wham-align →
0.1.5-2 →
armhf → 2019-11-27 16:10:45
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on testwandboard
+==============================================================================+
| wham-align 0.1.5-2 (armhf) Wed, 27 Nov 2019 16:04:10 +0000 |
+==============================================================================+
Package: wham-align
Version: 0.1.5-2
Source Version: 0.1.5-2
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-e941dc60-6610-4e0e-ae32-5826fdb2fed6' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
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 [11.5 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
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'wham-align' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/wham-align.git
Please use:
git clone https://salsa.debian.org/med-team/wham-align.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 125 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main wham-align 0.1.5-2 (dsc) [1874 B]
Get:2 http://172.17.0.1/private bullseye-staging/main wham-align 0.1.5-2 (tar) [120 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main wham-align 0.1.5-2 (diff) [2972 B]
Fetched 125 kB in 0s (699 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/wham-align-i2w2oS/wham-align-0.1.5' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/wham-align-i2w2oS' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| 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-flEhtB/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-flEhtB/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-flEhtB/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-flEhtB/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-flEhtB/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:
libpam-cap netbase
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 32 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
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(Reading database ... 12234 files and directories currently installed.)
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Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 11)
Filtered Build-Depends: debhelper (>= 11)
dpkg-deb: building package 'sbuild-build-depends-wham-align-dummy' in '/<<BUILDDIR>>/resolver-flEhtB/apt_archive/sbuild-build-depends-wham-align-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-wham-align-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-flEhtB/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ Sources [493 B]
Get:5 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ Packages [568 B]
Fetched 2394 B in 1s (3112 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install wham-align 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:
libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3
libdebhelper-perl libelf1 libfile-stripnondeterminism-perl libglib2.0-0
libicu63 libmagic-mgc libmagic1 libpipeline1 libsigsegv2
libsub-override-perl libtinfo5 libtool libuchardet0 libxml2 m4 man-db
po-debconf sensible-utils
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation 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 bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3
libdebhelper-perl libelf1 libfile-stripnondeterminism-perl libglib2.0-0
libicu63 libmagic-mgc libmagic1 libpipeline1 libsigsegv2
libsub-override-perl libtinfo5 libtool libuchardet0 libxml2 m4 man-db
po-debconf sbuild-build-depends-wham-align-dummy sensible-utils
0 upgraded, 36 newly installed, 0 to remove and 32 not upgraded.
Need to get 18.7 MB of archives.
After this operation, 67.4 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-flEhtB/apt_archive ./ sbuild-build-depends-wham-align-dummy 0.invalid.0 [860 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.1+20191019-1 [316 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-3 [782 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.1-2 [26.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.0-1 [1261 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12 [15.8 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.37-6 [253 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.37-6 [111 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.37-6 [66.2 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-11 [547 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.7.1 [173 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.67-1 [104 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.3-1 [23.6 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.6.3-1 [14.6 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-2 [136 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.62.3-1 [1137 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-2 [7974 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.4+dfsg1-8 [593 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.7.1 [997 kB]
debconf: delaying package configuration, since apt-utils is not installed
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update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
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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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Processing triggers for libc-bin (2.29-2+rpi1) ...
