sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on gcc131.bak.milne.osuosl.org +==============================================================================+ | anfo 0.98-7 (armel) Fri, 15 Feb 2019 17:40:14 +0000 | +==============================================================================+ Package: anfo Version: 0.98-7 Source Version: 0.98-7 Distribution: unstable Machine Architecture: amd64 Host Architecture: armel Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-d786cfb7-d9c1-41fb-aa01-6876b3f78c9a' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [243 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2019-02-15-0839.54.pdiff [4513 B] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2019-02-15-1412.52.pdiff [15.8 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2019-02-15-1412.52.pdiff [15.8 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-02-15-0839.54.pdiff [12.3 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-02-15-1412.52.pdiff [12.1 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main armel Packages [8059 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-02-15-1412.52.pdiff [12.1 kB] Fetched 8403 kB in 2s (4772 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libacl1 libattr1 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 49.3 kB of archives. After this operation, 17.4 kB of additional disk space will be used. Get:1 http://debian.oregonstate.edu/debian unstable/main amd64 libattr1 amd64 1:2.4.47-3 [19.4 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libacl1 amd64 2.2.52-4 [29.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 49.3 kB in 0s (0 B/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 ... 11871 files and directories currently installed.) Preparing to unpack .../libattr1_1%3a2.4.47-3_amd64.deb ... Unpacking libattr1:amd64 (1:2.4.47-3) over (1:2.4.47-2+b2) ... Setting up libattr1:amd64 (1:2.4.47-3) ... (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 ... 11870 files and directories currently installed.) Preparing to unpack .../libacl1_2.2.52-4_amd64.deb ... Unpacking libacl1:amd64 (2.2.52-4) over (2.2.52-3+b1) ... Setting up libacl1:amd64 (2.2.52-4) ... Processing triggers for libc-bin (2.28-7) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'anfo' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/anfo.git Please use: git clone https://salsa.debian.org/med-team/anfo.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 472 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main anfo 0.98-7 (dsc) [2139 B] Get:2 http://debian.oregonstate.edu/debian unstable/main anfo 0.98-7 (tar) [462 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main anfo 0.98-7 (diff) [7556 B] Fetched 472 kB in 0s (3691 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/anfo-HoN3u9/anfo-0.98' with '<>' I: NOTICE: Log filtering will replace 'build/anfo-HoN3u9' with '<>' +------------------------------------------------------------------------------+ | Install crossbuild-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential:amd64, fakeroot:amd64, crossbuild-essential-armel:amd64 Filtered Build-Depends: build-essential:amd64, fakeroot:amd64, crossbuild-essential-armel:amd64 dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-mCKTeF/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-mCKTeF/apt_archive ./ InRelease Get:2 copy:/<>/resolver-mCKTeF/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-mCKTeF/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-mCKTeF/apt_archive ./ Sources [359 B] Get:5 copy:/<>/resolver-mCKTeF/apt_archive ./ Packages [450 B] Fetched 1766 B in 0s (103 kB/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: binutils-arm-linux-gnueabi cpp-8-arm-linux-gnueabi cpp-arm-linux-gnueabi cross-config crossbuild-essential-armel dpkg-cross file g++-8-arm-linux-gnueabi g++-arm-linux-gnueabi gcc-8-arm-linux-gnueabi gcc-8-arm-linux-gnueabi-base gcc-8-cross-base gcc-arm-linux-gnueabi libasan5-armel-cross libatomic1-armel-cross libc6-armel-cross libc6-dev-armel-cross libconfig-auto-perl libconfig-inifiles-perl libdebian-dpkgcross-perl libfile-homedir-perl libfile-which-perl libgcc-8-dev-armel-cross libgcc1-armel-cross libgomp1-armel-cross libicu63 libio-string-perl liblocale-gettext-perl libmagic-mgc libmagic1 libstdc++-8-dev-armel-cross libstdc++6-armel-cross libubsan1-armel-cross libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev-armel-cross sensible-utils ucf Suggested packages: binutils-doc gcc-8-locales cpp-doc binutils-multiarch gcc-8-doc libstdc++6-8-dbg-armel-cross libgcc1-dbg-armel-cross libgomp1-dbg-armel-cross libitm1-dbg-armel-cross libatomic1-dbg-armel-cross libasan5-dbg-armel-cross liblsan0-dbg-armel-cross libtsan0-dbg-armel-cross libubsan1-dbg-armel-cross libmpx2-dbg-armel-cross libquadmath0-dbg-armel-cross manpages-dev autoconf automake libtool flex bison gdb-arm-linux-gnueabi gcc-doc libyaml-shell-perl Recommended packages: libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl The following NEW packages will be installed: binutils-arm-linux-gnueabi cpp-8-arm-linux-gnueabi cpp-arm-linux-gnueabi cross-config crossbuild-essential-armel dpkg-cross file g++-8-arm-linux-gnueabi g++-arm-linux-gnueabi gcc-8-arm-linux-gnueabi gcc-8-arm-linux-gnueabi-base gcc-8-cross-base gcc-arm-linux-gnueabi libasan5-armel-cross libatomic1-armel-cross libc6-armel-cross libc6-dev-armel-cross libconfig-auto-perl libconfig-inifiles-perl libdebian-dpkgcross-perl libfile-homedir-perl libfile-which-perl libgcc-8-dev-armel-cross libgcc1-armel-cross libgomp1-armel-cross libicu63 libio-string-perl liblocale-gettext-perl libmagic-mgc libmagic1 libstdc++-8-dev-armel-cross libstdc++6-armel-cross libubsan1-armel-cross libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev-armel-cross sbuild-build-depends-core-dummy:armel sensible-utils ucf 0 upgraded, 44 newly installed, 0 to remove and 0 not upgraded. Need to get 41.8 MB of archives. After this operation, 154 MB of additional disk space will be used. Get:1 copy:/<>/resolver-mCKTeF/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [872 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-3+b4 [18.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.35-2 [242 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.35-2 [117 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.35-2 [66.1 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabi amd64 2.31.1-12 [2830 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-arm-linux-gnueabi-base amd64 8.2.0-20cross1 [190 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-8-arm-linux-gnueabi amd64 8.2.0-20cross1 [6557 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabi amd64 4:8.2.0-2 [16.4 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-2 [39.7 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-cross-base all 8.2.0-20cross1 [185 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armel-cross all 2.28-4cross1 [1188 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc1-armel-cross all 1:8.2.0-20cross1 [38.4 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armel-cross all 8.2.0-20cross1 [65.5 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armel-cross all 8.2.0-20cross1 [8812 B] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armel-cross all 8.2.0-20cross1 [287 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-armel-cross all 8.2.0-20cross1 [313 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armel-cross all 8.2.0-20cross1 [103 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-8-dev-armel-cross all 8.2.0-20cross1 [605 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-arm-linux-gnueabi amd64 8.2.0-20cross1 [6976 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabi amd64 4:8.2.0-2 [1464 B] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armel-cross all 4.19.13-1cross1 [1196 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armel-cross all 2.28-4cross1 [2181 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-8-dev-armel-cross all 8.2.0-20cross1 [1539 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 g++-8-arm-linux-gnueabi amd64 8.2.0-20cross1 [7132 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabi amd64 4:8.2.0-2 [1176 B] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000001-1 [51.9 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.1-6 [8292 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-7+b3 [687 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.00+dfsg-1 [58.6 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-1 [344 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.27-1 [66.8 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-2 [38.5 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-2 [49.3 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armel all 12.5 [6544 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 41.8 MB in 1s (74.7 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 11869 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-3+b4_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-3+b4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.35-2_amd64.deb ... Unpacking libmagic-mgc (1:5.35-2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../03-libmagic1_1%3a5.35-2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-2) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.35-2_amd64.deb ... Unpacking file (1:5.35-2) ... Selecting previously unselected package ucf. Preparing to unpack .../05-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package binutils-arm-linux-gnueabi. Preparing to unpack .../06-binutils-arm-linux-gnueabi_2.31.1-12_amd64.deb ... Unpacking binutils-arm-linux-gnueabi (2.31.1-12) ... Selecting previously unselected package gcc-8-arm-linux-gnueabi-base:amd64. Preparing to unpack .../07-gcc-8-arm-linux-gnueabi-base_8.2.0-20cross1_amd64.deb ... Unpacking gcc-8-arm-linux-gnueabi-base:amd64 (8.2.0-20cross1) ... Selecting previously unselected package cpp-8-arm-linux-gnueabi. Preparing to unpack .../08-cpp-8-arm-linux-gnueabi_8.2.0-20cross1_amd64.deb ... Unpacking cpp-8-arm-linux-gnueabi (8.2.0-20cross1) ... Selecting previously unselected package cpp-arm-linux-gnueabi. Preparing to unpack .../09-cpp-arm-linux-gnueabi_4%3a8.2.0-2_amd64.deb ... Unpacking cpp-arm-linux-gnueabi (4:8.2.0-2) ... Selecting previously unselected package cross-config. Preparing to unpack .../10-cross-config_2.6.15-2_all.deb ... Unpacking cross-config (2.6.15-2) ... 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Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../32-libxml-sax-base-perl_1.09-1_all.deb ... Unpacking libxml-sax-base-perl (1.09-1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../33-libxml-sax-perl_1.00+dfsg-1_all.deb ... Unpacking libxml-sax-perl (1.00+dfsg-1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../34-libxml-libxml-perl_2.0134+dfsg-1_amd64.deb ... Unpacking libxml-libxml-perl (2.0134+dfsg-1) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../35-libxml-simple-perl_2.25-1_all.deb ... Unpacking libxml-simple-perl (2.25-1) ... Selecting previously unselected package libyaml-perl. Preparing to unpack .../36-libyaml-perl_1.27-1_all.deb ... Unpacking libyaml-perl (1.27-1) ... Selecting previously unselected package libconfig-auto-perl. Preparing to unpack .../37-libconfig-auto-perl_0.44-1_all.deb ... Unpacking libconfig-auto-perl (0.44-1) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../38-libfile-which-perl_1.23-1_all.deb ... Unpacking libfile-which-perl (1.23-1) ... Selecting previously unselected package libfile-homedir-perl. Preparing to unpack .../39-libfile-homedir-perl_1.004-1_all.deb ... Unpacking libfile-homedir-perl (1.004-1) ... Selecting previously unselected package libdebian-dpkgcross-perl. Preparing to unpack .../40-libdebian-dpkgcross-perl_2.6.15-2_all.deb ... Unpacking libdebian-dpkgcross-perl (2.6.15-2) ... Selecting previously unselected package dpkg-cross. Preparing to unpack .../41-dpkg-cross_2.6.15-2_all.deb ... Unpacking dpkg-cross (2.6.15-2) ... Selecting previously unselected package crossbuild-essential-armel. Preparing to unpack .../42-crossbuild-essential-armel_12.5_all.deb ... Unpacking crossbuild-essential-armel (12.5) ... Selecting previously unselected package sbuild-build-depends-core-dummy:armel. Preparing to unpack .../43-sbuild-build-depends-core-dummy_0.invalid.0_armel.deb ... Unpacking sbuild-build-depends-core-dummy:armel (0.invalid.0) ... Setting up gcc-8-cross-base (8.2.0-20cross1) ... Setting up libconfig-inifiles-perl (3.000001-1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up libicu63:amd64 (63.1-6) ... Setting up libfile-which-perl (1.23-1) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up linux-libc-dev-armel-cross (4.19.13-1cross1) ... Setting up libyaml-perl (1.27-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+b3) ... Setting up libmagic-mgc (1:5.35-2) ... Setting up libmagic1:amd64 (1:5.35-2) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up sensible-utils (0.0.12) ... Setting up cross-config (2.6.15-2) ... Setting up libc6-armel-cross (2.28-4cross1) ... Setting up libio-string-perl (1.08-3) ... Setting up liblocale-gettext-perl (1.07-3+b4) ... Setting up gcc-8-arm-linux-gnueabi-base:amd64 (8.2.0-20cross1) ... Setting up binutils-arm-linux-gnueabi (2.31.1-12) ... Setting up libatomic1-armel-cross (8.2.0-20cross1) ... Setting up libgomp1-armel-cross (8.2.0-20cross1) ... Setting up libgcc1-armel-cross (1:8.2.0-20cross1) ... Setting up libc6-dev-armel-cross (2.28-4cross1) ... Setting up file (1:5.35-2) ... Setting up ucf (3.0038+nmu1) ... Setting up libstdc++6-armel-cross (8.2.0-20cross1) ... Setting up cpp-8-arm-linux-gnueabi (8.2.0-20cross1) ... Setting up libasan5-armel-cross (8.2.0-20cross1) ... Setting up libxml-sax-perl (1.00+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up cpp-arm-linux-gnueabi (4:8.2.0-2) ... Setting up libubsan1-armel-cross (8.2.0-20cross1) ... Setting up libgcc-8-dev-armel-cross (8.2.0-20cross1) ... Setting up gcc-8-arm-linux-gnueabi (8.2.0-20cross1) ... Setting up gcc-arm-linux-gnueabi (4:8.2.0-2) ... Setting up libxml-libxml-perl (2.0134+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libstdc++-8-dev-armel-cross (8.2.0-20cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-8-arm-linux-gnueabi (8.2.0-20cross1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-2) ... Setting up g++-arm-linux-gnueabi (4:8.2.0-2) ... Setting up dpkg-cross (2.6.15-2) ... Setting up crossbuild-essential-armel (12.5) ... Setting up sbuild-build-depends-core-dummy:armel (0.invalid.0) ... Processing triggers for libc-bin (2.28-7) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armel included in any) Setup apt archive ----------------- dpkg-deb: building package 'sbuild-build-depends-essential-dummy' in '/<>/resolver-mCKTeF/apt_archive/sbuild-build-depends-essential-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-mCKTeF/apt_archive ./ InRelease Get:2 copy:/<>/resolver-mCKTeF/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-mCKTeF/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-mCKTeF/apt_archive ./ Sources [481 B] Get:5 copy:/<>/resolver-mCKTeF/apt_archive ./ Packages [569 B] Fetched 2013 B in 0s (0 B/s) Reading package lists... Reading package lists... Install essential build dependencies (apt-based resolver) --------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-essential-dummy:armel 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 840 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-mCKTeF/apt_archive ./ sbuild-build-depends-essential-dummy 0.invalid.0 [840 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 840 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-essential-dummy:armel. (Reading database ... 