libgclib →
0.11.10+ds-2 →
armhf → 2020-12-08 01:52:09
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on testbuildd
+==============================================================================+
| libgclib 0.11.10+ds-2 (armhf) Tue, 08 Dec 2020 01:41:20 +0000 |
+==============================================================================+
Package: libgclib
Version: 0.11.10+ds-2
Source Version: 0.11.10+ds-2
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-515acc07-2326-4ad1-91de-c41b5449fdc5' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
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Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.9 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.9 MB]
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Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
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| Fetch source files |
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Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'libgclib' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/libgclib.git
Please use:
git clone https://salsa.debian.org/med-team/libgclib.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 208 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main libgclib 0.11.10+ds-2 (dsc) [2176 B]
Get:2 http://172.17.0.1/private bullseye-staging/main libgclib 0.11.10+ds-2 (tar) [193 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main libgclib 0.11.10+ds-2 (diff) [13.0 kB]
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Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/libgclib-qfY4NA/libgclib-0.11.10+ds' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/libgclib-qfY4NA' with '<<BUILDDIR>>'
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| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-ruWezH/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.
gpg: keybox '/<<BUILDDIR>>/resolver-ruWezH/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-ruWezH/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ Packages [431 B]
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Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
bsdextrautils krb5-locales netbase sensible-utils
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 59 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
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Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), d-shlibs
Filtered Build-Depends: debhelper-compat (= 13), d-shlibs
dpkg-deb: building package 'sbuild-build-depends-libgclib-dummy' in '/<<BUILDDIR>>/resolver-ruWezH/apt_archive/sbuild-build-depends-libgclib-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-libgclib-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ Sources [499 B]
Get:5 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ Packages [578 B]
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Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install libgclib build dependencies (apt-based resolver)
--------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
krb5-locales netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev d-shlibs debhelper dh-autoreconf
dh-strip-nondeterminism dwz file gettext gettext-base groff-base
intltool-debian libarchive-zip-perl libcroco3 libdebhelper-perl libelf1
libfile-stripnondeterminism-perl libglib2.0-0 libicu67 libmagic-mgc
libmagic1 libpipeline1 libsigsegv2 libsub-override-perl libtool libuchardet0
libxml2 m4 man-db po-debconf
Suggested packages:
autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc
libasprintf-dev libgettextpo-dev groff libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev d-shlibs debhelper dh-autoreconf
dh-strip-nondeterminism dwz file gettext gettext-base groff-base
intltool-debian libarchive-zip-perl libcroco3 libdebhelper-perl libelf1
libfile-stripnondeterminism-perl libglib2.0-0 libicu67 libmagic-mgc
libmagic1 libpipeline1 libsigsegv2 libsub-override-perl libtool libuchardet0
libxml2 m4 man-db po-debconf sbuild-build-depends-libgclib-dummy
0 upgraded, 33 newly installed, 0 to remove and 59 not upgraded.
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Get:1 copy:/<<BUILDDIR>>/resolver-ruWezH/apt_archive ./ sbuild-build-depends-libgclib-dummy 0.invalid.0 [860 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.3-1 [29.9 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.3-2 [1269 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-5 [262 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-5 [113 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-5 [67.0 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-4 [801 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf d-shlibs all 0.95 [17.8 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.2.1 [188 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.9.0-1 [25.5 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.9.0-1 [15.2 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.182-1 [162 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.66.3-2 [1178 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libicu67 armhf 67.1-4 [8289 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-6.3 [580 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.2.1 [1007 kB]
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update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
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W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.6-armmp armhf (armv7l)