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_2.33.1-2+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-17+rpi1 gcc-9_9.2.1-17+rpi1 libc6-dev_2.29-2+rpi1 libstdc++-9-dev_9.2.1-17+rpi1 libstdc++6_9.2.1-17+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.46 bash_5.0-5 binutils_2.33.1-2+rpi1 binutils-arm-linux-gnueabihf_2.33.1-2+rpi1 binutils-common_2.33.1-2+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3 cpp_4:9.2.1-3+rpi1 cpp-9_9.2.1-17+rpi1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.7.1 debianutils_4.9 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-1 diffutils_1:3.7-3 dirmngr_2.2.17-3+b1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-2 e2fsprogs_1.45.4-1 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.37-6 findutils_4.7.0-1 g++_4:9.2.1-3+rpi1 g++-9_9.2.1-17+rpi1 gcc_4:9.2.1-3+rpi1 gcc-4.9-base_4.9.4-2+rpi1+b19 gcc-5-base_5.5.0-8 gcc-6-base_6.5.0-1+rpi1+b3 gcc-7-base_7.4.0-15 gcc-9_9.2.1-17+rpi1 gcc-9-base_9.2.1-17+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.17-3 gnupg-l10n_2.2.17-3 gnupg-utils_2.2.17-3+b1 gpg_2.2.17-3+b1 gpg-agent_2.2.17-3+b1 gpg-wks-client_2.2.17-3+b1 gpg-wks-server_2.2.17-3+b1 gpgconf_2.2.17-3+b1 gpgsm_2.2.17-3+b1 gpgv_2.2.17-3+b1 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-2 libacl1_2.2.53-5 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-1 libasan5_9.2.1-17+rpi1 libassuan0_2.5.3-7 libatomic1_9.2.1-17+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2 libbinutils_2.33.1-2+rpi1 libblkid1_2.34-0.1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-2+rpi1 libc-dev-bin_2.29-2+rpi1 libc6_2.29-2+rpi1 libc6-dev_2.29-2+rpi1 libcap-ng0_0.7.9-2.1 libcap2_1:2.27-1 libcap2-bin_1:2.27-1 libcc1-0_9.2.1-17+rpi1 libcom-err2_1.45.4-1 libcroco3_0.6.13-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.250 libdebhelper-perl_12.7.1 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libext2fs2_1.45.4-1 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.3-1 libgcc-9-dev_9.2.1-17+rpi1 libgcc1_1:9.2.1-17+rpi1 libgcrypt20_1.8.5-3 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.62.3-1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.10-4 libgomp1_9.2.1-17+rpi1 libgpg-error0_1.36-7 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libisl19_0.20-2 libisl21_0.21-2 libksba8_1.3.5-2 libldap-2.4-2_2.4.48+dfsg-1+b2 libldap-common_2.4.48+dfsg-1 liblz4-1_1.9.2-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-6 libmagic1_1:5.37-6 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncursesw6_6.1+20191019-1 libnettle7_3.5.1+really3.5.1-2 libnpth0_1.6-1 libp11-kit0_0.23.18.1-2 libpam-cap_1:2.27-1 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_10.32-5 libpcre3_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.1-2 libreadline7_7.0-5 libreadline8_8.0-3 libsasl2-2_2.1.27+dfsg-1+b1 libsasl2-modules-db_2.1.27+dfsg-1+b1 libseccomp2_2.4.1-2+rpi1 libselinux1_2.9-2 libsemanage-common_2.9-3 libsemanage1_2.9-3 libsepol1_2.9-2 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsqlite3-0_3.30.1-1 libss2_1.45.4-1 libstdc++-9-dev_9.2.1-17+rpi1 libstdc++6_9.2.1-17+rpi1 libsub-override-perl_0.09-2 libsystemd0_242-7+rpi1 libtasn1-6_4.14-3 libtinfo5_6.1+20191019-1 libtinfo6_6.1+20191019-1 libtool_2.4.6-11 libubsan1_9.2.1-17+rpi1 libuchardet0_0.0.6-3 libudev1_242-7+rpi1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libxml2_2.9.4+dfsg1-8 libzstd1_1.4.3+dfsg-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.7-2 logsave_1.45.4-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-1 mawk_1.3.3-17 mount_2.34-0.1 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 netbase_5.6 passwd_1:4.7-2 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 po-debconf_1.0.21 raspbian-archive-keyring_20120528.2 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-wham-align-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sysvinit-utils_2.96-1 tar_1.30+dfsg-6 tzdata_2019c-3 util-linux_2.34-0.1 xz-utils_5.2.4-1 zlib1g_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 Tue Oct 15 16:00:42 2019 UTC
gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1
gpgv: issuer "moeller@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./wham-align_0.1.5-2.dsc
dpkg-source: info: extracting wham-align in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking wham-align_0.1.5.orig.tar.gz
dpkg-source: info: unpacking wham-align_0.1.5-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying makefile.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-e941dc60-6610-4e0e-ae32-5826fdb2fed6
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package wham-align
dpkg-buildpackage: info: source version 0.1.5-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
rm -f wham wham-build *.o
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_clean
rm -f debian/debhelper-build-stamp
rm -rf debian/.debhelper/
rm -f -- debian/wham-align.substvars debian/files
rm -fr -- debian/wham-align/ debian/tmp/
find . \( \( \
\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \
\( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
-o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
-o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
-o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
\) -exec rm -f {} + \) -o \
\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
dh_auto_build -a
make -j4 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<PKGBUILDDIR>>'
g++ -c -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -Wno-write-strings hash.cpp
g++ -c -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -Wno-write-strings embedhash.cpp
g++ -c -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -Wno-write-strings main.cpp
g++ -c -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -Wno-write-strings sequence.cpp
In file included from hitset.h:31,
from hash.h:29,
from hash.cpp:27:
pair.h:840:2: error: #error "POPCNT is only supported in Intel X86/IA-64 architectures"
840 | #error "POPCNT is only supported in Intel X86/IA-64 architectures"
| ^~~~~
In file included from hitset.h:31,
from hash.h:29,
from embedhash.cpp:27:
pair.h:840:2: error: #error "POPCNT is only supported in Intel X86/IA-64 architectures"
840 | #error "POPCNT is only supported in Intel X86/IA-64 architectures"
| ^~~~~
In file included from hitset.h:31,
from hash.h:29,
from aligner.h:25,
from main.cpp:34:
pair.h:840:2: error: #error "POPCNT is only supported in Intel X86/IA-64 architectures"
840 | #error "POPCNT is only supported in Intel X86/IA-64 architectures"
| ^~~~~
In file included from hitset.h:31,
from hash.h:29,
from aligner.h:25,
from sequence.cpp:30:
pair.h:840:2: error: #error "POPCNT is only supported in Intel X86/IA-64 architectures"
840 | #error "POPCNT is only supported in Intel X86/IA-64 architectures"
| ^~~~~
In file included from hitset.h:31,
from hash.h:29,
from hash.cpp:27:
pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)':
pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
265 | if (num > nError) {
| ~~~~^~~~~~~~
pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)':
pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable]
602 | int i, j, offset, min, tmp;
| ^~~~~~
pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)':
pair.h:684:15: warning: unused variable 'num' [-Wunused-variable]
684 | int i, p, num, base, Cscore;
| ^~~
pair.h:684:20: warning: unused variable 'base' [-Wunused-variable]
684 | int i, p, num, base, Cscore;
| ^~~~
pair.h:685:9: warning: unused variable 'a' [-Wunused-variable]
685 | int a;
| ^
pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)':
pair.h:755:15: warning: unused variable 'num' [-Wunused-variable]