14914 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-essential-dummy_0.invalid.0_armel.deb ... Unpacking sbuild-build-depends-essential-dummy:armel (0.invalid.0) ... Setting up sbuild-build-depends-essential-dummy:armel (0.invalid.0) ... +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: libc-dev, libstdc++-dev, debhelper (>= 11~), libpopt-dev, libprotobuf-dev, libelk0-dev, libelk0, zlib1g-dev, libbz2-dev, pkg-config, protobuf-compiler, d-shlibs (>= 0.77) Filtered Build-Depends: libc-dev, libstdc++-dev, debhelper (>= 11~), libpopt-dev, libprotobuf-dev, libelk0-dev, libelk0, zlib1g-dev, libbz2-dev, pkg-config, protobuf-compiler, d-shlibs (>= 0.77) dpkg-deb: building package 'sbuild-build-depends-anfo-dummy' in '/<>/resolver-mCKTeF/apt_archive/sbuild-build-depends-anfo-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-anfo-dummy sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy dpkg-scanpackages: info: Wrote 3 entries to output Packages file. Ign:1 copy:/<>/resolver-mCKTeF/apt_archive ./ InRelease Get:2 copy:/<>/resolver-mCKTeF/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-mCKTeF/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-mCKTeF/apt_archive ./ Sources [689 B] Get:5 copy:/<>/resolver-mCKTeF/apt_archive ./ Packages [773 B] Fetched 2425 B in 0s (157 kB/s) Reading package lists... Reading package lists... Install anfo build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz gcc-8-base:armel gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan5:armel libatomic1:armel libbsd0 libbsd0:armel libbz2-1.0:armel libbz2-dev:armel libc6:armel libc6-dev:armel libcroco3 libelf-dev:armel libelf1 libelf1:armel libelk0:armel libelk0-dev:armel libfile-stripnondeterminism-perl libgcc-8-dev:armel libgcc1:armel libglib2.0-0 libgomp1:armel libice-dev:armel libice6:armel libncurses6 libpipeline1 libpopt-dev:armel libpopt0:armel libprotobuf-dev:armel libprotobuf-lite17:armel libprotobuf17 libprotobuf17:armel libprotoc17 libpthread-stubs0-dev libpthread-stubs0-dev:armel libsigsegv2 libsm-dev:armel libsm6:armel libstdc++-8-dev:armel libstdc++6:armel libtool libubsan1:armel libuchardet0 libuuid1:armel libx11-6 libx11-6:armel libx11-data libx11-dev libx11-dev:armel libxau-dev libxau-dev:armel libxau6 libxau6:armel libxcb1 libxcb1:armel libxcb1-dev libxcb1-dev:armel libxdmcp-dev libxdmcp-dev:armel libxdmcp6 libxdmcp6:armel libxext-dev:armel libxext6:armel libxmu-dev:armel libxmu-headers libxmu6:armel libxt-dev:armel libxt6:armel linux-libc-dev:armel lsb-base m4 man-db pkg-config po-debconf protobuf-compiler x11-common x11proto-core-dev x11proto-dev x11proto-xext-dev xorg-sgml-doctools xtrans-dev zlib1g:armel zlib1g-dev:armel Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:armel libc-l10n:armel locales:armel manpages-dev:armel libice-doc:armel libsm-doc:armel libstdc++-8-doc:armel libtool-doc gfortran | fortran95-compiler gcj-jdk libx11-doc libx11-doc:armel libxcb-doc libxcb-doc:armel libxext-doc:armel libxt-doc:armel m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx bzip2-doc:armel libidn2-0:armel libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgpm2 libltdl-dev uuid-runtime:armel libmail-sendmail-perl libprotobuf-dev The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz gcc-8-base:armel gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan5:armel libatomic1:armel libbsd0 libbsd0:armel libbz2-1.0:armel libbz2-dev:armel libc6:armel libc6-dev:armel libcroco3 libelf-dev:armel libelf1 libelf1:armel libelk0:armel libelk0-dev:armel libfile-stripnondeterminism-perl libgcc-8-dev:armel libgcc1:armel libglib2.0-0 libgomp1:armel libice-dev:armel libice6:armel libncurses6 libpipeline1 libpopt-dev:armel libpopt0:armel libprotobuf-dev:armel libprotobuf-lite17:armel libprotobuf17 libprotobuf17:armel libprotoc17 libpthread-stubs0-dev libpthread-stubs0-dev:armel libsigsegv2 libsm-dev:armel libsm6:armel libstdc++-8-dev:armel libstdc++6:armel libtool libubsan1:armel libuchardet0 libuuid1:armel libx11-6 libx11-6:armel libx11-data libx11-dev libx11-dev:armel libxau-dev libxau-dev:armel libxau6 libxau6:armel libxcb1 libxcb1:armel libxcb1-dev libxcb1-dev:armel libxdmcp-dev libxdmcp-dev:armel libxdmcp6 libxdmcp6:armel libxext-dev:armel libxext6:armel libxmu-dev:armel libxmu-headers libxmu6:armel libxt-dev:armel libxt6:armel linux-libc-dev:armel lsb-base m4 man-db pkg-config po-debconf protobuf-compiler sbuild-build-depends-anfo-dummy:armel x11-common x11proto-core-dev x11proto-dev x11proto-xext-dev xorg-sgml-doctools xtrans-dev zlib1g:armel zlib1g-dev:armel 0 upgraded, 97 newly installed, 0 to remove and 0 not upgraded. Need to get 29.1 MB of archives. After this operation, 122 MB of additional disk space will be used. Get:1 copy:/<>/resolver-mCKTeF/apt_archive ./ sbuild-build-depends-anfo-dummy 0.invalid.0 [932 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libbsd0 amd64 0.9.1-1 [99.3 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-2 [917 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-2 [203 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11 [341 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.1-4 [771 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 d-shlibs all 0.84 [17.2 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-9 [547 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.1.1-1 [19.7 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.1.1-1 [13.0 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.175-2 [160 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.12-3 [78.0 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.58.3-1 [1258 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.1+20181013-2 [102 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 12.1 [1015 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main armel gcc-8-base armel 8.2.0-20 [189 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main armel libgcc1 armel 1:8.2.0-20 [38.4 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main armel libc6 armel 2.28-7 [2398 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main armel libstdc++6 armel 8.2.0-20 [324 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main armel libasan5 armel 8.2.0-20 [319 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main armel libatomic1 armel 8.2.0-20 [8952 B] Get:36 http://debian.oregonstate.edu/debian unstable/main armel libbsd0 armel 0.9.1-1 [104 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main armel libbz2-1.0 armel 1.0.6-9 [44.5 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main armel linux-libc-dev armel 4.19.20-1 [1124 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main armel libc6-dev armel 2.28-7 [2185 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main armel libbz2-dev armel 1.0.6-9 [28.1 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main armel zlib1g armel 1:1.2.11.dfsg-1 [86.5 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main armel libelf1 armel 0.175-2 [158 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main armel zlib1g-dev armel 1:1.2.11.dfsg-1 [206 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main armel libelf-dev armel 0.175-2 [70.4 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 lsb-base all 10.2018112800 [28.3 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 x11-common all 1:7.7+19 [251 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main armel libice6 armel 2:1.0.9-2 [51.4 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main armel libuuid1 armel 2.33.1-0.1 [77.6 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main armel libsm6 armel 2:1.2.3-1 [33.1 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main armel libxau6 armel 1:1.0.8-1+b2 [19.1 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main armel libxdmcp6 armel 1:1.1.2-3 [25.0 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main armel libxcb1 armel 1.13.1-2 [133 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libx11-data all 2:1.6.7-1 [298 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main armel libx11-6 armel 2:1.6.7-1 [688 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main armel libxext6 armel 2:1.3.3-1+b2 [47.7 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main armel libxt6 armel 1:1.1.5-1 [155 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main armel libxmu6 armel 2:1.1.2-2 [52.9 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main armel libelk0 armel 3.99.8-4.2+b1 [156 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 xorg-sgml-doctools all 1:1.11-1 [21.9 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 x11proto-dev all 2018.4-4 [251 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 x11proto-core-dev all 2018.4-4 [3128 B] Get:62 http://debian.oregonstate.edu/debian unstable/main armel libxau-dev armel 1:1.0.8-1+b2 [22.7 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main armel libxdmcp-dev armel 1:1.1.2-3 [41.2 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 xtrans-dev all 1.3.5-1 [100 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main armel libpthread-stubs0-dev armel 0.4-1 [5336 B] Get:66 http://debian.oregonstate.edu/debian unstable/main armel libxcb1-dev armel 1.13.1-2 [173 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main armel libx11-dev armel 2:1.6.7-1 [767 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 x11proto-xext-dev all 2018.4-4 [3128 B] Get:69 http://debian.oregonstate.edu/debian unstable/main armel libxext-dev armel 2:1.3.3-1+b2 [104 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main armel libice-dev armel 2:1.0.9-2 [62.4 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main armel libsm-dev armel 2:1.2.3-1 [36.3 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main armel libxt-dev armel 1:1.1.5-1 [393 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libxcb1 amd64 1.13.1-2 [137 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libx11-6 amd64 2:1.6.7-1 [754 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libxau-dev amd64 1:1.0.8-1+b2 [23.1 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libxdmcp-dev amd64 1:1.1.2-3 [42.2 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libpthread-stubs0-dev amd64 0.4-1 [5344 B] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libxcb1-dev amd64 1.13.1-2 [174 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libx11-dev amd64 2:1.6.7-1 [827 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libxmu-headers all 2:1.1.2-2 [51.9 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main armel libxmu-dev armel 2:1.1.2-2 [56.6 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main armel libelk0-dev armel 3.99.8-4.2+b1 [192 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main armel libgomp1 armel 8.2.0-20 [67.1 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main armel libubsan1 armel 8.2.0-20 [104 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main armel libgcc-8-dev armel 8.2.0-20 [604 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main armel libpopt0 armel 1.16-12 [47.1 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main armel libpopt-dev armel 1.16-12 [48.2 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main armel libprotobuf17 armel 3.6.1.3-1 [666 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main armel libprotobuf-lite17 armel 3.6.1.3-1 [147 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main armel libprotobuf-dev armel 3.6.1.3-1 [1050 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 libprotobuf17 amd64 3.6.1.3-1 [814 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 libprotoc17 amd64 3.6.1.3-1 [668 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main armel libstdc++-8-dev armel 8.2.0-20 [1569 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main amd64 pkg-config amd64 0.29-6 [63.5 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main amd64 protobuf-compiler amd64 3.6.1.3-1 [64.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 29.1 MB in 1s (53.6 MB/s) Selecting previously unselected package libbsd0:amd64. 