Toolchain package versions: binutils_2.35.1-2+rpi1 dpkg-dev_1.20.5+rpi1 g++-10_10.2.0-16+rpi1 gcc-10_10.2.0-16+rpi1 libc6-dev_2.31-4+rpi1 libstdc++-10-dev_10.2.0-16+rpi1 libstdc++6_10.2.0-16+rpi1 linux-libc-dev_5.7.10-1+rpi1
Package versions: adduser_3.118 apt_2.1.11 aptitude_0.8.13-2 aptitude-common_0.8.13-2 autoconf_2.69-11.1 automake_1:1.16.2-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.48 bash_5.1~rc2-1 binutils_2.35.1-2+rpi1 binutils-arm-linux-gnueabihf_2.35.1-2+rpi1 binutils-common_2.35.1-2+rpi1 bsdextrautils_2.36-3 bsdutils_1:2.36-3 build-essential_12.8 bzip2_1.0.8-4 coreutils_8.32-4 cpp_4:10.2.0-1+rpi1 cpp-10_10.2.0-16+rpi1 d-shlibs_0.95 dash_0.5.11+git20200708+dd9ef66-2 debconf_1.5.74 debhelper_13.2.1 debianutils_4.11.2 dh-autoreconf_19 dh-strip-nondeterminism_1.9.0-1 diffutils_1:3.7-3 dirmngr_2.2.20-1 dpkg_1.20.5+rpi1 dpkg-dev_1.20.5+rpi1 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.25.3-1 file_1:5.38-5 findutils_4.7.0+git20201010-2 g++_4:10.2.0-1+rpi1 g++-10_10.2.0-16+rpi1 gcc_4:10.2.0-1+rpi1 gcc-10_10.2.0-16+rpi1 gcc-10-base_10.2.0-16+rpi1 gcc-6-base_6.5.0-1+rpi3 gcc-7-base_7.5.0-6+rpi1+b1 gcc-8-base_8.4.0-4+rpi1+b1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.20-1 gnupg-l10n_2.2.20-1 gnupg-utils_2.2.20-1 gpg_2.2.20-1 gpg-agent_2.2.20-1 gpg-wks-client_2.2.20-1 gpg-wks-server_2.2.20-1 gpgconf_2.2.20-1 gpgsm_2.2.20-1 gpgv_2.2.20-1 grep_3.6-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 init-system-helpers_1.58 intltool-debian_0.35.0+20060710.5 krb5-locales_1.17-10 libacl1_2.2.53-8 libapt-pkg6.0_2.1.11 libarchive-zip-perl_1.68-1 libasan6_10.2.0-16+rpi1 libassuan0_2.5.3-7.1 libatomic1_10.2.0-16+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3.1 libaudit1_1:2.8.5-3.1 libbinutils_2.35.1-2+rpi1 libblkid1_2.36-3 libboost-iostreams1.71.0_1.71.0-7 libbz2-1.0_1.0.8-4 libc-bin_2.31-4+rpi1 libc-dev-bin_2.31-4+rpi1 libc6_2.31-4+rpi1 libc6-dev_2.31-4+rpi1 libcap-ng0_0.7.9-2.2 libcc1-0_10.2.0-16+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.17-1 libcrypt1_1:4.4.17-1 libctf-nobfd0_2.35.1-2+rpi1 libctf0_2.35.1-2+rpi1 libcwidget4_0.5.18-5 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.255 libdebhelper-perl_13.2.1 libdpkg-perl_1.20.5+rpi1 libelf1_0.182-1 libext2fs2_1.45.6-1 libfakeroot_1.25.3-1 libffi7_3.3-5 libfile-stripnondeterminism-perl_1.9.0-1 libgcc-10-dev_10.2.0-16+rpi1 libgcc-s1_10.2.0-16+rpi1 libgcrypt20_1.8.7-2 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libglib2.0-0_2.66.3-2 libgmp10_2:6.2.0+dfsg-6 libgnutls30_3.6.15-4 libgomp1_10.2.0-16+rpi1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.17-10+b3 libhogweed6_3.6-2 libicu67_67.1-4 libidn2-0_2.3.0-3 libisl22_0.22.1-1 libk5crypto3_1.17-10+b3 libkeyutils1_1.6.1-2 libkrb5-3_1.17-10+b3 libkrb5support0_1.17-10+b3 libksba8_1.4.0-2 libldap-2.4-2_2.4.56+dfsg-1+rpi1 libldap-common_2.4.56+dfsg-1+rpi1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.36-3 libmpc3_1.2.0-1 libmpfr6_4.1.0-3 libncursesw6_6.2+20200918-1 libnettle8_3.6-2 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnss-nis_3.1-4 libnss-nisplus_1.3-4 libp11-kit0_0.23.21-2 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-13 libperl5.32_5.32.0-5 libpipeline1_1.5.3-1 libreadline8_8.1~rc2-2 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.5.0-3+rpi1 libselinux1_3.1-2 libsemanage-common_3.1-1 libsemanage1_3.1-1 libsepol1_3.1-1 libsigc++-2.0-0v5_2.10.4-2 libsigsegv2_2.12-2 libsmartcols1_2.36-3 libsqlite3-0_3.33.0-1 libss2_1.45.6-1 libssl1.1_1.1.1h-1 libstdc++-10-dev_10.2.0-16+rpi1 libstdc++6_10.2.0-16+rpi1 libsub-override-perl_0.09-2 libsystemd0_246.6-2+rpi1 libtasn1-6_4.16.0-2 libtinfo6_6.2+20200918-1 libtirpc-common_1.2.6-3 libtirpc-dev_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libubsan1_10.2.0-16+rpi1 libuchardet0_0.0.7-1 libudev1_246.6-2+rpi1 libunistring2_0.9.10-4 libuuid1_2.36-3 libxapian30_1.4.17-1 libxml2_2.9.10+dfsg-6.3 libzstd1_1.4.5+dfsg-4+rpi1 linux-libc-dev_5.7.10-1+rpi1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.3-4 man-db_2.9.3-2 mawk_1.3.4.20200120-2 mount_2.36-3 ncurses-base_6.2+20200918-1 ncurses-bin_6.2+20200918-1 netbase_6.2 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.32.0-5 perl-base_5.32.0-5 perl-modules-5.32_5.32.0-5 pinentry-curses_1.1.0-4 po-debconf_1.0.21 raspbian-archive-keyring_20120528.2 readline-common_8.1~rc2-2 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-libgclib-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-5 tar_1.30+dfsg-7 tzdata_2020d-1 util-linux_2.36-3 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.fCmQ3Pa9/trustedkeys.kbx': General error
gpgv: Signature made Mon Oct 26 09:56:50 2020 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 ./libgclib_0.11.10+ds-2.dsc
dpkg-source: info: extracting libgclib in /<<BUILDDIR>>/libgclib-0.11.10+ds
dpkg-source: info: unpacking libgclib_0.11.10+ds.orig.tar.gz
dpkg-source: info: unpacking libgclib_0.11.10+ds-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying autoconf.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-515acc07-2326-4ad1-91de-c41b5449fdc5
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package libgclib
dpkg-buildpackage: info: source version 0.11.10+ds-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
if [ -r Makefile -a -r Makefile.am ]; then dh_auto_clean; fi
rm -f Makefile Makefile.in aclocal.m4 config.h.in configure debian/autoreconf.after debian/autoreconf.before
find . -name "*.o" -delete
make[1]: Leaving directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
dh_clean
debian/rules binary-arch
dh binary-arch
dh_update_autotools_config -a
dh_autoreconf -a
aclocal: warning: couldn't open directory 'config': No such file or directory
libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'.