755 | int i, p, num, base, Cscore;
| ^~~
pair.h:755:20: warning: unused variable 'base' [-Wunused-variable]
755 | int i, p, num, base, Cscore;
| ^~~~
pair.h:756:9: warning: unused variable 'a' [-Wunused-variable]
756 | int a;
| ^
pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)':
pair.h:972:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
972 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0));
| ~~~~~~~^~~~~~~~~~
In file included from hitset.h:31,
from hash.h:29,
from embedhash.cpp:27:
pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)':
pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
265 | if (num > nError) {
| ~~~~^~~~~~~~
pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)':
pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable]
602 | int i, j, offset, min, tmp;
| ^~~~~~
In file included from hash.cpp:27:
hash.h: In function 'uint32 murmurHash(int64*, uint32)':
hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable]
86 | uint32 sum = 0;
| ^~~
pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)':
pair.h:684:15: warning: unused variable 'num' [-Wunused-variable]
684 | int i, p, num, base, Cscore;
| ^~~
pair.h:684:20: warning: unused variable 'base' [-Wunused-variable]
684 | int i, p, num, base, Cscore;
| ^~~~
pair.h:685:9: warning: unused variable 'a' [-Wunused-variable]
685 | int a;
| ^
pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)':
pair.h:755:15: warning: unused variable 'num' [-Wunused-variable]
755 | int i, p, num, base, Cscore;
| ^~~
pair.h:755:20: warning: unused variable 'base' [-Wunused-variable]
755 | int i, p, num, base, Cscore;
| ^~~~
pair.h:756:9: warning: unused variable 'a' [-Wunused-variable]
756 | int a;
| ^
pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)':
pair.h:972:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
972 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0));
| ~~~~~~~^~~~~~~~~~
In file included from embedhash.cpp:27:
hash.h: In function 'uint32 murmurHash(int64*, uint32)':
hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable]
86 | uint32 sum = 0;
| ^~~
pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)':
pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
265 | if (num > nError) {
| ~~~~^~~~~~~~
pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)':
pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable]
602 | int i, j, offset, min, tmp;
| ^~~~~~
pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)':
pair.h:684:15: warning: unused variable 'num' [-Wunused-variable]
684 | int i, p, num, base, Cscore;
| ^~~
pair.h:684:20: warning: unused variable 'base' [-Wunused-variable]
684 | int i, p, num, base, Cscore;
| ^~~~
pair.h:685:9: warning: unused variable 'a' [-Wunused-variable]
685 | int a;
| ^
pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)':
pair.h:755:15: warning: unused variable 'num' [-Wunused-variable]
755 | int i, p, num, base, Cscore;
| ^~~
pair.h:755:20: warning: unused variable 'base' [-Wunused-variable]
755 | int i, p, num, base, Cscore;
| ^~~~
pair.h:756:9: warning: unused variable 'a' [-Wunused-variable]
756 | int a;
| ^
pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)':
pair.h:972:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
972 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0));
| ~~~~~~~^~~~~~~~~~
In file included from aligner.h:25,
from main.cpp:34:
hash.h: In function 'uint32 murmurHash(int64*, uint32)':
hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable]
86 | uint32 sum = 0;
| ^~~
hash.cpp: In member function 'int HashTable::preProcessEnd()':
hash.cpp:236:11: warning: comparison of integer expressions of different signedness: 'int' and 'const uint32' {aka 'const unsigned int'} [-Wsign-compare]
236 | if (h >= nHistogram)
| ~~^~~~~~~~~~~~~