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Setting up libprotobuf17:amd64 (3.6.1.3-1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libpthread-stubs0-dev:amd64 (0.4-1) ... Setting up libpthread-stubs0-dev:armel (0.4-1) ... Setting up libelf1:amd64 (0.175-2) ... Setting up libglib2.0-0:amd64 (2.58.3-1) ... No schema files found: doing nothing. Setting up xorg-sgml-doctools (1:1.11-1) ... Setting up linux-libc-dev:armel (4.19.20-1) ... Setting up libprotoc17:amd64 (3.6.1.3-1) ... Setting up d-shlibs (0.84) ... Setting up gettext-base (0.19.8.1-9) ... Setting up libpipeline1:amd64 (1.5.1-2) ... Setting up m4 (1.4.18-2) ... Setting up libbsd0:amd64 (0.9.1-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up x11proto-dev (2018.4-4) ... Setting up lsb-base (10.2018112800) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up pkg-config (0.29-6) ... Setting up xtrans-dev (1.3.5-1) ... Setting up x11proto-xext-dev (2018.4-4) ... Setting up dwz (0.12-3) ... Setting up autotools-dev (20180224.1) ... Setting up gcc-8-base:armel (8.2.0-20) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up x11-common (1:7.7+19) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults invoke-rc.d: could not determine current runlevel All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of start. Setting up libncurses6:amd64 (6.1+20181013-2) ... Setting up libx11-data (2:1.6.7-1) ... Setting up libxau6:amd64 (1:1.0.8-1+b2) ... Setting up autopoint (0.19.8.1-9) ... Setting up libfile-stripnondeterminism-perl (1.1.1-1) ... Setting up libtool (2.4.6-9) ... Setting up x11proto-core-dev (2018.4-4) ... Setting up protobuf-compiler (3.6.1.3-1) ... Setting up gettext (0.19.8.1-9) ... Setting up groff-base (1.22.4-2) ... Setting up libxau-dev:amd64 (1:1.0.8-1+b2) ... Setting up autoconf (2.69-11) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxdmcp-dev:amd64 (1:1.1.2-3) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxcb1:amd64 (1.13.1-2) ... Setting up po-debconf (1.0.21) ... Setting up libx11-6:amd64 (2:1.6.7-1) ... Setting up libxcb1-dev:amd64 (1.13.1-2) ... Setting up libx11-dev:amd64 (2:1.6.7-1) ... Setting up libxmu-headers (2:1.1.2-2) ... Setting up libc6:armel (2.28-7) ... Setting up libbsd0:armel (0.9.1-1) ... Setting up libbz2-1.0:armel (1.0.6-9) ... Setting up libice6:armel (2:1.0.9-2) ... Setting up libxdmcp6:armel (1:1.1.2-3) ... Setting up libc6-dev:armel (2.28-7) ... Setting up libxau6:armel (1:1.0.8-1+b2) ... Setting up libgcc1:armel (1:8.2.0-20) ... Setting up libgomp1:armel (8.2.0-20) ... Setting up libatomic1:armel (8.2.0-20) ... Setting up libpopt0:armel (1.16-12) ... Setting up libbz2-dev:armel (1.0.6-9) ... Setting up libpopt-dev:armel (1.16-12) ... Setting up dh-autoreconf (19) ... Setting up libuuid1:armel (2.33.1-0.1) ... Setting up zlib1g:armel (1:1.2.11.dfsg-1) ... Setting up libelf1:armel (0.175-2) ... Setting up libxau-dev:armel (1:1.0.8-1+b2) ... Setting up dh-strip-nondeterminism (1.1.1-1) ... Setting up libxdmcp-dev:armel (1:1.1.2-3) ... Setting up libice-dev:armel (2:1.0.9-2) ... Setting up libstdc++6:armel (8.2.0-20) ... Setting up libasan5:armel (8.2.0-20) ... Setting up libxcb1:armel (1.13.1-2) ... Setting up libprotobuf-lite17:armel (3.6.1.3-1) ... Setting up zlib1g-dev:armel (1:1.2.11.dfsg-1) ... Setting up libubsan1:armel (8.2.0-20) ... Setting up debhelper (12.1) ... Setting up libprotobuf17:armel (3.6.1.3-1) ... Setting up libsm6:armel (2:1.2.3-1) ... Setting up libsm-dev:armel (2:1.2.3-1) ... Setting up libprotobuf-dev:armel (3.6.1.3-1) ... Setting up libx11-6:armel (2:1.6.7-1) ... Setting up libelf-dev:armel (0.175-2) ... Setting up libxt6:armel (1:1.1.5-1) ... Setting up libxcb1-dev:armel (1.13.1-2) ... Setting up libgcc-8-dev:armel (8.2.0-20) ... Setting up libx11-dev:armel (2:1.6.7-1) ... Setting up libstdc++-8-dev:armel (8.2.0-20) ... Setting up libxt-dev:armel (1:1.1.5-1) ... Setting up libxext6:armel (2:1.3.3-1+b2) ... Setting up libxmu6:armel (2:1.1.2-2) ... Setting up libelk0:armel (3.99.8-4.2+b1) ... Setting up libxext-dev:armel (2:1.3.3-1+b2) ... Setting up libxmu-dev:armel (2:1.1.2-2) ... Setting up libelk0-dev:armel (3.99.8-4.2+b1) ... Setting up sbuild-build-depends-anfo-dummy:armel (0.invalid.0) ... Processing triggers for libc-bin (2.28-7) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-8-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.31.1-12 dpkg-dev_1.19.4 g++-8_8.2.0-20 gcc-8_8.2.0-20 libc6-dev_2.28-7 libstdc++-8-dev_8.2.0-20 libstdc++-8-dev-armel-cross_8.2.0-20cross1 libstdc++6_8.2.0-20 libstdc++6-armel-cross_8.2.0-20cross1 linux-libc-dev_4.19.20-1 Package versions: adduser_3.118 apt_1.8.0~rc3 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1 base-passwd_3.5.46 bash_5.0-2 binutils_2.31.1-12 binutils-arm-linux-gnueabi_2.31.1-12 binutils-common_2.31.1-12 binutils-x86-64-linux-gnu_2.31.1-12 bsdmainutils_11.1.2+b1 bsdutils_1:2.33.1-0.1 build-essential_12.5 bzip2_1.0.6-9 coreutils_8.30-1 cpp_4:8.2.0-2 cpp-8_8.2.0-20 cpp-8-arm-linux-gnueabi_8.2.0-20cross1 cpp-arm-linux-gnueabi_4:8.2.0-2 cross-config_2.6.15-2 crossbuild-essential-armel_12.5 d-shlibs_0.84 dash_0.5.10.2-5 debconf_1.5.70 debhelper_12.1 debian-archive-keyring_2018.1 debianutils_4.8.6.1 dh-autoreconf_19 dh-strip-nondeterminism_1.1.1-1 diffutils_1:3.6-1 dpkg_1.19.4 dpkg-cross_2.6.15-2 dpkg-dev_1.19.4 dwz_0.12-3 e2fsprogs_1.44.5-1 fakeroot_1.23-1 fdisk_2.33.1-0.1 file_1:5.35-2 findutils_4.6.0+git+20190105-2 g++_4:8.2.0-2 g++-8_8.2.0-20 g++-8-arm-linux-gnueabi_8.2.0-20cross1 g++-arm-linux-gnueabi_4:8.2.0-2 gcc_4:8.2.0-2 gcc-8_8.2.0-20 gcc-8-arm-linux-gnueabi_8.2.0-20cross1 gcc-8-arm-linux-gnueabi-base_8.2.0-20cross1 gcc-8-base_8.2.0-20 gcc-8-cross-base_8.2.0-20cross1 gcc-arm-linux-gnueabi_4:8.2.0-2 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gpgv_2.2.12-1 grep_3.3-1 groff-base_1.22.4-2 gzip_1.9-3 hostname_3.21 init-system-helpers_1.56+nmu1 intltool-debian_0.35.0+20060710.5 libacl1_2.2.52-4 libapt-pkg5.0_1.8.0~rc3 libarchive-zip-perl_1.64-1 libasan5_8.2.0-20 libasan5-armel-cross_8.2.0-20cross1 libatomic1_8.2.0-20 libatomic1-armel-cross_8.2.0-20cross1 libattr1_1:2.4.47-3 libaudit-common_1:2.8.4-2 libaudit1_1:2.8.4-2 libbinutils_2.31.1-12 libblkid1_2.33.1-0.1 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libbz2-dev_1.0.6-9 libc-bin_2.28-7 libc-dev-bin_2.28-7 libc6_2.28-7 libc6-armel-cross_2.28-4cross1 libc6-dev_2.28-7 libc6-dev-armel-cross_2.28-4cross1 libcap-ng0_0.7.9-2 libcc1-0_8.2.0-20 libcom-err2_1.44.5-1 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000001-1 libcroco3_0.6.12-3 libdb5.3_5.3.28+dfsg1-0.3 libdebconfclient0_0.247 libdebian-dpkgcross-perl_2.6.15-2 libdpkg-perl_1.19.4 libelf-dev_0.175-2 libelf1_0.175-2 libelk0_3.99.8-4.2+b1 libelk0-dev_3.99.8-4.2+b1 libext2fs2_1.44.5-1 libfakeroot_1.23-1 libfdisk1_2.33.1-0.1 libffi6_3.2.1-9 libfile-homedir-perl_1.004-1 libfile-stripnondeterminism-perl_1.1.1-1 libfile-which-perl_1.23-1 libgcc-8-dev_8.2.0-20 libgcc-8-dev-armel-cross_8.2.0-20cross1 libgcc1_1:8.2.0-20 libgcc1-armel-cross_1:8.2.0-20cross1 libgcrypt20_1.8.4-5 libgdbm-compat4_1.18.1-3 libgdbm6_1.18.1-3 libglib2.0-0_2.58.3-1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.6-2 libgomp1_8.2.0-20 libgomp1-armel-cross_8.2.0-20cross1 libgpg-error0_1.35-1 libhogweed4_3.4.1-1 libice-dev_2:1.0.9-2 libice6_2:1.0.9-2 libicu63_63.1-6 libidn2-0_2.0.5-1 libio-string-perl_1.08-3 libisl19_0.20-2 libitm1_8.2.0-20 liblocale-gettext-perl_1.07-3+b4 liblsan0_8.2.0-20 liblz4-1_1.8.3-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.35-2 libmagic1_1:5.35-2 libmount1_2.33.1-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.2.0-20 libncurses6_6.1+20181013-2 libncursesw6_6.1+20181013-2 libnettle6_3.4.1-1 libp11-kit0_0.23.14-2 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre3_2:8.39-11 libperl5.28_5.28.1-4 libpipeline1_1.5.1-2 libpopt-dev_1.16-12 libpopt0_1.16-12 libprotobuf-dev_3.6.1.3-1 libprotobuf-lite17_3.6.1.3-1 libprotobuf17_3.6.1.3-1 libprotoc17_3.6.1.3-1 libpthread-stubs0-dev_0.4-1 libquadmath0_8.2.0-20 libseccomp2_2.3.3-4 libselinux1_2.8-1+b1 libsemanage-common_2.8-2 libsemanage1_2.8-2 libsepol1_2.8-1 libsigsegv2_2.12-2 libsm-dev_2:1.2.3-1 libsm6_2:1.2.3-1 libsmartcols1_2.33.1-0.1 libss2_1.44.5-1 libstdc++-8-dev_8.2.0-20 libstdc++-8-dev-armel-cross_8.2.0-20cross1 libstdc++6_8.2.0-20 libstdc++6-armel-cross_8.2.0-20cross1 libsystemd0_240-5 libtasn1-6_4.13-3 libtinfo6_6.1+20181013-2 libtool_2.4.6-9 libtsan0_8.2.0-20 libubsan1_8.2.0-20 libubsan1-armel-cross_8.2.0-20cross1 libuchardet0_0.0.6-3 libudev1_240-5 libunistring2_0.9.10-1 libuuid1_2.33.1-0.1 libx11-6_2:1.6.7-1 libx11-data_2:1.6.7-1 libx11-dev_2:1.6.7-1 libxau-dev_1:1.0.8-1+b2 libxau6_1:1.0.8-1+b2 libxcb1_1.13.1-2 libxcb1-dev_1.13.1-2 libxdmcp-dev_1:1.1.2-3 libxdmcp6_1:1.1.2-3 libxext-dev_2:1.3.3-1+b2 libxext6_2:1.3.3-1+b2 libxml-libxml-perl_2.0134+dfsg-1 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.00+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.4+dfsg1-7+b3 libxmu-dev_2:1.1.2-2 libxmu-headers_2:1.1.2-2 libxmu6_2:1.1.2-2 libxt-dev_1:1.1.5-1 libxt6_1:1.1.5-1 libyaml-perl_1.27-1 libzstd1_1.3.8+dfsg-3 linux-libc-dev_4.19.20-1 linux-libc-dev-armel-cross_4.19.13-1cross1 login_1:4.5-1.1 lsb-base_10.2018112800 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.5-2 mawk_1.3.3-17+b3 mount_2.33.1-0.1 ncurses-base_6.1+20181013-2 ncurses-bin_6.1+20181013-2 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.28.1-4 perl-base_5.28.1-4 perl-modules-5.28_5.28.1-4 pkg-config_0.29-6 po-debconf_1.0.21 protobuf-compiler_3.6.1.3-1 sbuild-build-depends-anfo-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-essential-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sysvinit-utils_2.93-8 tar_1.30+dfsg-5 tzdata_2018i-1 ucf_3.0038+nmu1 util-linux_2.33.1-0.1 x11-common_1:7.7+19 x11proto-core-dev_2018.4-4 x11proto-dev_2018.4-4 x11proto-xext-dev_2018.4-4 xorg-sgml-doctools_1:1.11-1 xtrans-dev_1.3.5-1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Mon Oct 15 14:55:48 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./anfo_0.98-7.dsc dpkg-source: info: extracting anfo in /<> dpkg-source: info: unpacking anfo_0.98.orig.tar.gz dpkg-source: info: unpacking anfo_0.98-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 01-silence-narrowing-conversion.patch dpkg-source: info: applying 02-correct-minscore-self-initialization.patch dpkg-source: info: applying 03-include-unistd-forF_OK.patch dpkg-source: info: applying 04-reorder-template-for-new-scope-rules.patch dpkg-source: info: applying 05-autoreconf.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.armel DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=POSIX LOGNAME=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-d786cfb7-d9c1-41fb-aa01-6876b3f78c9a SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package anfo dpkg-buildpackage: info: source version 0.98-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type arm-linux-gnueabi does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armel fakeroot debian/rules clean dh clean dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a configure.ac:77: warning: LT_INIT was called before AM_PROG_AR /usr/share/aclocal-1.16/ar-lib.m4:13: AM_PROG_AR is expanded from... configure.ac:77: the top level configure.ac:77: warning: LT_INIT was called before AM_PROG_AR /usr/share/aclocal-1.16/ar-lib.m4:13: AM_PROG_AR is expanded from... configure.ac:77: the top level aclocal: overwriting 'm4/libtool.m4' with '/usr/share/aclocal/libtool.m4' aclocal: overwriting 'm4/ltoptions.m4' with '/usr/share/aclocal/ltoptions.m4' aclocal: overwriting 'm4/ltversion.m4' with '/usr/share/aclocal/ltversion.m4' aclocal: overwriting 'm4/lt~obsolete.m4' with '/usr/share/aclocal/lt~obsolete.m4' configure.ac:77: warning: LT_INIT was called before AM_PROG_AR /usr/share/aclocal-1.16/ar-lib.m4:13: AM_PROG_AR is expanded from... configure.ac:77: the top level configure.ac:77: warning: LT_INIT was called before AM_PROG_AR aclocal.m4:70: AM_PROG_AR is expanded from... configure.ac:77: the top level libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:77: warning: LT_INIT was called before AM_PROG_AR /usr/share/aclocal-1.16/ar-lib.m4:13: AM_PROG_AR is expanded from... configure.ac:77: the top level configure.ac:77: warning: LT_INIT was called before AM_PROG_AR /usr/share/aclocal-1.16/ar-lib.m4:13: AM_PROG_AR is expanded from... configure.ac:77: the top level configure.ac:77: warning: LT_INIT was called before AM_PROG_AR aclocal.m4:70: AM_PROG_AR is expanded from... configure.ac:77: the top level configure.ac:77: warning: LT_INIT was called before AM_PROG_AR aclocal.m4:70: AM_PROG_AR is expanded from... configure.ac:77: the top level configure.ac:77: warning: LT_INIT was called before AM_PROG_AR aclocal.m4:70: AM_PROG_AR is expanded from... configure.ac:77: the top level configure.ac:77: installing './ar-lib' configure.ac:12: installing './compile' configure.ac:6: installing './missing' src/Makefile.am: installing './depcomp' dh_auto_configure -a ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabi --libexecdir=\${prefix}/lib/arm-linux-gnueabi --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --host=arm-linux-gnueabi configure: WARNING: unrecognized options: --disable-maintainer-mode configure: loading site script /etc/dpkg-cross/cross-config.armel checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for arm-linux-gnueabi-strip... arm-linux-gnueabi-strip checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking build system type... x86_64-pc-linux-gnu checking host system type... arm-unknown-linux-gnueabi checking how to print strings... printf checking whether make supports the include directive... yes (GNU style) checking for arm-linux-gnueabi-gcc... arm-linux-gnueabi-gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... yes checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether arm-linux-gnueabi-gcc accepts -g... yes checking for arm-linux-gnueabi-gcc option to accept ISO C89... none needed checking whether arm-linux-gnueabi-gcc understands -c and -o together... yes checking dependency style of arm-linux-gnueabi-gcc... none checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by arm-linux-gnueabi-gcc... /usr/arm-linux-gnueabi/bin/ld checking if the linker (/usr/arm-linux-gnueabi/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/arm-linux-gnueabi-nm -B checking the name lister (/usr/bin/arm-linux-gnueabi-nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to arm-unknown-linux-gnueabi