libtoolize: copying file 'config/ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'config'.
libtoolize: copying file 'config/libtool.m4'
libtoolize: copying file 'config/ltoptions.m4'
libtoolize: copying file 'config/ltsugar.m4'
libtoolize: copying file 'config/ltversion.m4'
libtoolize: copying file 'config/lt~obsolete.m4'
libtoolize: Consider adding '-I config' to ACLOCAL_AMFLAGS in Makefile.am.
configure.ac:30: installing 'config/compile'
configure.ac:30: installing 'config/config.guess'
configure.ac:30: installing 'config/config.sub'
configure.ac:18: installing 'config/install-sh'
configure.ac:18: installing 'config/missing'
Makefile.am: installing 'config/depcomp'
dh_auto_configure -a
./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
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 whether UID '104' is supported by ustar format... yes
checking whether GID '109' is supported by ustar format... yes
checking how to create a ustar tar archive... gnutar
checking whether ln -s works... yes
checking build system type... arm-unknown-linux-gnueabihf
checking host system type... arm-unknown-linux-gnueabihf
checking how to print strings... printf
checking whether make supports the include directive... yes (GNU style)
checking for gcc... 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... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of 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 gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking the maximum length of command line arguments... 1572864
checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop
checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from 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 mt... no
checking if : is a manifest tool... no
checking how to run the C preprocessor... 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 gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/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 g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... none
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
./configure: line 15960: AX_CXXFLAGS: command not found
checking for ANSI C header files... (cached) yes
checking for stdlib.h... (cached) yes
checking whether make sets $(MAKE)... (cached) yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating libgclib.pc
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
dh_auto_build -a
make -j4
make[1]: Entering directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
make all-am
make[2]: Entering directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o mdtest.o mdtest.cpp
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-codons.lo `test -f 'codons.cpp' || echo './'`codons.cpp
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GAlnExtend.lo `test -f 'GAlnExtend.cpp' || echo './'`GAlnExtend.cpp
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GapAssem.lo `test -f 'GapAssem.cpp' || echo './'`GapAssem.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GapAssem.cpp -fPIC -DPIC -o .libs/libgclib_la-GapAssem.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c codons.cpp -fPIC -DPIC -o .libs/libgclib_la-codons.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GAlnExtend.cpp -fPIC -DPIC -o .libs/libgclib_la-GAlnExtend.o
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GArgs.lo `test -f 'GArgs.cpp' || echo './'`GArgs.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c codons.cpp -o libgclib_la-codons.o >/dev/null 2>&1
GAlnExtend.cpp:21:2: warning: extra ‘;’ [-Wpedantic]
21 | };
| ^
GAlnExtend.cpp:27:2: warning: extra ‘;’ [-Wpedantic]
27 | };
| ^
GAlnExtend.cpp:39:2: warning: extra ‘;’ [-Wpedantic]
39 | };
| ^
GAlnExtend.cpp:45:2: warning: extra ‘;’ [-Wpedantic]
45 | };
| ^
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GArgs.cpp -fPIC -DPIC -o .libs/libgclib_la-GArgs.o
In file included from GList.hh:8,
from GAlnExtend.h:7,
from GAlnExtend.cpp:1:
GVec.hh: In instantiation of ‘void GVec<OBJ>::setCapacity(int) [with OBJ = CSeqGap]’:
GVec.hh:202:3: required from ‘GVec<OBJ>::GVec(int) [with OBJ = CSeqGap]’
GAlnExtend.h:347:86: required from here
GVec.hh:291:15: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class CSeqGap’; use assignment or value-initialization instead [-Wclass-memaccess]
291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from GAlnExtend.cpp:1:
GAlnExtend.h:329:7: note: ‘class CSeqGap’ declared here
329 | class CSeqGap { //
| ^~~~~~~
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GBase.lo `test -f 'GBase.cpp' || echo './'`GBase.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GBase.cpp -fPIC -DPIC -o .libs/libgclib_la-GBase.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GArgs.cpp -o libgclib_la-GArgs.o >/dev/null 2>&1
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GAlnExtend.cpp -o libgclib_la-GAlnExtend.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-gcdb.lo `test -f 'gcdb.cpp' || echo './'`gcdb.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gcdb.cpp -fPIC -DPIC -o .libs/libgclib_la-gcdb.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GapAssem.cpp -o libgclib_la-GapAssem.o >/dev/null 2>&1
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GBase.cpp -o libgclib_la-GBase.o >/dev/null 2>&1