hash.cpp:285:33: warning: comparison of integer expressions of different signedness: 'uint32' {aka 'unsigned int'} and 'int' [-Wsign-compare]
285 | if (useEmbedTables() && tmp > embedShreshold) {
| ~~~~^~~~~~~~~~~~~~~~
hash.cpp: In member function 'void HashTable::setScanThreshold(double)':
hash.cpp:343:21: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
343 | for (int i = 0; i < nHistogram - 1; i++) {
| ~~^~~~~~~~~~~~~~~~
hash.cpp: In member function 'void HashTable::insert(int64*, unsigned int)':
hash.cpp:460:38: warning: operation on '*(((HashTable*)this)->HashTable::overflowPool + ((sizetype)(curOverflowEntry * 4)))' may be undefined [-Wsequence-point]
460 | overflowPool[curOverflowEntry] =
hash.cpp:411:10: warning: unused variable 'seqOffset' [-Wunused-variable]
411 | uint32 seqOffset;
| ^~~~~~~~~
hash.cpp:413:10: warning: unused variable 'counter' [-Wunused-variable]
413 | uint32 counter = 0;
| ^~~~~~~
hash.cpp:416:11: warning: unused variable 'target' [-Wunused-variable]
416 | int64 * target = &tspace[8];
| ^~~~~~
hash.cpp:417:8: warning: unused variable 'isBloomFilter' [-Wunused-variable]
417 | bool isBloomFilter;
| ^~~~~~~~~~~~~
hash.cpp:418:12: warning: unused variable 'bloomFilter' [-Wunused-variable]
418 | uint32 * bloomFilter;
| ^~~~~~~~~~~
hash.cpp:419:10: warning: unused variable 'bloomFilterNum' [-Wunused-variable]
419 | uint32 bloomFilterNum;
| ^~~~~~~~~~~~~~
hash.cpp: In member function 'int HashTable::buildEmbedTable()':
hash.cpp:469:33: warning: unused variable 'rest' [-Wunused-variable]
469 | int64 * query = &ttspace[8], *rest = &ttspace[24], *rest1 = &ttspace[40],
| ^~~~
hash.cpp:469:55: warning: unused variable 'rest1' [-Wunused-variable]
469 | int64 * query = &ttspace[8], *rest = &ttspace[24], *rest1 = &ttspace[40],
| ^~~~~
hash.cpp:470:8: warning: unused variable 'rest2' [-Wunused-variable]
470 | *rest2 = &ttspace[56], *noheadkey = &ttspace[72];
| ^~~~~
hash.cpp:470:31: warning: unused variable 'noheadkey' [-Wunused-variable]
470 | *rest2 = &ttspace[56], *noheadkey = &ttspace[72];
| ^~~~~~~~~
hash.cpp: In member function 'void HashTable::preinsertEmbedTableEntry(int64*, int, int)':
hash.cpp:587:11: warning: unused variable 'noheadkey' [-Wunused-variable]
587 | int64 * noheadkey = &tspace[8], *rest = &tspace[24];
| ^~~~~~~~~
hash.cpp:590:8: warning: unused variable 'subkey4' [-Wunused-variable]
590 | *subkey4 = &tspace[88], *subkey5 = &tspace[104];
| ^~~~~~~
hash.cpp:590:32: warning: unused variable 'subkey5' [-Wunused-variable]
590 | *subkey4 = &tspace[88], *subkey5 = &tspace[104];
| ^~~~~~~
hash.cpp: In member function 'void HashTable::insertEmbedTableEntry(int64*, uint32, int, int)':
hash.cpp:662:11: warning: unused variable 'noheadkey' [-Wunused-variable]
662 | int64 * noheadkey = &tspace[8], *rest = &tspace[24];
| ^~~~~~~~~
hash.cpp:665:8: warning: unused variable 'subkey4' [-Wunused-variable]
665 | *subkey4 = &tspace[88], *subkey5 = &tspace[104];
| ^~~~~~~
hash.cpp:665:32: warning: unused variable 'subkey5' [-Wunused-variable]
665 | *subkey4 = &tspace[88], *subkey5 = &tspace[104];
| ^~~~~~~
hash.cpp: In member function 'unsigned int HashTable::lookup(int64*, int64*, int, char*, strand, int, HitSet*, bool)':
hash.cpp:746:7: warning: unused variable 'num' [-Wunused-variable]
746 | int num;
| ^~~
hash.cpp:750:11: warning: unused variable 'diff' [-Wunused-variable]
750 | int64 * diff = &tspace1[8], *target = &tspace2[8];
| ^~~~
hash.cpp:753:10: warning: unused variable 'sid' [-Wunused-variable]
753 | uint32 sid, soffset;
| ^~~
hash.cpp:753:15: warning: unused variable 'soffset' [-Wunused-variable]
753 | uint32 sid, soffset;
| ^~~~~~~
hash.cpp: In member function 'unsigned int HashTable::lookupEmbedTable(int64*, uint32, int, char*, strand, int, HitSet*, bool)':
hash.cpp:962:11: warning: unused variable 'noheadkey' [-Wunused-variable]