format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/arm-linux-gnueabi/bin/ld option to reload object files... -r checking for arm-linux-gnueabi-objdump... arm-linux-gnueabi-objdump checking how to recognize dependent libraries... pass_all checking for arm-linux-gnueabi-dlltool... no checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for arm-linux-gnueabi-ar... arm-linux-gnueabi-ar checking for archiver @FILE support... @ checking for arm-linux-gnueabi-strip... (cached) arm-linux-gnueabi-strip checking for arm-linux-gnueabi-ranlib... arm-linux-gnueabi-ranlib checking command to parse /usr/bin/arm-linux-gnueabi-nm -B output from arm-linux-gnueabi-gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for arm-linux-gnueabi-mt... no checking for mt... no checking if : is a manifest tool... no checking how to run the C preprocessor... arm-linux-gnueabi-gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if arm-linux-gnueabi-gcc supports -fno-rtti -fno-exceptions... no checking for arm-linux-gnueabi-gcc option to produce PIC... -fPIC -DPIC checking if arm-linux-gnueabi-gcc PIC flag -fPIC -DPIC works... yes checking if arm-linux-gnueabi-gcc static flag -static works... yes checking if arm-linux-gnueabi-gcc supports -c -o file.o... yes checking if arm-linux-gnueabi-gcc supports -c -o file.o... (cached) yes checking whether the arm-linux-gnueabi-gcc linker (/usr/arm-linux-gnueabi/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for arm-linux-gnueabi-g++... arm-linux-gnueabi-g++ checking whether we are using the GNU C++ compiler... yes checking whether arm-linux-gnueabi-g++ accepts -g... yes checking dependency style of arm-linux-gnueabi-g++... none checking how to run the C++ preprocessor... arm-linux-gnueabi-g++ -E checking for ld used by arm-linux-gnueabi-g++... /usr/arm-linux-gnueabi/bin/ld checking if the linker (/usr/arm-linux-gnueabi/bin/ld) is GNU ld... yes checking whether the arm-linux-gnueabi-g++ linker (/usr/arm-linux-gnueabi/bin/ld) supports shared libraries... yes checking for arm-linux-gnueabi-g++ option to produce PIC... -fPIC -DPIC checking if arm-linux-gnueabi-g++ PIC flag -fPIC -DPIC works... yes checking if arm-linux-gnueabi-g++ static flag -static works... yes checking if arm-linux-gnueabi-g++ supports -c -o file.o... yes checking if arm-linux-gnueabi-g++ supports -c -o file.o... (cached) yes checking whether the arm-linux-gnueabi-g++ linker (/usr/arm-linux-gnueabi/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for protoc... /usr/bin/protoc checking for library containing exp... none required checking for library containing log1p... none required checking for poptGetContext in -lpopt... yes checking for deflate in -lz... yes checking for BZ2_bzCompress in -lbz2... yes checking for Elk_Init in -lelk... yes checking popt.h usability... yes checking popt.h presence... yes checking for popt.h... yes checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes checking bzlib.h usability... yes checking bzlib.h presence... yes checking for bzlib.h... yes checking for arm-linux-gnueabi-pkg-config... /usr/bin/arm-linux-gnueabi-pkg-config checking pkg-config is at least version 0.9.0... yes checking for protobuf... yes checking google/protobuf/message.h usability... yes checking google/protobuf/message.h presence... yes checking for google/protobuf/message.h... yes checking elk/scheme.h usability... yes checking elk/scheme.h presence... yes checking for elk/scheme.h... yes checking for ANSI C header files... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking for stdint.h... (cached) yes checking for stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for working volatile... yes checking for stdbool.h that conforms to C99... no checking for _Bool... no checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... 64 checking for int32_t... yes checking for int64_t... yes checking for size_t... yes checking for ssize_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint64_t... yes checking for uint8_t... yes checking for memset... yes checking for munmap... yes checking for pow... yes checking for strerror... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating man/Makefile config.status: creating src/Makefile config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode checking for arm-linux-gnueabi-ar... (cached) arm-linux-gnueabi-ar checking the archiver (arm-linux-gnueabi-ar) interface... ar dh_auto_build -a make -j1 make[1]: Entering directory '/<>' make all-recursive make[2]: Entering directory '/<>' Making all in src make[3]: Entering directory '/<>/src' protoc -I. -I/usr/include --cpp_out=. config.proto [libprotobuf WARNING google/protobuf/compiler/parser.cc:562] No syntax specified for the proto file: config.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) protoc -I. -I/usr/include --cpp_out=. output.proto [libprotobuf WARNING google/protobuf/compiler/parser.cc:562] No syntax specified for the proto file: output.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) [libprotobuf WARNING google/protobuf/compiler/parser.cc:562] No syntax specified for the proto file: config.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) make all-am make[4]: Entering directory '/<>/src' arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fa2dna.o fa2dna.cc /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o align.lo align.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c align.cc -fPIC -DPIC -o .libs/align.o In file included from stream.h:20, from align.h:22, from align.cc:21: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from align.cc:21: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from align.cc:21: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from align.h:22, from align.cc:21: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from align.cc:21: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from align.cc:21: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from align.cc:21: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from align.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c align.cc -o align.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o anfo_common.lo anfo_common.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c anfo_common.cc -fPIC -DPIC -o .libs/anfo_common.o In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo_common.cc:21: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:61, from /usr/arm-linux-gnueabi/include/c++/8/algorithm:62, from /usr/include/google/protobuf/stubs/common.h:38, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h: In function 'void std::__push_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Matches; _Compare = __gnu_cxx::__ops::_Iter_comp_val]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h:128:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __push_heap(_RandomAccessIterator __first, ^~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Matches; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/algorithm:62, from /usr/include/google/protobuf/stubs/common.h:38, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1821:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __unguarded_linear_insert(_RandomAccessIterator __last, ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __insertion_sort(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:61, from /usr/arm-linux-gnueabi/include/c++/8/algorithm:62, from /usr/include/google/protobuf/stubs/common.h:38, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Matches; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/algorithm:62, from /usr/include/google/protobuf/stubs/common.h:38, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo_common.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __introsort_loop(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__introsort_loop(__cut, __last, __depth_limit, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h: In member function 'virtual void streams::Indexer::put_result(const output::Result&)': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__introsort_loop(__first, __last, ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ std::__lg(__last - __first) * 2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __comp); ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__insertion_sort(__first, __first + int(_S_threshold), __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__insertion_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c anfo_common.cc -o anfo_common.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o concurrent_stream.lo concurrent_stream.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c concurrent_stream.cc -fPIC -DPIC -o .libs/concurrent_stream.o In file included from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from concurrent_stream.h:23, from concurrent_stream.cc:1: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ concurrent_stream.cc: In member function 'virtual output::Result streams::ConcurrentStream::fetch_result()': concurrent_stream.cc:178:2: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr< Result > r( outgoing_[ next_out_++ ] ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ concurrent_stream.cc: In member function 'void streams::ConcurrentStream::dequeue(streams::Stream*)': concurrent_stream.cc:212:2: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr< Result > r( incoming_[ next_in_ ] ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from concurrent_stream.h:23, from concurrent_stream.cc:1: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c concurrent_stream.cc -o concurrent_stream.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ducttape.lo ducttape.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ducttape.cc -fPIC -DPIC -o .libs/ducttape.o In file included from stream.h:20, from ducttape.h:21, from ducttape.cc:21: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from ducttape.h:21, from ducttape.cc:21: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from ducttape.h:21, from ducttape.cc:21: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from ducttape.h:21, from ducttape.cc:21: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from ducttape.h:21, from ducttape.cc:21: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from ducttape.h:21, from ducttape.cc:21: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from ducttape.cc:21: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.cc:21: ducttape.h:139:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/vector:69, from sequence.h:25, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {streams::DuctTaper::Acc}; _Tp = streams::DuctTaper::Acc; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_insert_rval(std::vector<_Tp, _Alloc>::const_iterator, std::vector<_Tp, _Alloc>::value_type&&) [with _Tp = streams::DuctTaper::Acc; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc:327:5: note: parameter passing for argument of type 'std::vector::const_iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc:343:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(begin() + __n, std::move(__v)); ^~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/vector:64, from sequence.h:25, from align_fwd.h:5, from ducttape.h:20, from ducttape.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_vector.h: In member function 'void streams::DuctTaper::put_result_ancient(const output::Result&)': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_vector.h:1181:57: note: parameter passing for argument of type 'std::vector::const_iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 { return _M_insert_rval(__position, std::move(__x)); } ^ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_vector.h:1181:57: note: parameter passing for argument of type 'std::vector::const_iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 { return _M_insert_rval(__position, std::move(__x)); } ^ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_vector.h: In member function 'void streams::DuctTaper::put_result_recent(const output::Result&)': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_vector.h:1181:57: note: parameter passing for argument of type 'std::vector::const_iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 { return _M_insert_rval(__position, std::move(__x)); } ^ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_vector.h:1181:57: note: parameter passing for argument of type 'std::vector::const_iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 { return _M_insert_rval(__position, std::move(__x)); } ^ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c ducttape.cc -o ducttape.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o index.lo index.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c index.cc -fPIC -DPIC -o .libs/index.o In file included from /usr/arm-linux-gnueabi/include/c++/8/vector:69, from /usr/include/google/protobuf/stubs/common.h:44, from config.pb.h:9, from index.h:20, from index.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {Matches}; _Tp = Matches; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc: In member function 'unsigned int FixedIndex::lookup1(Oligo, PreSeeds&, const FixedIndex::LookupParams&, int32_t, int*) const': /usr/arm-linux-gnueabi/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ^~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c index.cc -o index.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o misc_streams.lo misc_streams.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c misc_streams.cc -fPIC -DPIC -o .libs/misc_streams.o In file included from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from misc_streams.cc:5: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ misc_streams.cc: In constructor 'streams::RegionFilter::RegionFilter(const std::pair*, std::__cxx11::basic_string >&)': misc_streams.cc:489:2: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr< istream > deffile( p.first ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.h:20, from misc_streams.h:4, from misc_streams.cc:5: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c misc_streams.cc -o misc_streams.