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gcdb.cpp -o libgclib_la-gcdb.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GCdbYank.lo `test -f 'GCdbYank.cpp' || echo './'`GCdbYank.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GCdbYank.cpp -fPIC -DPIC -o .libs/libgclib_la-GCdbYank.o
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-gdna.lo `test -f 'gdna.cpp' || echo './'`gdna.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gdna.cpp -fPIC -DPIC -o .libs/libgclib_la-gdna.o
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GFaSeqGet.lo `test -f 'GFaSeqGet.cpp' || echo './'`GFaSeqGet.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GFaSeqGet.cpp -fPIC -DPIC -o .libs/libgclib_la-GFaSeqGet.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GCdbYank.cpp -o libgclib_la-GCdbYank.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GFastaIndex.lo `test -f 'GFastaIndex.cpp' || echo './'`GFastaIndex.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gdna.cpp -o libgclib_la-gdna.o >/dev/null 2>&1
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GFastaIndex.cpp -fPIC -DPIC -o .libs/libgclib_la-GFastaIndex.o
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-gff.lo `test -f 'gff.cpp' || echo './'`gff.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gff.cpp -fPIC -DPIC -o .libs/libgclib_la-gff.o
GFastaIndex.cpp: In member function ‘int GFastaIndex::loadIndex(const char*)’:
GFastaIndex.cpp:55:22: warning: format ‘%d’ expects argument of type ‘int*’, but argument 3 has type ‘uint*’ {aka ‘unsigned int*’} [-Wformat=]
55 | sscanf(p, "%d%lld%d%d", &len, &offset, &line_len, &line_blen);
| ~^ ~~~~
| | |
| int* uint* {aka unsigned int*}
| %d
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-gsocket.lo `test -f 'gsocket.cpp' || echo './'`gsocket.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GFaSeqGet.cpp -o libgclib_la-GFaSeqGet.o >/dev/null 2>&1
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gsocket.cpp -fPIC -DPIC -o .libs/libgclib_la-gsocket.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GFastaIndex.cpp -o libgclib_la-GFastaIndex.o >/dev/null 2>&1
In file included from gff.cpp:1:
gff.h:229:13: warning: ISO C++ prohibits anonymous structs [-Wpedantic]
229 | struct {
| ^
gff.h:232:13: warning: ISO C++ prohibits anonymous structs [-Wpedantic]
232 | struct {
| ^
gff.h:328:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic]
328 | struct {
| ^
gff.h:691:14: warning: ISO C++ prohibits anonymous structs [-Wpedantic]
691 | struct {
| ^
gff.h:1150:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic]
1150 | struct {
| ^
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gsocket.cpp -o libgclib_la-gsocket.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-gstopwatch.lo `test -f 'gstopwatch.cpp' || echo './'`gstopwatch.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gstopwatch.cpp -fPIC -DPIC -o .libs/libgclib_la-gstopwatch.o
In file included from GList.hh:8,
from GFastaIndex.h:12,
from GFaSeqGet.h:3,
from gff.h:9,
from gff.cpp:1:
GVec.hh: In instantiation of ‘void GVec<OBJ>::setCapacity(int) [with OBJ = GMapSeg]’:
GVec.hh:202:3: required from ‘GVec<OBJ>::GVec(int) [with OBJ = GMapSeg]’
gff.h:127:50: required from here
GVec.hh:291:15: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class GMapSeg’; use assignment or value-initialization instead [-Wclass-memaccess]
291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from gff.cpp:1:
gff.h:70:7: note: ‘class GMapSeg’ declared here
70 | class GMapSeg:public GSeg {
| ^~~~~~~
In file included from GList.hh:8,
from GFastaIndex.h:12,
from GFaSeqGet.h:3,
from gff.h:9,
from gff.cpp:1:
GVec.hh: In instantiation of ‘void GVec<OBJ>::setCapacity(int) [with OBJ = GSeg]’:
GVec.hh:202:3: required from ‘GVec<OBJ>::GVec(int) [with OBJ = GSeg]’
gff.h:311:92: required from here
GVec.hh:291:15: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class GSeg’; use assignment or value-initialization instead [-Wclass-memaccess]
291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from gff.h:6,
from gff.cpp:1:
GBase.h:308:7: note: ‘class GSeg’ declared here
308 | class GSeg {
| ^~~~
In file included from GList.hh:8,
from GFastaIndex.h:12,
from GFaSeqGet.h:3,
from gff.h:9,
from gff.cpp:1:
GVec.hh: In instantiation of ‘void GVec<OBJ>::setCapacity(int) [with OBJ = GeneCDS]’:
GVec.hh:202:3: required from ‘GVec<OBJ>::GVec(int) [with OBJ = GeneCDS]’
gff.h:1351:31: required from here
GVec.hh:291:15: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class GeneCDS’; use assignment or value-initialization instead [-Wclass-memaccess]
291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from gff.cpp:1:
gff.h:1340:7: note: ‘class GeneCDS’ declared here
1340 | class GeneCDS: public GSeg {
| ^~~~~~~
In file included from GList.hh:8,
from GFastaIndex.h:12,
from GFaSeqGet.h:3,
from gff.h:9,
from gff.cpp:1:
GVec.hh: In instantiation of ‘void GVec<OBJ>::setCapacity(int) [with OBJ = GffExon]’:
GVec.hh:202:3: required from ‘GVec<OBJ>::GVec(int) [with OBJ = GffExon]’
gff.cpp:2315:16: required from here
GVec.hh:291:15: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class GffExon’; use assignment or value-initialization instead [-Wclass-memaccess]
291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from gff.cpp:1:
gff.h:629:7: note: ‘class GffExon’ declared here
629 | class GffExon : public GSeg {
| ^~~~~~~
In file included from GList.hh:8,
from GFastaIndex.h:12,
from GFaSeqGet.h:3,
from gff.h:9,
from gff.cpp:1:
GVec.hh: In instantiation of ‘void GVec<OBJ>::setCapacity(int) [with OBJ = GSegMatch]’:
GVec.hh:202:3: required from ‘GVec<OBJ>::GVec(int) [with OBJ = GSegMatch]’
GList.hh:191:76: required from ‘GArray<OBJ>::GArray(int (*)(pointer, pointer)) [with OBJ = GSegMatch; GCompareProc = int(void*, void*); pointer = void*]’
gff.h:1351:31: required from here
GVec.hh:291:15: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class GSegMatch’; use assignment or value-initialization instead [-Wclass-memaccess]
291 | memset(fArray+fCount, 0, (NewCapacity-fCount)*sizeof(OBJ));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from gff.cpp:1:
gff.h:1328:7: note: ‘class GSegMatch’ declared here
1328 | class GSegMatch { //keep track of "matching" overlaps of a GeneCDSChain with multiple GeneSegment containers
| ^~~~~~~~~
In file included from GList.hh:8,
from GFastaIndex.h:12,
from GFaSeqGet.h:3,
from gff.h:9,
from gff.cpp:1:
GVec.hh: In instantiation of ‘void GVec<OBJ>::Grow(int, OBJ&) [with OBJ = GSegMatch]’:
GVec.hh:437:9: required from ‘void GVec<OBJ>::Insert(int, OBJ*) [with OBJ = GSegMatch]’
GVec.hh:69:44: required from ‘void GVec<OBJ>::Insert(int, OBJ) [with OBJ = GSegMatch]’
GList.hh:234:21: required from ‘int GArray<OBJ>::Add(OBJ*) [with OBJ = GSegMatch]’
GList.hh:51:36: required from ‘int GArray<OBJ>::Add(OBJ&) [with OBJ = GSegMatch]’
gff.h:1364:22: required from here
GVec.hh:358:15: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class GSegMatch’; use assignment or value-initialization instead [-Wclass-memaccess]
358 | memset(&newList[fCount+1], 0, (NewCapacity-fCount-1)*sizeof(OBJ));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from gff.cpp:1:
gff.h:1328:7: note: ‘class GSegMatch’ declared here
1328 | class GSegMatch { //keep track of "matching" overlaps of a GeneCDSChain with multiple GeneSegment containers
| ^~~~~~~~~
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GStr.lo `test -f 'GStr.cpp' || echo './'`GStr.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GStr.cpp -fPIC -DPIC -o .libs/libgclib_la-GStr.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gstopwatch.cpp -o libgclib_la-gstopwatch.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c -o libgclib_la-GThreads.lo `test -f 'GThreads.cpp' || echo './'`GThreads.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GThreads.cpp -fPIC -DPIC -o .libs/libgclib_la-GThreads.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GThreads.cpp -o libgclib_la-GThreads.o >/dev/null 2>&1
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c GStr.cpp -o libgclib_la-GStr.o >/dev/null 2>&1
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -c gff.cpp -o libgclib_la-gff.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -version-info 2:0 -lpthread -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -Wl,-flto -o libgclib.la -rpath /usr/lib/arm-linux-gnueabihf libgclib_la-codons.lo libgclib_la-GAlnExtend.lo libgclib_la-GapAssem.lo libgclib_la-GArgs.lo libgclib_la-GBase.lo libgclib_la-gcdb.lo libgclib_la-GCdbYank.lo libgclib_la-gdna.lo libgclib_la-GFaSeqGet.lo libgclib_la-GFastaIndex.lo libgclib_la-gff.lo libgclib_la-gsocket.lo libgclib_la-gstopwatch.lo libgclib_la-GStr.lo libgclib_la-GThreads.lo
libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o .libs/libgclib_la-codons.o .libs/libgclib_la-GAlnExtend.o .libs/libgclib_la-GapAssem.o .libs/libgclib_la-GArgs.o .libs/libgclib_la-GBase.o .libs/libgclib_la-gcdb.o .libs/libgclib_la-GCdbYank.o .libs/libgclib_la-gdna.o .libs/libgclib_la-GFaSeqGet.o .libs/libgclib_la-GFastaIndex.o .libs/libgclib_la-gff.o .libs/libgclib_la-gsocket.o .libs/libgclib_la-gstopwatch.o .libs/libgclib_la-GStr.o .libs/libgclib_la-GThreads.o -lpthread -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -flto -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -Wl,-flto -Wl,-soname -Wl,libgclib.so.2 -o .libs/libgclib.so.2.0.0
GVec.hh: In member function 'setCapacity':
GVec.hh:295:10: warning: argument 1 value '4294967295' exceeds maximum object size 2147483647 [-Walloc-size-larger-than=]
295 | fArray=new OBJ[NewCapacity];
| ^
GVec.hh:295:10: note: in a call to built-in allocation function 'operator new []'
libtool: link: (cd ".libs" && rm -f "libgclib.so.2" && ln -s "libgclib.so.2.0.0" "libgclib.so.2")
libtool: link: (cd ".libs" && rm -f "libgclib.so" && ln -s "libgclib.so.2.0.0" "libgclib.so")
libtool: link: ar cr .libs/libgclib.a libgclib_la-codons.o libgclib_la-GAlnExtend.o libgclib_la-GapAssem.o libgclib_la-GArgs.o libgclib_la-GBase.o libgclib_la-gcdb.o libgclib_la-GCdbYank.o libgclib_la-gdna.o libgclib_la-GFaSeqGet.o libgclib_la-GFastaIndex.o libgclib_la-gff.o libgclib_la-gsocket.o libgclib_la-gstopwatch.o libgclib_la-GStr.o libgclib_la-GThreads.o
libtool: link: ranlib .libs/libgclib.a
libtool: link: ( cd ".libs" && rm -f "libgclib.la" && ln -s "../libgclib.la" "libgclib.la" )
/bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -Wl,-flto -o mdtest mdtest.o libgclib.la
