ampliconnoise →
1.29-10+b1 →
armhf → 2021-12-09 07:28:54
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02
+==============================================================================+
| ampliconnoise 1.29-10+b1 (armhf) Thu, 09 Dec 2021 07:22:18 +0000 |
+==============================================================================+
Package: ampliconnoise
Version: 1.29-10+b1
Source Version: 1.29-10
Distribution: bookworm-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bookworm-staging-armhf-sbuild-dbe46545-1907-48e9-9e5d-df10d42f5b0d' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private bookworm-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private bookworm-staging/main Sources [12.6 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [13.5 MB]
Fetched 26.1 MB in 11s (2404 kB/s)
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: 'ampliconnoise' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/ampliconnoise.git
Please use:
git clone https://salsa.debian.org/med-team/ampliconnoise.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 1416 kB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main ampliconnoise 1.29-10 (dsc) [2156 B]
Get:2 http://172.17.4.1/private bookworm-staging/main ampliconnoise 1.29-10 (tar) [1403 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main ampliconnoise 1.29-10 (diff) [10.7 kB]
Fetched 1416 kB in 0s (3463 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/ampliconnoise-AOkeT3/ampliconnoise-1.29' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/ampliconnoise-AOkeT3' 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-oACyje/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-oACyje/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-oACyje/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: 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 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: 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-oACyje/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ Packages [433 B]
Fetched 2109 B in 0s (8073 B/s)
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:
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 24 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-oACyje/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (55.7 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12559 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
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-compat (= 13), libgsl-dev, libopenmpi-dev
Filtered Build-Depends: debhelper-compat (= 13), libgsl-dev, libopenmpi-dev
dpkg-deb: building package 'sbuild-build-depends-ampliconnoise-dummy' in '/<<BUILDDIR>>/resolver-oACyje/apt_archive/sbuild-build-depends-ampliconnoise-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-ampliconnoise-dummy sbuild-build-depends-core-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-oACyje/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ Sources [513 B]
Get:5 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ Packages [592 B]
Fetched 2438 B in 0s (9155 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install ampliconnoise build dependencies (apt-based resolver)
-------------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils cpp-11 debhelper
dh-autoreconf dh-strip-nondeterminism dwz file g++-11 gcc-11 gcc-11-base
gettext gettext-base gfortran-11 groff-base ibverbs-providers
intltool-debian libarchive-zip-perl libasan6 libatomic1 libbsd0 libcbor0.8
libcc1-0 libdebhelper-perl libedit2 libelf1 libevent-2.1-7
libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7
libevent-pthreads-2.1-7 libfabric1 libfido2-1
libfile-stripnondeterminism-perl libgcc-11-dev libgcc-s1 libgfortran-11-dev
libgfortran5 libgomp1 libgsl-dev libgsl27 libgslcblas0 libhwloc-dev
libhwloc-plugins libhwloc15 libibverbs-dev libibverbs1 libicu67 libjs-jquery
libjs-jquery-ui libltdl-dev libltdl7 libmagic-mgc libmagic1 libmd0
libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev libnuma-dev
libnuma1 libopenmpi-dev libopenmpi3 libpciaccess0 libpipeline1 libpmix-dev
libpmix2 librdmacm1 libsigsegv2 libstdc++-11-dev libstdc++6
libsub-override-perl libtool libubsan1 libuchardet0 libx11-6 libx11-data
libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 m4 man-db
ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client po-debconf
zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc gcc-11-locales dh-make
gcc-11-doc gettext-doc libasprintf-dev libgettextpo-dev gfortran-11-doc
libcoarrays-dev groff gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info