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o output_streams.lo output_streams.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c output_streams.cc -fPIC -DPIC -o .libs/output_streams.o In file included from stream.h:20, from output_streams.h:21, from output_streams.cc:21: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from output_streams.h:21, from output_streams.cc:21: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from output_streams.h:21, from output_streams.cc:21: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from output_streams.h:21, from output_streams.cc:21: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from output_streams.h:21, from output_streams.cc:21: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from output_streams.h:21, from output_streams.cc:21: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.h:21, from output_streams.cc:21: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.cc:21: output_streams.h:45:3: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.cc:21: output_streams.h:72:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.cc:21: output_streams.h:123:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.cc:21: output_streams.h:138:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.cc:21: output_streams.h:149:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from output_streams.cc:21: output_streams.h:176:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from config.pb.h:9, from index.h:20, from output_streams.h:20, from output_streams.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c output_streams.cc -o output_streams.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sequence.lo sequence.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c sequence.cc -fPIC -DPIC -o .libs/sequence.o In file included from stream.h:20, from sequence.cc:23: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from sequence.cc:23: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from sequence.cc:23: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from sequence.cc:23: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from sequence.cc:23: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from sequence.cc:23: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from sequence.cc:23: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from sequence.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c sequence.cc -o sequence.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o stream.lo stream.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c stream.cc -fPIC -DPIC -o .libs/stream.o In file included from stream.cc:21: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.cc:21: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.cc:21: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.cc:21: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.cc:21: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.cc:21: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from misc_streams.h:4, from stream.cc:22: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc:81:30: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader::AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) : is_( is ), name_( name ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc:421:36: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader::ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) : is_( is ), name_( name ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc:1093:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc:1114:29: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] StreamWithProgress( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, int64_t total ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc:1149:40: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] StreamHolder make_input_stream_( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, bool solexa_scores, char origin, const string& genome ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc: In function 'streams::StreamHolder streams::{anonymous}::make_input_stream_(std::auto_ptr, const string&, bool, char, const string&)': stream.cc:1179:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > bs( new BunzipStream( is ) ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc:1189:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > zs( new InflateStream( is ) ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc: In member function 'virtual output::Header streams::UniversalReader::fetch_header()': stream.cc:1233:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileInputStream > s( new google::protobuf::io::FileInputStream( fd ) ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc:1238:12: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr(s), name_, st.st_size ) ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ stream.cc: At global scope: stream.cc:1378:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader::BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from stream.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c stream.cc -o stream.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o util.lo util.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.cc -fPIC -DPIC -o .libs/util.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.cc -o util.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o anfo-elk.lo anfo-elk.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c anfo-elk.cc -fPIC -DPIC -o .libs/anfo-elk.o In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo-elk.cc:27: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-elk.cc:28: ducttape.h:139:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-elk.cc:31: output_streams.h:45:3: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-elk.cc:31: output_streams.h:72:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-elk.cc:31: output_streams.h:123:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-elk.cc:31: output_streams.h:138:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-elk.cc:31: output_streams.h:149:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-elk.cc:31: output_streams.h:176:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo-elk.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c anfo-elk.cc -o anfo-elk.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fastlz.lo fastlz.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c fastlz.c -fPIC -DPIC -o .libs/fastlz.o libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c fastlz.c -o fastlz.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o config.pb.lo config.pb.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c config.pb.cc -fPIC -DPIC -o .libs/config.pb.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c config.pb.cc -o config.pb.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o output.pb.lo output.pb.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c output.pb.cc -fPIC -DPIC -o .libs/output.pb.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c output.pb.cc -o output.pb.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=link arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 0:0:0 -Wl,-z,relro -Wl,-z,now -o libanfo.la -rpath /usr/lib/arm-linux-gnueabi align.lo anfo_common.lo concurrent_stream.lo ducttape.lo index.lo misc_streams.lo output_streams.lo sequence.lo stream.lo util.lo anfo-elk.lo fastlz.lo config.pb.lo output.pb.lo -L/usr/lib/arm-linux-gnueabi -lprotobuf -pthread -lpthread -lelk -lbz2 -lz -lpopt libtool: link: arm-linux-gnueabi-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc-cross/arm-linux-gnueabi/8/../../../../arm-linux-gnueabi/lib/crti.o /usr/lib/gcc-cross/arm-linux-gnueabi/8/crtbeginS.o .libs/align.o .libs/anfo_common.o .libs/concurrent_stream.o .libs/ducttape.o .libs/index.o .libs/misc_streams.o .libs/output_streams.o .libs/sequence.o .libs/stream.o .libs/util.o .libs/anfo-elk.o .libs/fastlz.o .libs/config.pb.o .libs/output.pb.o -L/usr/lib/arm-linux-gnueabi -lprotobuf -lpthread -lelk -lbz2 -lz -lpopt -L/usr/lib/gcc-cross/arm-linux-gnueabi/8 -L/usr/lib/gcc-cross/arm-linux-gnueabi/8/../../../../arm-linux-gnueabi/lib -L/lib/arm-linux-gnueabi -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc-cross/arm-linux-gnueabi/8/crtendS.o /usr/lib/gcc-cross/arm-linux-gnueabi/8/../../../../arm-linux-gnueabi/lib/crtn.o -pthread -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -pthread -pthread -Wl,-soname -Wl,libanfo.so.0 -o .libs/libanfo.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libanfo.so.0" && ln -s "libanfo.so.0.0.0" "libanfo.so.0") libtool: link: (cd ".libs" && rm -f "libanfo.so" && ln -s "libanfo.so.0.0.0" "libanfo.so") libtool: link: arm-linux-gnueabi-ar cru .libs/libanfo.a align.o anfo_common.o concurrent_stream.o ducttape.o index.o misc_streams.o output_streams.o sequence.o stream.o util.o anfo-elk.o fastlz.o config.pb.o output.pb.o arm-linux-gnueabi-ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: arm-linux-gnueabi-ranlib .libs/libanfo.a libtool: link: ( cd ".libs" && rm -f "libanfo.la" && ln -s "../libanfo.la" "libanfo.la" ) /bin/bash ../libtool --tag=CXX --mode=link arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o fa2dna fa2dna.o libanfo.la -L/usr/lib/arm-linux-gnueabi -lprotobuf -pthread -lelk -lbz2 -lz -lpopt libtool: link: arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/fa2dna fa2dna.o -pthread ./.libs/libanfo.so -L/usr/lib/arm-linux-gnueabi -lprotobuf -lelk -lbz2 -lz -lpopt -pthread arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o dnaindex.o dnaindex.cc /bin/bash ../libtool --tag=CXX --mode=link arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o dnaindex dnaindex.o libanfo.la -L/usr/lib/arm-linux-gnueabi -lprotobuf -pthread -lelk -lbz2 -lz -lpopt libtool: link: arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/dnaindex dnaindex.o -pthread ./.libs/libanfo.so -L/usr/lib/arm-linux-gnueabi -lprotobuf -lelk -lbz2 -lz -lpopt -pthread arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o anfo-tool.o anfo-tool.cc In file included from anfo-tool.cc:21: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:21: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:21: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from anfo-tool.cc:21: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:21: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:21: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ducttape.h:21, from anfo-tool.cc:22: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:22: ducttape.h:139:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:24: output_streams.h:45:3: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:24: output_streams.h:72:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:24: output_streams.h:123:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:24: output_streams.h:138:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:24: output_streams.h:149:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from anfo-tool.cc:24: output_streams.h:176:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< std::ostream > out_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from anfo-tool.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o anfo-tool anfo-tool.o libanfo.la -L/usr/lib/arm-linux-gnueabi -lprotobuf -pthread -lelk -lbz2 -lz -lpopt libtool: link: arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/anfo-tool anfo-tool.o -pthread ./.libs/libanfo.so -L/usr/lib/arm-linux-gnueabi -lprotobuf -lelk -lbz2 -lz -lpopt -pthread arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o anfo.o anfo.cc In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo.cc:21: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo.cc:21: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo.cc:21: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo.cc:21: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo.cc:21: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from align.h:22, from anfo_common.h:22, from anfo.cc:21: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from align.h:22, from anfo_common.h:22, from anfo.cc:21: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from align.h:20, from anfo_common.h:22, from anfo.