libtool: link: g++ -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libgclib-0.11.10+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -flto -fPIC -D_FILE_OFFSET_BITS=64 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -Wl,-flto -o .libs/mdtest mdtest.o ./.libs/libgclib.so
make[2]: Leaving directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
make[1]: Leaving directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
./mdtest 7TEST^BCT
7 matching bases
base mismatch [T]
base mismatch [E]
base mismatch [S]
base mismatch [T]
3 base(s) deletion [BCT]
make[1]: Leaving directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
create-stamp debian/debhelper-build-stamp
dh_testroot -a
dh_prep -a
dh_auto_install -a
make -j1 install DESTDIR=/<<BUILDDIR>>/libgclib-0.11.10\+ds/debian/tmp AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
make[2]: Entering directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
/bin/mkdir -p '/<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf'
/bin/bash ./libtool --mode=install /usr/bin/install -c libgclib.la '/<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/libgclib.so.2.0.0 /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.so.2.0.0
libtool: install: (cd /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libgclib.so.2.0.0 libgclib.so.2 || { rm -f libgclib.so.2 && ln -s libgclib.so.2.0.0 libgclib.so.2; }; })
libtool: install: (cd /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libgclib.so.2.0.0 libgclib.so || { rm -f libgclib.so && ln -s libgclib.so.2.0.0 libgclib.so; }; })
libtool: install: /usr/bin/install -c .libs/libgclib.lai /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.la
libtool: install: /usr/bin/install -c .libs/libgclib.a /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.a
libtool: install: chmod 644 /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.a
libtool: install: ranlib /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.a
libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf'
/bin/mkdir -p '/<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/bin'
/bin/bash ./libtool --mode=install /usr/bin/install -c mdtest '/<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/bin'
libtool: warning: 'libgclib.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/mdtest /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/bin/mdtest
/bin/mkdir -p '/<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/include'
/usr/bin/install -c -m 644 GAlnExtend.h GArgs.h GBam.h GBase.h GBitVec.h GCdbYank.h GFaSeqGet.h GFastaFile.h GFastaIndex.h GResUsage.h GStr.h GThreads.h GapAssem.h codons.h config.h gcdb.h gdimg.h gdna.h gff.h gsocket.h gstopwatch.h proc_mem.h GHash.hh GIntHash.hh GList.hh GVec.hh '/<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/include'
/bin/mkdir -p '/<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/usr/bin/install -c -m 644 libgclib.pc '/<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
make[2]: Leaving directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
make[1]: Leaving directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
debian/rules override_dh_install
make[1]: Entering directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
dh_install
d-shlibmove --commit \
--multiarch \
--devunversioned \
--exclude-la \
--movedev debian/tmp/usr/include usr \
--movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" usr/lib/arm-linux-gnueabihf/pkgconfig \
debian/tmp/usr/lib/*/*.so
Library package automatic movement utility
set -e
install -d -m 755 debian/libgclib-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libgclib2/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.a debian/libgclib-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.so debian/libgclib-dev/usr/lib/arm-linux-gnueabihf
mv /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.so.2 debian/libgclib2/usr/lib/arm-linux-gnueabihf
mv /<<BUILDDIR>>/libgclib-0.11.10+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libgclib.so.2.0.0 debian/libgclib2/usr/lib/arm-linux-gnueabihf
PKGDEV=libgclib-dev
PKGSHL=libgclib2
install -d -m 755 debian/libgclib-dev/usr
mv debian/tmp/usr/include debian/libgclib-dev/usr
install -d -m 755 debian/libgclib-dev/usr/lib/arm-linux-gnueabihf/pkgconfig
mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libgclib-dev/usr/lib/arm-linux-gnueabihf/pkgconfig
mkdir debian/libgclib-dev/usr/include/gclib
mv debian/libgclib-dev/usr/include/*.h* debian/libgclib-dev/usr/include/gclib
sed -i '/PACKAGE_NAME/d' debian/libgclib-dev/usr/include/gclib/config.h
# delete header files of not compiled C++ source files
find debian/libgclib-dev -name gdimg.h -delete
find debian/libgclib-dev -name GBam.h -delete
make[1]: Leaving directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installexamples
make[1]: Entering directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
dh_installexamples
chmod a-x debian/libgclib-dev/usr/share/doc/libgclib-dev/examples/*
make[1]: Leaving directory '/<<BUILDDIR>>/libgclib-0.11.10+ds'
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_dwz -a -a
dh_strip -a -a
dh_makeshlibs -a -a
dh_shlibdeps -a -a
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libgclib2/usr/lib/arm-linux-gnueabihf/libgclib.so.2.0.0 found in none of the libraries
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'libgclib-dev' in '../libgclib-dev_0.11.10+ds-2_armhf.deb'.