| gsl-ref-html libjs-jquery-ui-docs libtool-doc openmpi-doc pciutils
libstdc++-11-doc gcj-jdk m4-doc apparmor less www-browser opencl-icd
gfortran | fortran-compiler keychain libpam-ssh monkeysphere ssh-askpass
libmail-box-perl
Recommended packages:
curl | wget | lynx libarchive-cpio-perl javascript-common
libcoarrays-openmpi-dev xauth libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
gfortran-11 groff-base ibverbs-providers intltool-debian libarchive-zip-perl
libbsd0 libcbor0.8 libdebhelper-perl libedit2 libelf1 libevent-2.1-7
libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7
libevent-pthreads-2.1-7 libfabric1 libfido2-1
libfile-stripnondeterminism-perl libgfortran-11-dev libgfortran5 libgsl-dev
libgsl27 libgslcblas0 libhwloc-dev libhwloc-plugins libhwloc15
libibverbs-dev libibverbs1 libicu67 libjs-jquery libjs-jquery-ui libltdl-dev
libltdl7 libmagic-mgc libmagic1 libmd0 libnl-3-200 libnl-3-dev
libnl-route-3-200 libnl-route-3-dev libnuma-dev libnuma1 libopenmpi-dev
libopenmpi3 libpciaccess0 libpipeline1 libpmix-dev libpmix2 librdmacm1
libsigsegv2 libsub-override-perl libtool libuchardet0 libx11-6 libx11-data
libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 m4 man-db
ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client po-debconf
sbuild-build-depends-ampliconnoise-dummy zlib1g-dev
The following packages will be upgraded:
cpp-11 g++-11 gcc-11 gcc-11-base libasan6 libatomic1 libcc1-0 libgcc-11-dev
libgcc-s1 libgomp1 libstdc++-11-dev libstdc++6 libubsan1
13 upgraded, 83 newly installed, 0 to remove and 11 not upgraded.
Need to get 72.9 MB of archives.
After this operation, 198 MB disk space will be freed.
Get:1 copy:/<<BUILDDIR>>/resolver-oACyje/apt_archive ./ sbuild-build-depends-ampliconnoise-dummy 0.invalid.0 [880 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.37.2-4 [135 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf libcc1-0 armhf 11.2.0-12+rpi1 [37.9 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf gcc-11-base armhf 11.2.0-12+rpi1 [206 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf libgcc-s1 armhf 11.2.0-12+rpi1 [36.3 kB]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf libgomp1 armhf 11.2.0-12+rpi1 [88.1 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf libatomic1 armhf 11.2.0-12+rpi1 [8184 B]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf libasan6 armhf 11.2.0-12+rpi1 [1947 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf libubsan1 armhf 11.2.0-12+rpi1 [798 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf g++-11 armhf 11.2.0-12+rpi1 [7905 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf libstdc++-11-dev armhf 11.2.0-12+rpi1 [1957 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf libgcc-11-dev armhf 11.2.0-12+rpi1 [698 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf gcc-11 armhf 11.2.0-12+rpi1 [14.0 MB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf cpp-11 armhf 11.2.0-12+rpi1 [7070 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf libstdc++6 armhf 11.2.0-12+rpi1 [466 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-7 [793 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.4-1 [31.6 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.9.4-2 [1307 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-2 [295 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-2 [119 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-2 [65.8 kB]
Get:23 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-4 [171 kB]
Get:24 http://172.17.4.1/private bookworm-staging/main armhf libmd0 armhf 1.0.4-1 [28.9 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf libbsd0 armhf 0.11.3-1 [103 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf libedit2 armhf 3.1-20210910-1 [81.2 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf libcbor0.8 armhf 0.8.0-2 [22.8 kB]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf libfido2-1 armhf 1.9.0-1+b1 [65.2 kB]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf openssh-client armhf 1:8.7p1-2 [881 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.13-1 [34.3 kB]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.1 [823 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-4 [510 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.5.2 [192 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.6-15 [513 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:39 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:40 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:41 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.12.1-1 [26.5 kB]
