is_const = false; T = unsigned char; KHT_ptr_t = KmerHashTable*]’: /<>/src/KmerHashTable.hpp:750:16: required from ‘KmerHashTable::iterator KmerHashTable::end() [with T = unsigned char; iterator = KmerHashTable::iterator_]’ 750 | return iterator(this); | ^~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:403:39: required from ‘size_t KmerHashTable::erase(const_iterator) [with T = unsigned char; size_t = unsigned int; const_iterator = KmerHashTable::iterator_]’ 403 | if ((size_ == 0) || (it == end())) return 0; | ~~~^~ /<>/src/CompactedDBG.tcc:3084:72: required from ‘bool CompactedDBG::construct(const CDBG_Build_opt&, DualBlockedBloomFilter&, Roaring&, size_t, size_t, size_t, size_t) [with Unitig_data_t = void; Graph_data_t = void; size_t = unsigned int]’ 3084 | if (has_full_cov) kmt_fp_cand.erase(p_insert_kmt_fp_cand.first); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/CompactedDBG.tcc:679:62: required from ‘bool CompactedDBG::build(CDBG_Build_opt&) [with Unitig_data_t = void; Graph_data_t = void]’ 679 | if (construct_finished) construct_finished = construct(opt, dbbf, r, nb_unique_minimizers, nb_non_unique_minimizers, nb_unique_kmers, nb_non_unique_kmers); // Construction step | ^~~~~~~~~ /<>/src/Bifrost.cpp:638:41: required from here 638 | success = cdbg.build(opt); | ~~~~~~~~~~^~~~~ /<>/src/KmerHashTable.hpp:36:51: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:36:79: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 36 | iterator_(KHT_ptr_t ht_) : ht(ht_), h(0xffffffffffffffffULL), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp: In instantiation of ‘KmerHashTable::iterator_::iterator_(KHT_ptr_t, size_t) [with bool is_const = true; T = CompressedCoverage_t; KHT_ptr_t = const KmerHashTable >*; size_t = unsigned int]’: /<>/src/KmerHashTable.hpp:396:61: required from ‘KmerHashTable::const_iterator KmerHashTable::find(size_t) const [with T = CompressedCoverage_t; const_iterator = KmerHashTable >::iterator_; size_t = unsigned int]’ 396 | if ((h < size_) && !table_keys[h].isEmpty()) return const_iterator(this, h); | ^~~~~~~~~~~~~~~~~~~~~~~ /<>/src/UnitigMap.tcc:96:55: required from ‘Kmer UnitigMap::getUnitigHead() const [with Unitig_data_t = void; Graph_data_t = void; bool is_const = true]’ 96 | if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig).getKey(); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/src/IO.tcc:475:86: required from ‘bool CompactedDBG::writeGFA(const std::string&, size_t, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 475 | if (unitig.isAbundant) labelB = *(idmap.find(unitig.getUnitigHead().rep())); | ~~~~~~~~~~~~~~~~~~~~^~ /<>/src/IO.tcc:82:41: required from ‘bool CompactedDBG::write(const std::string&, size_t, bool, bool, bool, bool, bool, bool) const [with Unitig_data_t = void; Graph_data_t = void; std::string = std::__cxx11::basic_string; size_t = unsigned int]’ 82 | if (GFA_output) write_success = writeGFA(fn, nb_threads, compressed_output); | ^~~~~~~~ /<>/src/Bifrost.cpp:641:54: required from here 641 | if (success) success = cdbg.write(opt.prefixFilenameOut, opt.nb_threads, opt.outputGFA, opt.outputFASTA, opt.outputBFG, opt.writeIndexFile, opt.compressOutput, opt.verbose); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/src/KmerHashTable.hpp:37:72: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 37 | iterator_(KHT_ptr_t ht_, size_t h_) : ht(ht_), h(h_), psl(0xffffffffffffffffULL) {} | ^~~~~~~~~~~~~~~~~~~~~ make[3]: *** [src/CMakeFiles/bifrost_static.dir/build.make:82: src/CMakeFiles/bifrost_static.dir/Bifrost.cpp.o] Error 1 make[3]: Leaving directory '/<>/obj-i686-linux-gnu' make[2]: *** [CMakeFiles/Makefile2:115: src/CMakeFiles/bifrost_static.dir/all] Error 2 make[2]: Leaving directory '/<>/obj-i686-linux-gnu' make[1]: *** [Makefile:139: all] Error 2 make[1]: Leaving directory '/<>/obj-i686-linux-gnu' dh_auto_build: error: cd obj-i686-linux-gnu && make -j1 INSTALL="install --strip-program=true" VERBOSE=1 returned exit code 2 make: *** [debian/rules:8: binary-arch] Error 25 dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2025-09-28T07:02:16Z +------------------------------------------------------------------------------+ | Finished Timed Build Commands | +------------------------------------------------------------------------------+ rm -Rf /<>/ ------------------------------------------- I: Finished running 'rm -Rf /<>/'. Finished processing commands. -------------------------------------------------------------------------------- Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Build-Space: n/a Build-Time: 25 Distribution: unstable Fail-Stage: build Foreign Architectures: i386 Host Architecture: i386 Install-Time: 63 Job: bifrost_1.3.1-2 Machine Architecture: arm64 Package: bifrost Package-Time: 133 Source-Version: 1.3.1-2 Space: n/a Status: attempted Version: 1.3.1-2 -------------------------------------------------------------------------------- Finished at 2025-09-28T07:02:16Z Build needed 00:02:13, no disk space