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o anfo anfo.o libanfo.la -L/usr/lib/arm-linux-gnueabi -lprotobuf -pthread -lelk -lbz2 -lz -lpopt libtool: link: arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/anfo anfo.o -pthread ./.libs/libanfo.so -L/usr/lib/arm-linux-gnueabi -lprotobuf -lelk -lbz2 -lz -lpopt -pthread arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o index-test.o index-test.cc In file included from index-test.cc:27: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:27: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:27: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from index-test.cc:27: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:27: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:27: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from index-test.cc:30: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:61, from /usr/arm-linux-gnueabi/include/c++/8/algorithm:62, from /usr/include/google/protobuf/stubs/common.h:38, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h: In function 'void std::__push_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Matches; _Compare = __gnu_cxx::__ops::_Iter_comp_val]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h:128:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __push_heap(_RandomAccessIterator __first, ^~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Matches; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/algorithm:62, from /usr/include/google/protobuf/stubs/common.h:38, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1821:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __unguarded_linear_insert(_RandomAccessIterator __last, ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __insertion_sort(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:61, from /usr/arm-linux-gnueabi/include/c++/8/algorithm:62, from /usr/include/google/protobuf/stubs/common.h:38, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Matches; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/algorithm:62, from /usr/include/google/protobuf/stubs/common.h:38, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from compress_stream.h:22, from index-test.cc:27: /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __introsort_loop(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__introsort_loop(__cut, __last, __depth_limit, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h: In function 'int main_(int, const char**)': /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__introsort_loop(__first, __last, ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ std::__lg(__last - __first) * 2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __comp); ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__insertion_sort(__first, __first + int(_S_threshold), __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__insertion_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o index-test index-test.o libanfo.la -L/usr/lib/arm-linux-gnueabi -lprotobuf -pthread -lelk -lbz2 -lz -lpopt libtool: link: arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/index-test index-test.o -pthread ./.libs/libanfo.so -L/usr/lib/arm-linux-gnueabi -lprotobuf -lelk -lbz2 -lz -lpopt -pthread arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o file-info.o file-info.cc In file included from stream.h:20, from file-info.cc:25: compress_stream.h:34:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from file-info.cc:25: compress_stream.h:97:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from file-info.cc:25: compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()': compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate] else if( r != Z_OK ) throw zs_.msg ; ^~~ compress_stream.h:198:36: note: in C++11 destructors default to noexcept In file included from stream.h:20, from file-info.cc:25: compress_stream.h: At global scope: compress_stream.h:225:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from file-info.cc:25: compress_stream.h:278:22: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ) ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from stream.h:20, from file-info.cc:25: compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()': compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate] else if( r < BZ_OK ) throw BzipError( r ) ; ^ compress_stream.h:379:45: note: in C++11 destructors default to noexcept compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)': compress_stream.h:395:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::FileOutputStream > fos( ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h: At global scope: stream.h:319:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:323:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:345:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:385:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:387:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:414:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:416:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ; // output to buffer ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:422:23: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:747:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:762:21: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:772:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:795:19: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:806:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:821:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) : ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:832:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:846:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from file-info.cc:25: stream.h:880:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ; ^~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/8/memory:80, from /usr/include/google/protobuf/stubs/common.h:41, from /usr/include/google/protobuf/io/zero_copy_stream.h:111, from sequence.h:30, from align_fwd.h:5, from file-info.cc:21: /usr/arm-linux-gnueabi/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o file-info file-info.o libanfo.la -L/usr/lib/arm-linux-gnueabi -lprotobuf -pthread -lelk -lbz2 -lz -lpopt libtool: link: arm-linux-gnueabi-g++ -pthread -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/file-info file-info.o -pthread ./.libs/libanfo.so -L/usr/lib/arm-linux-gnueabi -lprotobuf -lelk -lbz2 -lz -lpopt -pthread echo "; DO NOT EDIT THIS FILE! EDIT anfo.scm.in AND RUN MAKE INSTEAD!" > anfo.scm sed -e "s#__LIBDIR__#/usr/lib/arm-linux-gnueabi#g" < ./anfo.scm.in >> anfo.scm make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' Making all in man make[3]: Entering directory '/<>/man' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/man' make[3]: Entering directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a make -j1 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>' Making install in src make[2]: Entering directory '/<>/src' make install-am make[3]: Entering directory '/<>/src' make[4]: Entering directory '/<>/src' /bin/mkdir -p '/<>/debian/tmp/usr/lib/arm-linux-gnueabi' /bin/bash ../libtool --mode=install /usr/bin/install -c libanfo.la '/<>/debian/tmp/usr/lib/arm-linux-gnueabi' libtool: install: /usr/bin/install -c .libs/libanfo.so.0.0.0 /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.so.0.0.0 libtool: install: (cd /<>/debian/tmp/usr/lib/arm-linux-gnueabi && { ln -s -f libanfo.so.0.0.0 libanfo.so.0 || { rm -f libanfo.so.0 && ln -s libanfo.so.0.0.0 libanfo.so.0; }; }) libtool: install: (cd /<>/debian/tmp/usr/lib/arm-linux-gnueabi && { ln -s -f libanfo.so.0.0.0 libanfo.so || { rm -f libanfo.so && ln -s libanfo.so.0.0.0 libanfo.so; }; }) libtool: install: /usr/bin/install -c .libs/libanfo.lai /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.la libtool: install: /usr/bin/install -c .libs/libanfo.a /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.a libtool: install: chmod 644 /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.a libtool: install: arm-linux-gnueabi-ranlib /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.a libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabi' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c fa2dna dnaindex anfo-tool anfo '/<>/debian/tmp/usr/bin' libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabi' libtool: install: /usr/bin/install -c .libs/fa2dna /<>/debian/tmp/usr/bin/fa2dna libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabi' libtool: install: /usr/bin/install -c .libs/dnaindex /<>/debian/tmp/usr/bin/dnaindex libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabi' libtool: install: /usr/bin/install -c .libs/anfo-tool /<>/debian/tmp/usr/bin/anfo-tool libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabi' libtool: install: /usr/bin/install -c .libs/anfo /<>/debian/tmp/usr/bin/anfo /bin/mkdir -p '/<>/debian/tmp/usr/lib/arm-linux-gnueabi' /bin/bash ../libtool --mode=install /usr/bin/install -c index-test file-info '/<>/debian/tmp/usr/lib/arm-linux-gnueabi' libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabi' libtool: install: /usr/bin/install -c .libs/index-test /<>/debian/tmp/usr/lib/arm-linux-gnueabi/index-test libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabi' libtool: install: /usr/bin/install -c .libs/file-info /<>/debian/tmp/usr/lib/arm-linux-gnueabi/file-info /bin/mkdir -p '/<>/debian/tmp/usr/share/anfo' /usr/bin/install -c -m 644 config.proto output.proto '/<>/debian/tmp/usr/share/anfo' /bin/mkdir -p '/<>/debian/tmp/usr/share/elk' /usr/bin/install -c srfi-88.scm srfi-89.scm '/<>/debian/tmp/usr/share/elk' /bin/mkdir -p '/<>/debian/tmp/usr/include/anfo' /usr/bin/install -c -m 644 align.h align_fwd.h anfo_common.h compress_stream.h concurrent_stream.h conffile.h ducttape.h index.h logdom.h misc_streams.h output_streams.h sequence.h stream.h trim.h util.h '/<>/debian/tmp/usr/include/anfo' /bin/mkdir -p '/<>/debian/tmp/usr/share/elk' /usr/bin/install -c anfo.scm '/<>/debian/tmp/usr/share/elk' make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' Making install in man make[2]: Entering directory '/<>/man' make[3]: Entering directory '/<>/man' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 fa2dna.1 dnaindex.1 anfo-sge.1 anfo-tool.1 file-info.1 '/<>/debian/tmp/usr/share/man/man1' make[3]: Leaving directory '/<>/man' make[2]: Leaving directory '/<>/man' make[2]: Entering directory '/<>' make[3]: Entering directory '/<>' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/share/doc/anfo' /usr/bin/install -c -m 644 README '/<>/debian/tmp/usr/share/doc/anfo/.' /bin/mkdir -p '/<>/debian/tmp/usr/share/doc/anfo/example' /usr/bin/install -c -m 644 example/ancient.cfg example/default.cfg example/split-anfo.scm example/threebam.scm '/<>/debian/tmp/usr/share/doc/anfo/example' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' rm `find debian/tmp -name '*.la'` d-shlibmove --commit \ --multiarch \ --movedev debian/tmp/usr/include/* usr/include \ debian/tmp/usr/lib/*/libanfo.so Library package automatic movement utility --> libbz2-dev package exists. --> libelk0-dev package exists. --> libpopt-dev package exists. --> libprotobuf-dev package exists. --> zlib1g-dev package exists. set -e install -d -m 755 debian/libanfo0-dev/usr/lib/arm-linux-gnueabi install -d -m 755 debian/libanfo0/usr/lib/arm-linux-gnueabi mv debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.a debian/libanfo0-dev/usr/lib/arm-linux-gnueabi mv debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.la debian/libanfo0-dev/usr/lib/arm-linux-gnueabi || true mv debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.so debian/libanfo0-dev/usr/lib/arm-linux-gnueabi mv /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.so.0 debian/libanfo0/usr/lib/arm-linux-gnueabi mv /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.so.0.0.0 debian/libanfo0/usr/lib/arm-linux-gnueabi PKGDEV=libanfo0-dev PKGSHL=libanfo0 install -d -m 755 debian/libanfo0-dev/usr/include mv debian/tmp/usr/include/anfo debian/libanfo0-dev/usr/include mv: cannot stat 'debian/tmp/usr/lib/arm-linux-gnueabi/libanfo.la': No such file or directory dh_install mv debian/anfo/usr/lib/* debian/anfo/usr/lib/anfo make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installman make[1]: Entering directory '/<>' dh_installman # delete unused manpage find debian/anfo -name anfo-sge.1 -delete make[1]: Leaving directory '/<>' dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a debian/rules override_dh_fixperms make[1]: Entering directory '/<>' dh_fixperms find debian/anfo -perm -5 -type f \( -name '*.scm' \) -print0 2>/dev/null | xargs -0r chmod 644 make[1]: Leaving directory '/<>' dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/anfo/usr/bin/anfo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/anfo/usr/bin/fa2dna contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/anfo/usr/lib/anfo/index-test contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/anfo/usr/bin/dnaindex contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/anfo/usr/bin/anfo-tool contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/anfo/usr/lib/anfo/file-info contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/anfo/usr/bin/anfo debian/anfo/usr/bin/fa2dna debian/anfo/usr/lib/anfo/index-test debian/anfo/usr/bin/dnaindex debian/anfo/usr/bin/anfo-tool debian/anfo/usr/lib/anfo/file-info were not linked against libbz2.so.1.0 (they use none of the library's symbols) dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libanfo0/usr/lib/arm-linux-gnueabi/libanfo.so.0.0.0 found in none of the libraries dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libanfo0/usr/lib/arm-linux-gnueabi/libanfo.so.0.0.0 was not linked against libpopt.so.0 (it uses none of the library's symbols) dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'anfo' in '../anfo_0.98-7_armel.deb'. dpkg-deb: building package 'anfo-dbgsym' in '../anfo-dbgsym_0.98-7_armel.deb'. dpkg-deb: building package 'libanfo0' in '../libanfo0_0.98-7_armel.deb'. dpkg-deb: building package 'libanfo0-dbgsym' in '../libanfo0-dbgsym_0.98-7_armel.deb'. dpkg-deb: building package 'libanfo0-dev' in '../libanfo0-dev_0.98-7_armel.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../anfo_0.98-7_armel.