Get:42 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.12.1-1 [15.6 kB]
Get:43 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.186-1 [174 kB]
Get:44 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:45 http://172.17.4.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:46 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.12+dfsg-5 [584 kB]
Get:47 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-4 [1215 kB]
Get:48 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:49 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:50 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.5.2 [1056 kB]
Get:51 http://172.17.4.1/private bookworm-staging/main armhf libgfortran5 armhf 11.2.0-12+rpi1 [235 kB]
Get:52 http://172.17.4.1/private bookworm-staging/main armhf libgfortran-11-dev armhf 11.2.0-12+rpi1 [280 kB]
Get:53 http://172.17.4.1/private bookworm-staging/main armhf gfortran-11 armhf 11.2.0-12+rpi1 [7571 kB]
Get:54 http://172.17.4.1/private bookworm-staging/main armhf libnl-3-200 armhf 3.4.0-1 [55.0 kB]
Get:55 http://172.17.4.1/private bookworm-staging/main armhf libnl-route-3-200 armhf 3.4.0-1 [132 kB]
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Get:57 http://172.17.4.1/private bookworm-staging/main armhf ibverbs-providers armhf 38.0-1 [28.6 kB]
Get:58 http://172.17.4.1/private bookworm-staging/main armhf libevent-2.1-7 armhf 2.1.12-stable-1 [167 kB]
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Get:62 http://172.17.4.1/private bookworm-staging/main armhf libevent-openssl-2.1-7 armhf 2.1.12-stable-1 [61.7 kB]
Get:63 http://172.17.4.1/private bookworm-staging/main armhf libevent-dev armhf 2.1.12-stable-1 [281 kB]
Get:64 http://172.17.4.1/private bookworm-staging/main armhf librdmacm1 armhf 38.0-1 [60.5 kB]
Get:65 http://172.17.4.1/private bookworm-staging/main armhf libfabric1 armhf 1.11.0-2 [311 kB]
Get:66 http://172.17.4.1/private bookworm-staging/main armhf libgslcblas0 armhf 2.7.1+dfsg-3 [81.4 kB]
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Get:68 http://172.17.4.1/private bookworm-staging/main armhf libgsl-dev armhf 2.7.1+dfsg-3 [958 kB]
Get:69 http://172.17.4.1/private bookworm-staging/main armhf libhwloc15 armhf 2.6.0-1 [127 kB]
Get:70 http://172.17.4.1/private bookworm-staging/main armhf libnuma1 armhf 2.0.14-3 [21.8 kB]
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Get:76 http://172.17.4.1/private bookworm-staging/main armhf libxau6 armhf 1:1.0.9-1 [19.1 kB]
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Get:78 http://172.17.4.1/private bookworm-staging/main armhf libxcb1 armhf 1.14-3 [136 kB]
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Get:83 http://172.17.4.1/private bookworm-staging/main armhf ocl-icd-libopencl1 armhf 2.2.14-3 [39.9 kB]
Get:84 http://172.17.4.1/private bookworm-staging/main armhf libhwloc-plugins armhf 2.6.0-1 [20.2 kB]
Get:85 http://172.17.4.1/private bookworm-staging/main armhf libnl-3-dev armhf 3.4.0-1 [92.4 kB]
Get:86 http://172.17.4.1/private bookworm-staging/main armhf libnl-route-3-dev armhf 3.4.0-1 [145 kB]
Get:87 http://172.17.4.1/private bookworm-staging/main armhf libibverbs-dev armhf 38.0-1 [188 kB]
Get:88 http://172.17.4.1/private bookworm-staging/main armhf libjs-jquery all 3.5.1+dfsg+~3.5.5-8 [315 kB]
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Get:92 http://172.17.4.1/private bookworm-staging/main armhf openmpi-common all 4.1.2~rc1-5+rpi1 [180 kB]
Get:93 http://172.17.4.1/private bookworm-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
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Get:95 http://172.17.4.1/private bookworm-staging/main armhf openmpi-bin armhf 4.1.2~rc1-5+rpi1+b1 [209 kB]
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Setting up autoconf (2.71-2) ...
Setting up libstdc++-11-dev:armhf (11.2.0-12+rpi1) ...
Setting up dh-strip-nondeterminism (1.12.1-1) ...
Setting up dwz (0.14-1) ...
Setting up libnl-3-dev:armhf (3.4.0-1) ...
Setting up gcc-11 (11.2.0-12+rpi1) ...
Setting up groff-base (1.22.4-7) ...
Setting up libx11-6:armhf (2:1.7.2-2) ...
Setting up automake (1:1.16.5-1.1) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libibverbs1:armhf (38.0-1) ...
Setting up ibverbs-providers:armhf (38.0-1) ...
Setting up g++-11 (11.2.0-12+rpi1) ...
Setting up openssh-client (1:8.7p1-2) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libxext6:armhf (2:1.3.4-1) ...
Setting up man-db (2.9.4-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libxnvctrl0:armhf (470.82.00-1) ...