dpkg-deb: building package 'libgclib2' in '../libgclib2_0.11.10+ds-2_armhf.deb'.
dpkg-deb: building package 'libgclib2-dbgsym' in '../libgclib2-dbgsym_0.11.10+ds-2_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../libgclib_0.11.10+ds-2_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2020-12-08T01:51:56Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
libgclib_0.11.10+ds-2_armhf.changes:
------------------------------------
Format: 1.8
Date: Fri, 18 Sep 2020 11:07:12 +0200
Source: libgclib
Binary: libgclib-dev libgclib2 libgclib2-dbgsym
Architecture: armhf
Version: 0.11.10+ds-2
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
libgclib-dev - header files for Genome Code Lib (GCLib)
libgclib2 - C++ library to handle biological short sequence data
Closes: 968886
Changes:
libgclib (0.11.10+ds-2) unstable; urgency=medium
.
* Provide symbols only for amd64
Closes: #968886
Checksums-Sha1:
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Files:
942b7695ecf666c190cce3efc3d5d659 81000 libdevel optional libgclib-dev_0.11.10+ds-2_armhf.deb
944e045a4977def559570f24cae1f63f 484208 debug optional libgclib2-dbgsym_0.11.10+ds-2_armhf.deb
59883bff7358a7fb4d48fd8a958df53c 113976 libs optional libgclib2_0.11.10+ds-2_armhf.deb
86d102ca25b0c432e31bb0777c47a8b7 6279 science optional libgclib_0.11.10+ds-2_armhf.buildinfo
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
libgclib-dev_0.11.10+ds-2_armhf.deb
-----------------------------------
new Debian package, version 2.0.
size 81000 bytes: control archive=1848 bytes.
1230 bytes, 27 lines control
1878 bytes, 29 lines md5sums
Package: libgclib-dev
Source: libgclib
Version: 0.11.10+ds-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 353
Depends: libgclib2 (= 0.11.10+ds-2)
Section: libdevel
Priority: optional
Multi-Arch: same
Homepage: https://github.com/gpertea/gclib
Description: header files for Genome Code Lib (GCLib)
This is an eclectic gathering of (mostly) C++ code which upstream used
for some bioinformatics projects. The main idea is to provide
lean code and efficient data structures, trying to avoid too many code
dependencies of heavy libraries while minimizing production cycles (and
this also implies a decent compile/build time -- looking at you,
bloated configure scripts and lengthy compile times of Boost code or
other heavy C++ template code..).
.
This code was gathered even before the C++ STL had been fully adopted as
a cross-platform "standard". Since STL by itself is a bit heavier for
most of the C++ needs, it is preferred to use simpler&leaner C++ classes
or templates for basic strings, containers, basic algorithms etc.
.
Header files of Genome Code Lib. It is mainly known for being
used by StringTie but with its own release cycle.
drwxr-xr-x root/root 0 2020-09-18 09:07 ./
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/include/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/include/gclib/
-rw-r--r-- root/root 25377 2020-09-18 09:07 ./usr/include/gclib/GAlnExtend.h
-rw-r--r-- root/root 4020 2020-09-18 09:07 ./usr/include/gclib/GArgs.h
-rw-r--r-- root/root 21603 2020-09-18 09:07 ./usr/include/gclib/GBase.h
-rw-r--r-- root/root 13416 2020-09-18 09:07 ./usr/include/gclib/GBitVec.h
-rw-r--r-- root/root 1952 2020-09-18 09:07 ./usr/include/gclib/GCdbYank.h
-rw-r--r-- root/root 10695 2020-09-18 09:07 ./usr/include/gclib/GFaSeqGet.h
-rw-r--r-- root/root 24292 2020-09-18 09:07 ./usr/include/gclib/GFastaFile.h
-rw-r--r-- root/root 2011 2020-09-18 09:07 ./usr/include/gclib/GFastaIndex.h
-rw-r--r-- root/root 16741 2020-09-18 09:07 ./usr/include/gclib/GHash.hh
-rw-r--r-- root/root 12378 2020-09-18 09:07 ./usr/include/gclib/GIntHash.hh
-rw-r--r-- root/root 21924 2020-09-18 09:07 ./usr/include/gclib/GList.hh
-rw-r--r-- root/root 1569 2020-09-18 09:07 ./usr/include/gclib/GResUsage.h
-rw-r--r-- root/root 9706 2020-09-18 09:07 ./usr/include/gclib/GStr.h
-rw-r--r-- root/root 24664 2020-09-18 09:07 ./usr/include/gclib/GThreads.h
-rw-r--r-- root/root 26609 2020-09-18 09:07 ./usr/include/gclib/GVec.hh
-rw-r--r-- root/root 15220 2020-09-18 09:07 ./usr/include/gclib/GapAssem.h
-rw-r--r-- root/root 1149 2020-09-18 09:07 ./usr/include/gclib/codons.h
-rw-r--r-- root/root 1760 2020-09-18 09:07 ./usr/include/gclib/config.h
-rw-r--r-- root/root 13832 2020-09-18 09:07 ./usr/include/gclib/gcdb.h