962 | int64 * noheadkey = &tspace[8], *rest = &tspace[24];
| ^~~~~~~~~
hash.cpp:965:8: warning: unused variable 'subkey4' [-Wunused-variable]
965 | *subkey4 = &tspace[88], *subkey5 = &tspace[104];
| ^~~~~~~
hash.cpp:965:32: warning: unused variable 'subkey5' [-Wunused-variable]
965 | *subkey4 = &tspace[88], *subkey5 = &tspace[104];
| ^~~~~~~
hash.cpp:973:11: warning: unused variable 'seqVector' [-Wunused-variable]
973 | int64 * seqVector = sequence->getSequence();
| ^~~~~~~~~
hash.cpp: In member function 'bool HashTable::lookup(int64*, uint32)':
hash.cpp:1052:7: warning: unused variable 'num' [-Wunused-variable]
1052 | int num;
| ^~~
hash.cpp:1056:11: warning: unused variable 'diff' [-Wunused-variable]
1056 | int64 * diff = &tspace1[8], *target = &tspace2[8];
| ^~~~
hash.cpp:1056:32: warning: unused variable 'target' [-Wunused-variable]
1056 | int64 * diff = &tspace1[8], *target = &tspace2[8];
| ^~~~~~
hash.cpp:1059:10: warning: unused variable 'sid' [-Wunused-variable]
1059 | uint32 sid, soffset;
| ^~~
hash.cpp:1059:15: warning: unused variable 'soffset' [-Wunused-variable]
1059 | uint32 sid, soffset;
| ^~~~~~~
pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)':
pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
265 | if (num > nError) {
| ~~~~^~~~~~~~
hash.cpp: In member function 'uint32 HashTable::printOverflowList(uint32, uint32, int64*)':
hash.cpp:1184:23: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare]
1184 | for (int i = 0; i < keyOffset / BITS_PER_BASE; i++)
hash.cpp:1188:23: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare]
1188 | for (int i = 0; i < (lenSeq - keyOffset - lenKey) / BITS_PER_BASE; i++)
hash.cpp:1247:27: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
1247 | for (int j = 0; j < strlen(set[i].str); j++)
| ~~^~~~~~~~~~~~~~~~~~~~
hash.cpp:1254:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare]
1254 | for (int j = 0; j < strlen(set[i].str); j++)
| ~~^~~~~~~~~~~~~~~~~~~~
hash.cpp:1137:11: warning: unused variable 'diff' [-Wunused-variable]
1137 | int64 * diff = &tspace1[8], *target = &tspace2[8];
| ^~~~
pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)':
pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable]
602 | int i, j, offset, min, tmp;
| ^~~~~~
main.cpp: In function 'int getArguVal(char*)':
main.cpp:159:15: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
159 | else if (*c = 'g' || *c == 'G')
| ~~~^~~~~~~~~~~~~~~~~~
pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)':
pair.h:684:15: warning: unused variable 'num' [-Wunused-variable]
684 | int i, p, num, base, Cscore;
| ^~~
pair.h:684:20: warning: unused variable 'base' [-Wunused-variable]
684 | int i, p, num, base, Cscore;
| ^~~~
pair.h:685:9: warning: unused variable 'a' [-Wunused-variable]
685 | int a;
| ^
pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)':
pair.h:755:15: warning: unused variable 'num' [-Wunused-variable]
755 | int i, p, num, base, Cscore;
| ^~~
pair.h:755:20: warning: unused variable 'base' [-Wunused-variable]
755 | int i, p, num, base, Cscore;
| ^~~~
pair.h:756:9: warning: unused variable 'a' [-Wunused-variable]
756 | int a;
| ^
hash.cpp: In member function 'void HashTable::checkRepeat(uint32)':
hash.cpp:1690:5: warning: label 'restart' defined but not used [-Wunused-label]
1690 | restart: if (buckets[bucketId] == HASH_EMPTY
| ^~~~~~~
pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)':
pair.h:972:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
972 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0));
| ~~~~~~~^~~~~~~~~~
main.cpp: In function 'int align(char*, AlignInfo*, char*, int)':
main.cpp:350:7: warning: unused variable 'i' [-Wunused-variable]
350 | int i, j, ret;
| ^
main.cpp:350:10: warning: unused variable 'j' [-Wunused-variable]
350 | int i, j, ret;
| ^