Setting up dh-autoreconf (20) ...
Setting up libnl-route-3-dev:armhf (3.4.0-1) ...
Setting up libltdl-dev:armhf (2.4.6-15) ...
Setting up gfortran-11 (11.2.0-12+rpi1) ...
Setting up libhwloc-dev:armhf (2.6.0-1) ...
Setting up librdmacm1:armhf (38.0-1) ...
Setting up debhelper (13.5.2) ...
Setting up libibverbs-dev:armhf (38.0-1) ...
Setting up libhwloc-plugins:armhf (2.6.0-1) ...
Setting up libfabric1 (1.11.0-2) ...
Setting up libpmix2:armhf (4.1.1~rc5-1) ...
Setting up libopenmpi3:armhf (4.1.2~rc1-5+rpi1+b1) ...
Setting up libpmix-dev:armhf (4.1.1~rc5-1) ...
Setting up openmpi-bin (4.1.2~rc1-5+rpi1+b1) ...
update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode
update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode
Setting up libopenmpi-dev:armhf (4.1.2~rc1-5+rpi1+b1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/openmpi/include to provide /usr/include/arm-linux-gnueabihf/mpi (mpi-arm-linux-gnueabihf) in auto mode
Setting up sbuild-build-depends-ampliconnoise-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.32-4+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-76-generic armhf (armv8l)
Toolchain package versions: binutils_2.37-5+rpi1 dpkg-dev_1.20.9+rpi1 g++-11_11.2.0-12+rpi1 gcc-11_11.2.0-12+rpi1 libc6-dev_2.32-4+rpi1 libstdc++-11-dev_11.2.0-12+rpi1 libstdc++6_11.2.0-12+rpi1 linux-libc-dev_5.14.16-1+rpi1
Package versions: adduser_3.118 apt_2.3.12 autoconf_2.71-2 automake_1:1.16.5-1.1 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_12+rpi1 base-passwd_3.5.52 bash_5.1-3.1 binutils_2.37-5+rpi1 binutils-arm-linux-gnueabihf_2.37-5+rpi1 binutils-common_2.37-5+rpi1 bsdextrautils_2.37.2-4 bsdutils_1:2.37.2-4 build-essential_12.9 bzip2_1.0.8-4 coreutils_8.32-4.1 cpp_4:11.2.0-2+rpi1 cpp-11_11.2.0-12+rpi1 dash_0.5.11+git20210903+057cd650a4ed-3 debconf_1.5.79 debhelper_13.5.2 debianutils_4.11.2 dh-autoreconf_20 dh-strip-nondeterminism_1.12.1-1 diffutils_1:3.7-5 dirmngr_2.2.27-2 dpkg_1.20.9+rpi1 dpkg-dev_1.20.9+rpi1 dwz_0.14-1 e2fsprogs_1.46.4-1 fakeroot_1.25.3-1.1 file_1:5.41-2 findutils_4.8.0-1 g++_4:11.2.0-2+rpi1 g++-11_11.2.0-12+rpi1 gcc_4:11.2.0-2+rpi1 gcc-11_11.2.0-12+rpi1 gcc-11-base_11.2.0-12+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-4 gettext-base_0.21-4 gfortran-11_11.2.0-12+rpi1 gnupg_2.2.27-2 gnupg-l10n_2.2.27-2 gnupg-utils_2.2.27-2 gpg_2.2.27-2 gpg-agent_2.2.27-2 gpg-wks-client_2.2.27-2 gpg-wks-server_2.2.27-2 gpgconf_2.2.27-2 gpgsm_2.2.27-2 gpgv_2.2.27-2 grep_3.7-1 groff-base_1.22.4-7 gzip_1.10-4 hostname_3.23 ibverbs-providers_38.0-1 init-system-helpers_1.60 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libapt-pkg6.0_2.3.12 libarchive-zip-perl_1.68-1 libasan6_11.2.0-12+rpi1 libassuan0_2.5.5-1 libatomic1_11.2.0-12+rpi1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.6-1 libaudit1_1:3.0.6-1 libbinutils_2.37-5+rpi1 libblkid1_2.37.2-4 libbsd0_0.11.3-1 libbz2-1.0_1.0.8-4 libc-bin_2.32-4+rpi1 libc-dev-bin_2.32-4+rpi1 libc6_2.32-4+rpi1 libc6-dev_2.32-4+rpi1 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcbor0.8_0.8.0-2 libcc1-0_11.2.0-12+rpi1 libcom-err2_1.46.4-1 libcrypt-dev_1:4.4.26-1 libcrypt1_1:4.4.26-1 libctf-nobfd0_2.37-5+rpi1 