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2019-02-15T17:44:07Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/resolver-mCKTeF/apt_archive/sbuild-build-depends-lintian-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-anfo-dummy sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy sbuild-build-depends-lintian-dummy dpkg-scanpackages: info: Wrote 4 entries to output Packages file. Ign:1 copy:/<>/resolver-mCKTeF/apt_archive ./ InRelease Get:2 copy:/<>/resolver-mCKTeF/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-mCKTeF/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-mCKTeF/apt_archive ./ Sources [810 B] Get:5 copy:/<>/resolver-mCKTeF/apt_archive ./ Packages [888 B] Fetched 2661 B in 0s (153 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libcgi-pm-perl libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl liblist-moreutils-perl libmailtools-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libparse-debianchangelog-perl libreadline7 libsqlite3-0 libssl1.1 libstruct-dumb-perl libsub-name-perl libtext-levenshtein-perl libtimedate-perl liburi-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common t1utils Suggested packages: libdata-dump-perl ca-certificates libhtml-template-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc Recommended packages: gnupg libcgi-fast-perl libhttp-message-perl libasync-mergepoint-perl libsereal-perl libtest-fatal-perl libtest-refcount-perl libdigest-bubblebabble-perl libnet-dns-sec-perl libnet-libidn-perl libauthen-sasl-perl libperlio-gzip-perl The following NEW packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libcgi-pm-perl libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl liblist-moreutils-perl libmailtools-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libparse-debianchangelog-perl libreadline7 libsqlite3-0 libssl1.1 libstruct-dumb-perl libsub-name-perl libtext-levenshtein-perl libtimedate-perl liburi-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common sbuild-build-depends-lintian-dummy:armel t1utils 0 upgraded, 45 newly installed, 0 to remove and 0 not upgraded. Need to get 7667 kB of archives. After this operation, 20.5 MB of additional disk space will be used. Get:1 copy:/<>/resolver-mCKTeF/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [848 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 netbase all 5.6 [19.4 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 readline-common all 7.0-5 [70.6 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.62-1 [33.4 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.2-1 [49.4 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.12-1 [509 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.27.1-1 [640 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.12-1 [862 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.34+b1 [71.2 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-tagset-perl all 3.20-3 [12.7 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 1.76-1 [89.9 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-3+b3 [105 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libcgi-pm-perl all 4.40-1 [222 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.21-1+b3 [13.6 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-accessor-perl all 0.51-1 [23.2 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libclone-perl amd64 0.41-1+b1 [14.6 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libdigest-hmac-perl all 1.03+dfsg-2 [10.6 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3000-2 [42.2 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libssl1.1 amd64 1.1.1a-1 [1527 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 perl-openssl-defaults amd64 3 [6782 B] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ssleay-perl amd64 1.85-2+b1 [308 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libio-socket-ssl-perl all 2.060-3 [207 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libmailtools-perl all 2.18-1 [88.5 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ip-perl all 1.26-2 [29.0 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-dns-perl all 1.19-1 [372 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-1 [33.3 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libemail-valid-perl all 1.202-1 [23.0 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libexporter-tiny-perl all 1.002001-1 [36.9 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-system-simple-perl all 1.25-4 [26.5 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.08-1 [17.7 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libfuture-perl all 0.39-1 [74.5 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.09-1 [11.1 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-perl all 0.72-1 [262 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libio-pty-perl amd64 1:1.08-1.1+b5 [33.7 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-run-perl all 20180523.0-1 [101 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl amd64 0.416-1+b4 [64.2 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libparse-debianchangelog-perl all 1.2.0-13 [59.5 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshtein-perl all 0.13-1 [11.1 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.76+repack-1 [33.1 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.3.4-2 [90.4 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-3 [62.3 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.7.0 [1193 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7667 kB in 0s (51.0 MB/s) Selecting previously unselected package netbase. (Reading database ... 19078 files and directories currently installed.) Preparing to unpack .../00-netbase_5.6_all.deb ... Unpacking netbase (5.6) ... Selecting previously unselected package readline-common. Preparing to unpack .../01-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package diffstat. Preparing to unpack .../02-diffstat_1.62-1_amd64.deb ... Unpacking diffstat (1.62-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../03-libassuan0_2.5.2-1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.2-1) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../04-libreadline7_7.0-5_amd64.deb ... Unpacking libreadline7:amd64 (7.0-5) ... Selecting previously unselected package gpgconf. Preparing to unpack .../05-gpgconf_2.2.12-1_amd64.deb ... Unpacking gpgconf (2.2.12-1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../06-libsqlite3-0_3.27.1-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.27.1-1) ... Selecting previously unselected package gpg. Preparing to unpack .../07-gpg_2.2.12-1_amd64.deb ... Unpacking gpg (2.2.12-1) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../08-libapt-pkg-perl_0.1.34+b1_amd64.deb ... Unpacking libapt-pkg-perl (0.1.34+b1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../09-libhtml-tagset-perl_3.20-3_all.deb ... Unpacking libhtml-tagset-perl (3.20-3) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../10-liburi-perl_1.76-1_all.deb ... Unpacking liburi-perl (1.76-1) ... Selecting previously unselected package libhtml-parser-perl. Preparing to unpack .../11-libhtml-parser-perl_3.72-3+b3_amd64.deb ... Unpacking libhtml-parser-perl (3.72-3+b3) ... Selecting previously unselected package libcgi-pm-perl. Preparing to unpack .../12-libcgi-pm-perl_4.40-1_all.deb ... Unpacking libcgi-pm-perl (4.40-1) ... Selecting previously unselected package libsub-name-perl. Preparing to unpack .../13-libsub-name-perl_0.21-1+b3_amd64.deb ... Unpacking libsub-name-perl (0.21-1+b3) ... Selecting previously unselected package libclass-accessor-perl. Preparing to unpack .../14-libclass-accessor-perl_0.51-1_all.deb ... Unpacking libclass-accessor-perl (0.51-1) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../15-libclone-perl_0.41-1+b1_amd64.deb ... Unpacking libclone-perl (0.41-1+b1) ... Selecting previously unselected package libdigest-hmac-perl. Preparing to unpack .../16-libdigest-hmac-perl_1.03+dfsg-2_all.deb ... Unpacking libdigest-hmac-perl (1.03+dfsg-2) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../17-libtimedate-perl_2.3000-2_all.deb ... Unpacking libtimedate-perl (2.3000-2) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../18-libssl1.1_1.1.1a-1_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1a-1) ... Selecting previously unselected package perl-openssl-defaults:amd64. Preparing to unpack .../19-perl-openssl-defaults_3_amd64.deb ... Unpacking perl-openssl-defaults:amd64 (3) ... Selecting previously unselected package libnet-ssleay-perl. Preparing to unpack .../20-libnet-ssleay-perl_1.85-2+b1_amd64.deb ... Unpacking libnet-ssleay-perl (1.85-2+b1) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../21-libio-socket-ssl-perl_2.060-3_all.deb ... Unpacking libio-socket-ssl-perl (2.060-3) ... Selecting previously unselected package libnet-smtp-ssl-perl. Preparing to unpack .../22-libnet-smtp-ssl-perl_1.04-1_all.deb ... Unpacking libnet-smtp-ssl-perl (1.04-1) ... Selecting previously unselected package libmailtools-perl. Preparing to unpack .../23-libmailtools-perl_2.18-1_all.deb ... Unpacking libmailtools-perl (2.18-1) ... Selecting previously unselected package libnet-ip-perl. Preparing to unpack .../24-libnet-ip-perl_1.26-2_all.deb ... Unpacking libnet-ip-perl (1.26-2) ... Selecting previously unselected package libnet-dns-perl. Preparing to unpack .../25-libnet-dns-perl_1.19-1_all.deb ... Unpacking libnet-dns-perl (1.19-1) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../26-libnet-domain-tld-perl_1.75-1_all.deb ... Unpacking libnet-domain-tld-perl (1.75-1) ... Selecting previously unselected package libemail-valid-perl. Preparing to unpack .../27-libemail-valid-perl_1.202-1_all.deb ... Unpacking libemail-valid-perl (1.202-1) ... Selecting previously unselected package libexporter-tiny-perl. Preparing to unpack .../28-libexporter-tiny-perl_1.002001-1_all.deb ... Unpacking libexporter-tiny-perl (1.002001-1) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../29-libipc-system-simple-perl_1.25-4_all.deb ... Unpacking libipc-system-simple-perl (1.25-4) ... Selecting previously unselected package libfile-basedir-perl. Preparing to unpack .../30-libfile-basedir-perl_0.08-1_all.deb ... Unpacking libfile-basedir-perl (0.08-1) ... Selecting previously unselected package libfuture-perl. Preparing to unpack .../31-libfuture-perl_0.39-1_all.deb ... Unpacking libfuture-perl (0.39-1) ... Selecting previously unselected package libstruct-dumb-perl. Preparing to unpack .../32-libstruct-dumb-perl_0.09-1_all.deb ... Unpacking libstruct-dumb-perl (0.09-1) ... Selecting previously unselected package libio-async-perl. Preparing to unpack .../33-libio-async-perl_0.72-1_all.deb ... Unpacking libio-async-perl (0.72-1) ... Selecting previously unselected package libio-pty-perl. Preparing to unpack .../34-libio-pty-perl_1%3a1.08-1.1+b5_amd64.deb ... Unpacking libio-pty-perl (1:1.08-1.1+b5) ... 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Setting up libtext-levenshtein-perl (0.13-1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libnet-ip-perl (1.26-2) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libipc-system-simple-perl (1.25-4) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up libfuture-perl (0.39-1) ... Setting up libexporter-tiny-perl (1.002001-1) ... Setting up libstruct-dumb-perl (0.09-1) ... Setting up libyaml-0-2:amd64 (0.2.1-1) ... Setting up patchutils (0.3.4-2) ... Setting up liburi-perl (1.76-1) ... Setting up t1utils (1.41-3) ... Setting up libssl1.1:amd64 (1.1.1a-1) ... Setting up libhtml-parser-perl (3.72-3+b3) ... Setting up libipc-run-perl (20180523.0-1) ... Setting up libcgi-pm-perl (4.40-1) ... Setting up libsqlite3-0:amd64 (3.27.1-1) ... Setting up libdigest-hmac-perl (1.03+dfsg-2) ... Setting up libio-async-perl (0.72-1) ... Setting up libclone-perl (0.41-1+b1) ... Setting up libsub-name-perl (0.21-1+b3) ... Setting up libyaml-libyaml-perl (0.76+repack-1) ... Setting up libassuan0:amd64 (2.5.2-1) ... Setting up diffstat (1.62-1) ... Setting up libclass-accessor-perl (0.51-1) ... Setting up netbase (5.6) ... Setting up liblist-moreutils-perl (0.416-1+b4) ... Setting up perl-openssl-defaults:amd64 (3) ... Setting up gpgconf (2.2.12-1) ... Setting up libnet-dns-perl (1.19-1) ... Setting up libparse-debianchangelog-perl (1.2.0-13) ... Setting up gpg (2.2.12-1) ... Setting up libnet-ssleay-perl (1.85-2+b1) ... Setting up libio-socket-ssl-perl (2.060-3) ... Setting up libnet-smtp-ssl-perl (1.04-1) ... Setting up libmailtools-perl (2.18-1) ... Setting up libemail-valid-perl (1.202-1) ... Setting up lintian (2.7.0) ... Setting up sbuild-build-depends-lintian-dummy:armel (0.invalid.0) ... Processing triggers for man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.28-7) ... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ anfo_0.98-7_armel.changes: -------------------------- Format: 1.8 Date: Mon, 15 Oct 2018 15:41:57 +0200 Source: anfo Binary: anfo anfo-dbgsym libanfo0 libanfo0-dbgsym libanfo0-dev Built-For-Profiles: cross nocheck Architecture: armel Version: 0.98-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: anfo - Short Read Aligner/Mapper from MPG libanfo0 - Library for Short Read Aligner/Mapper from MPG libanfo0-dev - Development files for Short Read Aligner/Mapper from MPG Changes: anfo (0.98-7) unstable; urgency=medium . * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 Checksums-Sha1: 8b0657fe59054aea3015750950d6d5f764b7781e 1445628 anfo-dbgsym_0.98-7_armel.deb 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8629043006bba2a0d8251a7b029c95bc010b7df543273abb7e81b01909197a13 230208 libanfo0_0.98-7_armel.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Fri, 15 Feb 2019 17:44:06 +0000 Build-Path: /<> Installed-Build-Depends: adduser (= 3.118), apt (= 1.8.0~rc3), autoconf (= 2.69-11), automake (= 1:1.16.1-4), autopoint (= 0.19.8.1-9), autotools-dev (= 20180224.1), base-files (= 10.1), base-passwd (= 3.5.46), bash (= 5.0-2), binutils (= 2.31.1-12), binutils-common (= 2.31.1-12), binutils-x86-64-linux-gnu (= 2.31.1-12), bsdmainutils (= 11.1.2+b1), bsdutils (= 1:2.33.1-0.1), build-essential (= 12.5), bzip2 (= 1.0.6-9), coreutils (= 8.30-1), cpp (= 4:8.2.0-2), cpp-8 (= 8.2.0-20), d-shlibs (= 0.84), dash (= 0.5.10.2-5), debconf (= 1.5.70), debhelper (= 12.1), debian-archive-keyring (= 2018.1), debianutils (= 4.8.6.1), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.1.1-1), diffutils (= 1:3.6-1), dpkg (= 1.19.4), dpkg-dev (= 1.19.4), dwz (= 0.12-3), fdisk (= 2.33.1-0.1), file (= 1:5.35-2), findutils (= 4.6.0+git+20190105-2), g++ (= 4:8.2.0-2), g++-8 (= 8.2.0-20), gcc (= 4:8.2.0-2), gcc-8 (= 8.2.0-20), gcc-8-base (= 8.2.0-20), gettext (= 0.19.8.1-9), gettext-base (= 0.19.8.1-9), gpgv (= 2.2.12-1), grep (= 3.3-1), groff-base (= 1.22.4-2), gzip (= 1.9-3), hostname (= 3.21), init-system-helpers (= 1.56+nmu1), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.52-4), libapt-pkg5.0 (= 1.8.0~rc3), libarchive-zip-perl (= 1.64-1), libasan5 (= 8.2.0-20), libatomic1 (= 8.2.0-20), libattr1 (= 1:2.4.47-3), libaudit-common (= 1:2.8.4-2), libaudit1 (= 1:2.8.4-2), libbinutils (= 2.31.1-12), libblkid1 (= 2.33.1-0.1), libbsd0 (= 0.9.1-1), libbz2-1.0 (= 1.0.6-9), libbz2-dev (= 1.0.6-9), libc-bin (= 2.28-7), libc-dev-bin (= 2.28-7), libc6 (= 2.28-7), libc6-dev (= 2.28-7), libcap-ng0 (= 0.7.9-2), libcc1-0 (= 8.2.0-20), libcroco3 (= 0.6.12-3), libdb5.3 (= 5.3.28+dfsg1-0.3), libdebconfclient0 (= 0.247), libdpkg-perl (= 1.19.4), libelf-dev (= 0.175-2), libelf1 (= 0.175-2), libelk0 (= 3.99.8-4.2+b1), libelk0-dev (= 3.99.8-4.2+b1), libfdisk1 (= 2.33.1-0.1), libffi6 (= 3.2.1-9), libfile-stripnondeterminism-perl (= 1.1.1-1), libgcc-8-dev (= 8.2.0-20), libgcc1 (= 1:8.2.0-20), libgcrypt20 (= 1.8.4-5), libgdbm-compat4 (= 1.18.1-3), libgdbm6 (= 1.18.1-3), libglib2.0-0 (= 2.58.3-1), libgmp10 (= 2:6.1.2+dfsg-4), libgnutls30 (= 3.6.6-2), libgomp1 (= 8.2.0-20), libgpg-error0 (= 1.35-1), libhogweed4 (= 3.4.1-1), libice-dev (= 2:1.0.9-2), libice6 (= 2:1.0.9-2), libicu63 (= 63.1-6), libidn2-0 (= 2.0.5-1), libisl19 (= 0.20-2), libitm1 (= 8.2.0-20), liblsan0 (= 8.2.0-20), liblz4-1 (= 1.8.3-1), liblzma5 (= 5.2.4-1), libmagic-mgc (= 1:5.35-2), libmagic1 (= 1:5.35-2), libmount1 (= 2.33.1-0.1), libmpc3 (= 1.1.0-1), libmpfr6 (= 4.0.2-1), libmpx2 (= 8.2.0-20), libncurses6 (= 6.1+20181013-2), libncursesw6 (= 6.1+20181013-2), libnettle6 (= 3.4.1-1), libp11-kit0 (= 0.23.14-2), libpam-modules (= 1.3.1-5), libpam-modules-bin (= 1.3.1-5), libpam-runtime (= 1.3.1-5), libpam0g (= 1.3.1-5), libpcre3 (= 2:8.39-11), libperl5.28 (= 5.28.1-4), libpipeline1 (= 1.5.1-2), libpopt-dev (= 1.16-12), libpopt0 (= 1.16-12), libprotobuf-dev (= 3.6.1.3-1), libprotobuf-lite17 (= 3.6.1.3-1), libprotobuf17 (= 3.6.1.3-1), libprotoc17 (= 3.6.1.3-1), libpthread-stubs0-dev (= 0.4-1), libquadmath0 (= 8.2.0-20), libseccomp2 (= 2.3.3-4), libselinux1 (= 2.8-1+b1), libsemanage-common (= 2.8-2), libsemanage1 (= 2.8-2), libsepol1 (= 2.8-1), libsigsegv2 (= 2.12-2), libsm-dev (= 2:1.2.3-1), libsm6 (= 2:1.2.3-1), libsmartcols1 (= 2.33.1-0.1), libstdc++-8-dev (= 8.2.0-20), libstdc++6 (= 8.2.0-20), libsystemd0 (= 240-5), libtasn1-6 (= 4.13-3), libtinfo6 (= 6.1+20181013-2), libtool (= 2.4.6-9), libtsan0 (= 8.2.0-20), libubsan1 (= 8.2.0-20), libuchardet0 (= 0.0.6-3), libudev1 (= 240-5), libunistring2 (= 0.9.10-1), libuuid1 (= 2.33.1-0.1), libx11-6 (= 2:1.6.7-1), libx11-data (= 2:1.6.7-1), libx11-dev (= 2:1.6.7-1), libxau-dev (= 1:1.0.8-1+b2), libxau6 (= 1:1.0.8-1+b2), libxcb1 (= 1.13.1-2), libxcb1-dev (= 1.13.1-2), libxdmcp-dev (= 1:1.1.2-3), libxdmcp6 (= 1:1.1.2-3), libxext-dev (= 2:1.3.3-1+b2), libxext6 (= 2:1.3.3-1+b2), libxml2 (= 2.9.4+dfsg1-7+b3), libxmu-dev (= 2:1.1.2-2), libxmu-headers (= 2:1.1.2-2), libxmu6 (= 2:1.1.2-2), libxt-dev (= 1:1.1.5-1), libxt6 (= 1:1.1.5-1), libzstd1 (= 1.3.8+dfsg-3), linux-libc-dev (= 4.19.20-1), login (= 1:4.5-1.1), lsb-base (= 10.2018112800), m4 (= 1.4.18-2), make (= 4.2.1-1.2), man-db (= 2.8.5-2), mawk (= 1.3.3-17+b3), ncurses-base (= 6.1+20181013-2), ncurses-bin (= 6.1+20181013-2), passwd (= 1:4.5-1.1), patch (= 2.7.6-3), perl (= 5.28.1-4), perl-base (= 5.28.1-4), perl-modules-5.28 (= 5.28.1-4), pkg-config (= 0.29-6), po-debconf (= 1.0.21), protobuf-compiler (= 3.6.1.3-1), sed (= 4.7-1), sensible-utils (= 0.0.12), sysvinit-utils (= 2.93-8), tar (= 1.30+dfsg-5), util-linux (= 2.33.1-0.1), x11-common (= 1:7.7+19), x11proto-core-dev (= 2018.4-4), x11proto-dev (= 2018.4-4), x11proto-xext-dev (= 2018.4-4), xorg-sgml-doctools (= 1:1.11-1), xtrans-dev (= 1.3.5-1), xz-utils (= 5.2.4-1), zlib1g (= 1:1.2.11.dfsg-1), zlib1g-dev (= 1:1.2.11.dfsg-1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="POSIX" SOURCE_DATE_EPOCH="1539610917" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ anfo-dbgsym_0.98-7_armel.deb ---------------------------- new Debian package, version 2.0. size 1445628 bytes: control archive=800 bytes. 562 bytes, 12 lines control 636 bytes, 6 lines md5sums Package: anfo-dbgsym Source: anfo Version: 0.98-7 Auto-Built-Package: debug-symbols Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 1513 Depends: anfo (= 0.98-7) Section: debug Priority: optional Description: debug symbols for anfo Build-Ids: 1e53dde74a33f1b14cf95e307b5e009b83a22c12 3465a6693d02ab7109efd06e10663ccbd987fcac b4b2f212e53469cdceab34db74832072d719f411 b87a0a1c1067c0ab98607d163e5b198c939a0110 d6df6fb2536726625f74e313014234e8aa0587d1 fb07e185eaefc448be71ebda0827c07da312180c drwxr-xr-x root/root 0 2018-10-15 13:41 ./ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/1e/ -rw-r--r-- root/root 190724 2018-10-15 13:41 ./usr/lib/debug/.build-id/1e/53dde74a33f1b14cf95e307b5e009b83a22c12.debug drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/34/ -rw-r--r-- root/root 290008 2018-10-15 13:41 ./usr/lib/debug/.build-id/34/65a6693d02ab7109efd06e10663ccbd987fcac.debug drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/b4/ -rw-r--r-- root/root 182920 2018-10-15 13:41 ./usr/lib/debug/.build-id/b4/b2f212e53469cdceab34db74832072d719f411.debug drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/b8/ -rw-r--r-- root/root 172480 2018-10-15 13:41 ./usr/lib/debug/.build-id/b8/7a0a1c1067c0ab98607d163e5b198c939a0110.debug drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/d6/ -rw-r--r-- root/root 561552 2018-10-15 13:41 ./usr/lib/debug/.build-id/d6/df6fb2536726625f74e313014234e8aa0587d1.debug drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/fb/ -rw-r--r-- root/root 132956 2018-10-15 13:41 ./usr/lib/debug/.build-id/fb/07e185eaefc448be71ebda0827c07da312180c.debug drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/ lrwxrwxrwx root/root 0 2018-10-15 13:41 ./usr/share/doc/anfo-dbgsym -> anfo anfo_0.98-7_armel.deb --------------------- new Debian package, version 2.0. size 103276 bytes: control archive=1496 bytes. 868 bytes, 16 lines control 1508 bytes, 24 lines md5sums Package: anfo Version: 0.98-7 Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 352 Depends: libanfo0, libbz2-1.0, libc6 (>= 2.27), libelk0, libgcc1 (>= 1:3.5), libpopt0 (>= 1.14), libprotobuf17, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4) Section: science Priority: optional Homepage: http://bioinf.eva.mpg.de/anfo/ Description: Short Read Aligner/Mapper from MPG Anfo is a mapper in the spirit of Soap/Maq/Bowtie, but its implementation takes more after BLAST/BLAT. It's most useful for the alignment of sequencing reads where the DNA sequence is somehow modified (think ancient DNA or bisulphite treatment) and/or there is more divergence between sample and reference than what fast mappers will handle gracefully (say the reference genome is missing and a related species is used instead). drwxr-xr-x root/root 0 2018-10-15 13:41 ./ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/bin/ -rwxr-xr-x root/root 34308 2018-10-15 13:41 ./usr/bin/anfo -rwxr-xr-x root/root 116756 2018-10-15 13:41 ./usr/bin/anfo-tool -rwxr-xr-x root/root 42500 2018-10-15 13:41 ./usr/bin/dnaindex -rwxr-xr-x root/root 30160 2018-10-15 13:41 ./usr/bin/fa2dna drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/anfo/ -rwxr-xr-x root/root 17924 2018-10-15 13:41 ./usr/lib/anfo/file-info -rwxr-xr-x root/root 26064 2018-10-15 13:41 ./usr/lib/anfo/index-test drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/anfo/ -rw-r--r-- root/root 6784 2018-10-15 13:41 ./usr/share/anfo/config.proto -rw-r--r-- root/root 14546 2018-10-15 13:41 ./usr/share/anfo/output.proto drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/anfo/ -rw-r--r-- root/root 909 2018-10-15 13:41 ./usr/share/doc/anfo/README.Debian -rw-r--r-- root/root 2441 2018-10-15 13:41 ./usr/share/doc/anfo/README.gz -rw-r--r-- root/root 1006 2018-10-15 13:41 ./usr/share/doc/anfo/changelog.Debian.gz -rw-r--r-- root/root 2550 2018-10-15 13:41 ./usr/share/doc/anfo/copyright drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/anfo/example/ -rw-r--r-- root/root 1807 2018-10-15 13:41 ./usr/share/doc/anfo/example/ancient.cfg -rw-r--r-- root/root 2056 2018-10-15 13:41 ./usr/share/doc/anfo/example/default.cfg -rw-r--r-- root/root 521 2018-10-15 13:41 ./usr/share/doc/anfo/example/split-anfo.scm -rw-r--r-- root/root 567 2018-10-15 13:41 ./usr/share/doc/anfo/example/threebam.scm drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/elk/ -rw-r--r-- root/root 9715 2018-10-15 13:41 ./usr/share/elk/anfo.scm -rw-r--r-- root/root 2593 2018-10-15 13:41 ./usr/share/elk/srfi-88.scm -rw-r--r-- root/root 12138 2018-10-15 13:41 ./usr/share/elk/srfi-89.scm drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/man/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/man/man1/ -rw-r--r-- root/root 4029 2018-10-15 13:41 ./usr/share/man/man1/anfo-tool.1.gz -rw-r--r-- root/root 1616 2018-10-15 13:41 ./usr/share/man/man1/anfo.1.gz -rw-r--r-- root/root 1684 2018-10-15 13:41 ./usr/share/man/man1/dnaindex.1.gz -rw-r--r-- root/root 1202 2018-10-15 13:41 ./usr/share/man/man1/fa2dna.1.gz -rw-r--r-- root/root 634 2018-10-15 13:41 ./usr/share/man/man1/file-info.1.gz libanfo0-dbgsym_0.98-7_armel.deb -------------------------------- new Debian package, version 2.0. size 3503972 bytes: control archive=536 bytes. 369 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: libanfo0-dbgsym Source: anfo Version: 0.98-7 Auto-Built-Package: debug-symbols Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 3610 Depends: libanfo0 (= 0.98-7) Section: debug Priority: optional Description: debug symbols for libanfo0 Build-Ids: 7490b95b478f987fc9b0e7f06e5d603b6589f463 drwxr-xr-x root/root 0 2018-10-15 13:41 ./ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/debug/.build-id/74/ -rw-r--r-- root/root 3685936 2018-10-15 13:41 ./usr/lib/debug/.build-id/74/90b95b478f987fc9b0e7f06e5d603b6589f463.debug drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/ lrwxrwxrwx root/root 0 2018-10-15 13:41 ./usr/share/doc/libanfo0-dbgsym -> libanfo0 libanfo0-dev_0.98-7_armel.deb ----------------------------- new Debian package, version 2.0. size 325448 bytes: control archive=1404 bytes. 1007 bytes, 22 lines control 1164 bytes, 18 lines md5sums Package: libanfo0-dev Source: anfo Version: 0.98-7 Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 1853 Depends: libanfo0 (= 0.98-7), libbz2-dev, libelk0-dev, libpopt-dev, libprotobuf-dev, zlib1g-dev Conflicts: libanfo-dev Provides: libanfo-dev Section: libdevel Priority: optional Homepage: http://bioinf.eva.mpg.de/anfo/ Description: Development files for Short Read Aligner/Mapper from MPG Anfo is a mapper in the spirit of Soap/Maq/Bowtie, but its implementation takes more after BLAST/BLAT. It's most useful for the alignment of sequencing reads where the DNA sequence is somehow modified (think ancient DNA or bisulphite treatment) and/or there is more divergence between sample and reference than what fast mappers will handle gracefully (say the reference genome is missing and a related species is used instead). . This package contains the development files that might be used in connection with the anfo binaries. drwxr-xr-x root/root 0 2018-10-15 13:41 ./ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/include/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/include/anfo/ -rw-r--r-- root/root 14361 2018-10-15 13:41 ./usr/include/anfo/align.h -rw-r--r-- root/root 2595 2018-10-15 13:41 ./usr/include/anfo/align_fwd.h -rw-r--r-- root/root 3399 2018-10-15 13:41 ./usr/include/anfo/anfo_common.h -rw-r--r-- root/root 11973 2018-10-15 13:41 ./usr/include/anfo/compress_stream.h -rw-r--r-- root/root 4906 2018-10-15 13:41 ./usr/include/anfo/concurrent_stream.h -rw-r--r-- root/root 2979 2018-10-15 13:41 ./usr/include/anfo/conffile.h -rw-r--r-- root/root 5051 2018-10-15 13:41 ./usr/include/anfo/ducttape.h -rw-r--r-- root/root 17630 2018-10-15 13:41 ./usr/include/anfo/index.h -rw-r--r-- root/root 5881 2018-10-15 13:41 ./usr/include/anfo/logdom.h -rw-r--r-- root/root 22028 2018-10-15 13:41 ./usr/include/anfo/misc_streams.h -rw-r--r-- root/root 5942 2018-10-15 13:41 ./usr/include/anfo/output_streams.h -rw-r--r-- root/root 14774 2018-10-15 13:41 ./usr/include/anfo/sequence.h -rw-r--r-- root/root 30889 2018-10-15 13:41 ./usr/include/anfo/stream.h -rw-r--r-- root/root 5292 2018-10-15 13:41 ./usr/include/anfo/trim.h -rw-r--r-- root/root 9473 2018-10-15 13:41 ./usr/include/anfo/util.h drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/arm-linux-gnueabi/ -rw-r--r-- root/root 1716290 2018-10-15 13:41 ./usr/lib/arm-linux-gnueabi/libanfo.a lrwxrwxrwx root/root 0 2018-10-15 13:41 ./usr/lib/arm-linux-gnueabi/libanfo.so -> libanfo.so.0.0.0 drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/libanfo0-dev/ -rw-r--r-- root/root 1006 2018-10-15 13:41 ./usr/share/doc/libanfo0-dev/changelog.Debian.gz -rw-r--r-- root/root 2550 2018-10-15 13:41 ./usr/share/doc/libanfo0-dev/copyright libanfo0_0.98-7_armel.deb ------------------------- new Debian package, version 2.0. size 230208 bytes: control archive=1080 bytes. 953 bytes, 19 lines control 221 bytes, 3 lines md5sums 19 bytes, 1 lines shlibs 65 bytes, 2 lines triggers Package: libanfo0 Source: anfo Version: 0.98-7 Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 781 Depends: libbz2-1.0, libc6 (>= 2.27), libelk0, libgcc1 (>= 1:3.5), libpopt0 (>= 1.14), libprotobuf17, libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.0) Section: libs Priority: optional Homepage: http://bioinf.eva.mpg.de/anfo/ Description: Library for Short Read Aligner/Mapper from MPG Anfo is a mapper in the spirit of Soap/Maq/Bowtie, but its implementation takes more after BLAST/BLAT. It's most useful for the alignment of sequencing reads where the DNA sequence is somehow modified (think ancient DNA or bisulphite treatment) and/or there is more divergence between sample and reference than what fast mappers will handle gracefully (say the reference genome is missing and a related species is used instead). . This package contains the dynamic library for the anfo binaries. drwxr-xr-x root/root 0 2018-10-15 13:41 ./ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/lib/arm-linux-gnueabi/ lrwxrwxrwx root/root 0 2018-10-15 13:41 ./usr/lib/arm-linux-gnueabi/libanfo.so.0 -> libanfo.so.0.0.0 -rw-r--r-- root/root 784160 2018-10-15 13:41 ./usr/lib/arm-linux-gnueabi/libanfo.so.0.0.0 drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-10-15 13:41 ./usr/share/doc/libanfo0/ -rw-r--r-- root/root 1006 2018-10-15 13:41 ./usr/share/doc/libanfo0/changelog.Debian.gz -rw-r--r-- root/root 2550 2018-10-15 13:41 ./usr/share/doc/libanfo0/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 109236 Build-Time: 199 Distribution: unstable Foreign Architectures: armel Host Architecture: armel Install-Time: 24 Job: anfo_0.98-7 Lintian: pass Machine Architecture: amd64 Package: anfo Package-Time: 233 Source-Version: 0.98-7 Space: 109236 Status: successful Version: 0.98-7 -------------------------------------------------------------------------------- Finished at 2019-02-15T17:44:07Z Build needed 00:03:53, 109236k disk space