embedhash.cpp: In member function 'int EmbedHashTable::preProcessEnd()':
embedhash.cpp:137:16: warning: unused variable 'ln2' [-Wunused-variable]
137 | const double ln2 = log(2);
| ^~~
embedhash.cpp: In member function 'void EmbedHashTable::setScanThreshold(double)':
embedhash.cpp:253:9: warning: unused variable 'sum' [-Wunused-variable]
253 | int64 sum = 0;
| ^~~
embedhash.cpp:255:9: warning: unused variable 'top' [-Wunused-variable]
255 | int64 top = total - total * r;
| ^~~
In file included from aligner.h:25,
from sequence.cpp:30:
hash.h: In function 'uint32 murmurHash(int64*, uint32)':
hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable]
86 | uint32 sum = 0;
| ^~~
main.cpp: In function 'int main(int, char**)':
main.cpp:523:7: warning: unused variable 'numKeys' [-Wunused-variable]
523 | int numKeys;
| ^~~~~~~
main.cpp:526:7: warning: unused variable 'nSeq' [-Wunused-variable]
526 | int nSeq = 1;
| ^~~~
main.cpp:532:21: warning: unused variable 'sequence' [-Wunused-variable]
532 | CompactSequence * sequence;
| ^~~~~~~~
main.cpp:534:15: warning: unused variable 'threadpool' [-Wunused-variable]
534 | pthread_t * threadpool;
| ^~~~~~~~~~
main.cpp:536:9: warning: unused variable 'threadid' [-Wunused-variable]
536 | int * threadid;
| ^~~~~~~~
embedhash.cpp: In member function 'void EmbedHashTable::insert(int64*, unsigned int)':
embedhash.cpp:369:38: warning: operation on '*(((EmbedHashTable*)this)->EmbedHashTable::overflowPool + ((sizetype)(curOverflowEntry * 4)))' may be undefined [-Wsequence-point]
369 | overflowPool[curOverflowEntry] =
embedhash.cpp:328:10: warning: unused variable 'seqOffset' [-Wunused-variable]
328 | uint32 seqOffset;
| ^~~~~~~~~
embedhash.cpp:330:10: warning: unused variable 'counter' [-Wunused-variable]
330 | uint32 counter = 0;
| ^~~~~~~
embedhash.cpp:333:11: warning: unused variable 'target' [-Wunused-variable]
333 | int64 * target = &tspace[8];
| ^~~~~~
embedhash.cpp:334:8: warning: unused variable 'isBloomFilter' [-Wunused-variable]
334 | bool isBloomFilter;
| ^~~~~~~~~~~~~
embedhash.cpp:335:12: warning: unused variable 'bloomFilter' [-Wunused-variable]
335 | uint32 * bloomFilter;
| ^~~~~~~~~~~
embedhash.cpp:336:10: warning: unused variable 'bloomFilterNum' [-Wunused-variable]
336 | uint32 bloomFilterNum;
| ^~~~~~~~~~~~~~
embedhash.cpp: In member function 'unsigned int EmbedHashTable::lookup(int64*, int64*, int, char*, strand, int, HitSet*, bool)':
embedhash.cpp:385:7: warning: unused variable 'num' [-Wunused-variable]
385 | int num;
| ^~~
embedhash.cpp:389:11: warning: unused variable 'diff' [-Wunused-variable]
389 | int64 * diff = &tspace1[8], *target = &tspace2[8];
| ^~~~
embedhash.cpp:392:10: warning: unused variable 'sid' [-Wunused-variable]
392 | uint32 sid, soffset;
| ^~~
embedhash.cpp:392:15: warning: unused variable 'soffset' [-Wunused-variable]
392 | uint32 sid, soffset;
| ^~~~~~~
sequence.cpp: In member function 'void CompactSequence::extractFileName(char*, char*)':
sequence.cpp:97:10: warning: unused variable 'str' [-Wunused-variable]
97 | char * str;
| ^~~
sequence.cpp: In member function 'int CompactSequence::build(char**, int, int, int)':
sequence.cpp:238:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
238 | for (i = 0; i < numFile; i++) {
| ~~^~~~~~~~~
sequence.cpp:309:13: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
309 | ( i = 0; i < nSeq; i++)
| ~~^~~~~~
sequence.cpp:324:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
324 | for (i = 0; i < numFile; i++) {
| ~~^~~~~~~~~
sequence.cpp:344:23: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
344 | for (j = 0; j < numError + 1; j++) {
| ~~^~~~~~~~~~~~~~
sequence.cpp:410:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
410 | if (lenSegmentN > numError + 1) {
| ~~~~~~~~~~~~^~~~~~~~~~~~~~
sequence.cpp:429:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