libctf0_2.37-5+rpi1 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.261 libdebhelper-perl_13.5.2 libdpkg-perl_1.20.9+rpi1 libedit2_3.1-20210910-1 libelf1_0.186-1 libevent-2.1-7_2.1.12-stable-1 libevent-core-2.1-7_2.1.12-stable-1 libevent-dev_2.1.12-stable-1 libevent-extra-2.1-7_2.1.12-stable-1 libevent-openssl-2.1-7_2.1.12-stable-1 libevent-pthreads-2.1-7_2.1.12-stable-1 libext2fs2_1.46.4-1 libfabric1_1.11.0-2 libfakeroot_1.25.3-1.1 libffi8_3.4.2-3 libfido2-1_1.9.0-1+b1 libfile-stripnondeterminism-perl_1.12.1-1 libgcc-11-dev_11.2.0-12+rpi1 libgcc-s1_11.2.0-12+rpi1 libgcrypt20_1.9.4-3 libgdbm-compat4_1.22-1 libgdbm6_1.22-1 libgfortran-11-dev_11.2.0-12+rpi1 libgfortran5_11.2.0-12+rpi1 libgmp10_2:6.2.1+dfsg-3 libgnutls30_3.7.2-2 libgomp1_11.2.0-12+rpi1 libgpg-error0_1.42-3 libgsl-dev_2.7.1+dfsg-3 libgsl27_2.7.1+dfsg-3 libgslcblas0_2.7.1+dfsg-3 libgssapi-krb5-2_1.18.3-7 libhogweed6_3.7.3-1 libhwloc-dev_2.6.0-1 libhwloc-plugins_2.6.0-1 libhwloc15_2.6.0-1 libibverbs-dev_38.0-1 libibverbs1_38.0-1 libicu67_67.1-7 libidn2-0_2.3.2-2 libisl23_0.24-2 libjs-jquery_3.5.1+dfsg+~3.5.5-8 libjs-jquery-ui_1.13.0+dfsg-1 libk5crypto3_1.18.3-7 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-7 libkrb5support0_1.18.3-7 libksba8_1.6.0-2 libldap-2.4-2_2.4.59+dfsg-1 liblocale-gettext-perl_1.07-4+b1 libltdl-dev_2.4.6-15 libltdl7_2.4.6-15 liblz4-1_1.9.3-2 liblzma5_5.2.5-2 libmagic-mgc_1:5.41-2 libmagic1_1:5.41-2 libmd0_1.0.4-1 libmount1_2.37.2-4 libmpc3_1.2.1-1 libmpfr6_4.1.0-3 libncursesw6_6.3-1 libnettle8_3.7.3-1 libnl-3-200_3.4.0-1 libnl-3-dev_3.4.0-1 libnl-route-3-200_3.4.0-1 libnl-route-3-dev_3.4.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnuma-dev_2.0.14-3 libnuma1_2.0.14-3 libopenmpi-dev_4.1.2~rc1-5+rpi1+b1 libopenmpi3_4.1.2~rc1-5+rpi1+b1 libp11-kit0_0.24.0-5 libpam-modules_1.4.0-10 libpam-modules-bin_1.4.0-10 libpam-runtime_1.4.0-10 libpam0g_1.4.0-10 libpciaccess0_0.16-1 libpcre2-8-0_10.39-3 libpcre3_2:8.39-13 libperl5.32_5.32.1-6 libpipeline1_1.5.4-1 libpmix-dev_4.1.1~rc5-1 libpmix2_4.1.1~rc5-1 librdmacm1_38.0-1 libreadline8_8.1-2 libsasl2-2_2.1.27+dfsg2-2 libsasl2-modules-db_2.1.27+dfsg2-2 libseccomp2_2.5.3-2+rpi1 libselinux1_3.3-1 libsemanage-common_3.3-1 libsemanage2_3.3-1 libsepol1_3.1-1 libsepol2_3.3-1 libsigsegv2_2.13-1 libsmartcols1_2.37.2-4 libsqlite3-0_3.36.0-2 libss2_1.46.4-1 libssl1.1_1.1.1l-1 libstdc++-11-dev_11.2.0-12+rpi1 libstdc++6_11.2.0-12+rpi1 libsub-override-perl_0.09-2 libsystemd0_249.7-1+rpi1 libtasn1-6_4.18.0-4 libtext-charwidth-perl_0.04-10+b1 libtext-iconv-perl_1.7-7+b1 libtinfo6_6.3-1 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.6-15 libubsan1_11.2.0-12+rpi1 libuchardet0_0.0.7-1 libudev1_249.7-1+rpi1 libunistring2_0.9.10-6 libuuid1_2.37.2-4 libx11-6_2:1.7.2-2 libx11-data_2:1.7.2-2 libxau6_1:1.0.9-1 libxcb1_1.14-3 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.4-1 libxml2_2.9.12+dfsg-5 libxnvctrl0_470.82.00-1 libxxhash0_0.8.0-2+rpi1 libzstd1_1.4.8+dfsg-3+rpi1 linux-libc-dev_5.14.16-1+rpi1 login_1:4.8.1-2 logsave_1.46.4-1 lsb-base_11.1.0+rpi1 m4_1.4.18-5 make_4.3-4.1 man-db_2.9.4-2 mawk_1.3.4.20200120-2 mount_2.37.2-4 ncurses-base_6.3-1 ncurses-bin_6.3-1 netbase_6.3 