-rw-r--r-- root/root 435 2020-09-18 09:07 ./usr/include/gclib/gdna.h
-rw-r--r-- root/root 51251 2020-09-18 09:07 ./usr/include/gclib/gff.h
-rw-r--r-- root/root 9393 2020-09-18 09:07 ./usr/include/gclib/gsocket.h
-rw-r--r-- root/root 629 2020-09-18 09:07 ./usr/include/gclib/gstopwatch.h
-rw-r--r-- root/root 241 2020-09-18 09:07 ./usr/include/gclib/proc_mem.h
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 7974 2020-09-18 09:07 ./usr/lib/arm-linux-gnueabihf/libgclib.a
lrwxrwxrwx root/root 0 2020-09-18 09:07 ./usr/lib/arm-linux-gnueabihf/libgclib.so -> libgclib.so.2.0.0
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/arm-linux-gnueabihf/pkgconfig/
-rw-r--r-- root/root 247 2020-09-18 09:07 ./usr/lib/arm-linux-gnueabihf/pkgconfig/libgclib.pc
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/doc/libgclib-dev/
-rw-r--r-- root/root 1070 2020-09-18 09:07 ./usr/share/doc/libgclib-dev/changelog.Debian.gz
-rw-r--r-- root/root 10318 2020-09-18 09:07 ./usr/share/doc/libgclib-dev/copyright
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/doc/libgclib-dev/examples/
-rw-r--r-- root/root 1372 2020-07-25 15:54 ./usr/share/doc/libgclib-dev/examples/mdtest.cpp
libgclib2-dbgsym_0.11.10+ds-2_armhf.deb
---------------------------------------
new Debian package, version 2.0.
size 484208 bytes: control archive=552 bytes.
404 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libgclib2-dbgsym
Source: libgclib
Version: 0.11.10+ds-2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 547
Depends: libgclib2 (= 0.11.10+ds-2)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libgclib2
Build-Ids: a5d4e146f748a61d83184cbb918558aaf8ec6bbf
drwxr-xr-x root/root 0 2020-09-18 09:07 ./
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/debug/.build-id/a5/
-rw-r--r-- root/root 549152 2020-09-18 09:07 ./usr/lib/debug/.build-id/a5/d4e146f748a61d83184cbb918558aaf8ec6bbf.debug
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-09-18 09:07 ./usr/share/doc/libgclib2-dbgsym -> libgclib2
libgclib2_0.11.10+ds-2_armhf.deb
--------------------------------
new Debian package, version 2.0.
size 113976 bytes: control archive=1196 bytes.
1145 bytes, 24 lines control
226 bytes, 3 lines md5sums
37 bytes, 1 lines shlibs
67 bytes, 2 lines triggers
Package: libgclib2
Source: libgclib
Version: 0.11.10+ds-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 306
Depends: libc6 (>= 2.7), libgcc-s1 (>= 3.5), libstdc++6 (>= 5)
Section: libs
Priority: optional
Multi-Arch: same
Homepage: https://github.com/gpertea/gclib
Description: C++ library to handle biological short sequence data
This is an eclectic gathering of (mostly) C++ code which upstream used
for some bioinformatics projects. The main idea is to provide
lean code and efficient data structures, trying to avoid too many code
dependencies of heavy libraries while minimizing production cycles (and
this also implies a decent compile/build time -- looking at you,
bloated configure scripts and lengthy compile times of Boost code or
other heavy C++ template code..).
.
This code was gathered even before the C++ STL had been fully adopted as
a cross-platform "standard". Since STL by itself is a bit heavier for
most of the C++ needs, it is preferred to use simpler&leaner C++ classes
or templates for basic strings, containers, basic algorithms etc.
drwxr-xr-x root/root 0 2020-09-18 09:07 ./
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root 0 2020-09-18 09:07 ./usr/lib/arm-linux-gnueabihf/libgclib.so.2 -> libgclib.so.2.0.0
-rw-r--r-- root/root 288268 2020-09-18 09:07 ./usr/lib/arm-linux-gnueabihf/libgclib.so.2.0.0
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-09-18 09:07 ./usr/share/doc/libgclib2/
-rw-r--r-- root/root 1070 2020-09-18 09:07 ./usr/share/doc/libgclib2/changelog.Debian.gz
-rw-r--r-- root/root 10318 2020-09-18 09:07 ./usr/share/doc/libgclib2/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 16572
Build-Time: 363
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 219
Job: libgclib_0.11.10+ds-2
Machine Architecture: armhf
Package: libgclib
Package-Time: 636
Source-Version: 0.11.10+ds-2
Space: 16572
Status: successful
Version: 0.11.10+ds-2
--------------------------------------------------------------------------------
Finished at 2020-12-08T01:51:56Z
Build needed 00:10:36, 16572k disc space