429 | if (lenSegmentN > numError + 1) {
| ~~~~~~~~~~~~^~~~~~~~~~~~~~
sequence.cpp:223:16: warning: unused variable 'step' [-Wunused-variable]
223 | unsigned int step, nextstep;
| ^~~~
sequence.cpp:223:22: warning: unused variable 'nextstep' [-Wunused-variable]
223 | unsigned int step, nextstep;
| ^~~~~~~~
sequence.cpp: In member function 'int CompactSequence::filter(Aligner*, char**, int, char*)':
sequence.cpp:534:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
534 | for (i = 0; i < numFile; i++) {
| ~~^~~~~~~~~
sequence.cpp:599:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
599 | if (lenSegmentN > nError + 1)
| ~~~~~~~~~~~~^~~~~~~~~~~~
sequence.cpp:520:16: warning: unused variable 'step' [-Wunused-variable]
520 | unsigned int step, nextstep;
| ^~~~
sequence.cpp:520:22: warning: unused variable 'nextstep' [-Wunused-variable]
520 | unsigned int step, nextstep;
| ^~~~~~~~
sequence.cpp:521:9: warning: unused variable 'numFileChar' [-Wunused-variable]
521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment;
| ^~~~~~~~~~~
sequence.cpp:521:22: warning: unused variable 'numFileNSeg' [-Wunused-variable]
521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment;
| ^~~~~~~~~~~
sequence.cpp:521:35: warning: unused variable 'numFileSeq' [-Wunused-variable]
521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment;
| ^~~~~~~~~~
sequence.cpp:521:47: warning: unused variable 'nChar' [-Wunused-variable]
521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment;
| ^~~~~
sequence.cpp:521:54: warning: unused variable 'nNSegment' [-Wunused-variable]
521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment;
| ^~~~~~~~~
sequence.cpp: In member function 'int CompactSequence::save(char*)':
sequence.cpp:738:11: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare]
738 | if (ret != size) {
| ~~~~^~~~~~~
sequence.cpp: In member function 'int CompactSequence::load(char*)':
sequence.cpp:804:11: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare]
804 | if (ret != size) {
| ~~~~^~~~~~~
hash.cpp: In member function 'unsigned int HashTable::lookupEmbedTable(int64*, uint32, int, char*, strand, int, HitSet*, bool)':
hash.cpp:1049:1: warning: control reaches end of non-void function [-Wreturn-type]
1049 | }
| ^
In file included from hash.cpp:31:
edit_distance.h: At global scope:
edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable]
25 | static score_mat obj_score_mat = { 1, 1, 1, 1 };
| ^~~~~~~~~~~~~
In file included from embedhash.cpp:32:
edit_distance.h: At global scope:
edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable]
25 | static score_mat obj_score_mat = { 1, 1, 1, 1 };
| ^~~~~~~~~~~~~
In file included from main.cpp:38:
edit_distance.h: At global scope:
edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable]
25 | static score_mat obj_score_mat = { 1, 1, 1, 1 };
| ^~~~~~~~~~~~~
make[1]: *** [makefile:40: hash.o] Error 1
make[1]: *** Waiting for unfinished jobs....
make[1]: *** [makefile:37: embedhash.o] Error 1
make[1]: *** [makefile:46: main.o] Error 1
make[1]: *** [makefile:49: sequence.o] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build: make -j4 "INSTALL=install --strip-program=true" returned exit code 2
make: *** [debian/rules:9: build-arch] Error 255
dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2019-11-27T16:10:42Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 0
Build-Time: 15
Distribution: bullseye-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 321
Job: wham-align_0.1.5-2
Machine Architecture: armhf
Package: wham-align
Package-Time: 392
Source-Version: 0.1.5-2
Space: 0
Status: failed
Version: 0.1.5-2
--------------------------------------------------------------------------------
Finished at 2019-11-27T16:10:42Z
Build needed 00:00:00, 0k disc space