ocl-icd-libopencl1_2.2.14-3 openmpi-bin_4.1.2~rc1-5+rpi1+b1 openmpi-common_4.1.2~rc1-5+rpi1 openssh-client_1:8.7p1-2 passwd_1:4.8.1-2 patch_2.7.6-7 perl_5.32.1-6 perl-base_5.32.1-6 perl-modules-5.32_5.32.1-6 pinentry-curses_1.1.0-4 po-debconf_1.0.21+nmu1 raspbian-archive-keyring_20120528.2 readline-common_8.1-2 rpcsvc-proto_1.4.2-4 sbuild-build-depends-ampliconnoise-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.00-1 tar_1.34+dfsg-1 tzdata_2021e-1 util-linux_2.37.2-4 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.qfsh7dmM/trustedkeys.kbx': General error
gpgv: Signature made Fri Oct 8 21:04:27 2021 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./ampliconnoise_1.29-10.dsc
dpkg-source: info: extracting ampliconnoise in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking ampliconnoise_1.29.orig.tar.gz
dpkg-source: info: unpacking ampliconnoise_1.29-10.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying fix-path-for-data.patch
dpkg-source: info: applying fix-segfault-on-non-fasta-input.patch
dpkg-source: info: applying hardening.patch
dpkg-source: info: applying clang-ftbfs.patch
dpkg-source: info: applying mayhem.patch
Check disk space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 1.29-10+b1
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=bookworm-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bookworm-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bookworm-staging-armhf-sbuild-dbe46545-1907-48e9-9e5d-df10d42f5b0d
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package ampliconnoise
dpkg-buildpackage: info: source version 1.29-10+b1
dpkg-buildpackage: info: source distribution bookworm-staging
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
(cd FCluster && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/FCluster'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *o FCluster
make[2]: Leaving directory '/<<PKGBUILDDIR>>/FCluster'
(cd FastaUnique && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/FastaUnique'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o FastaUnique
make[2]: Leaving directory '/<<PKGBUILDDIR>>/FastaUnique'
(cd NDist && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/NDist'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o NDist
make[2]: Leaving directory '/<<PKGBUILDDIR>>/NDist'
(cd PyroDist && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PyroDist'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o PyroDist
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PyroDist'
(cd PyroNoise && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PyroNoise'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o PyroNoise
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PyroNoise'
(cd PyroNoiseM && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PyroNoiseM'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o PyroNoiseM
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PyroNoiseM'
(cd PyroNoiseA && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PyroNoiseA'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o PyroNoiseA
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PyroNoiseA'
(cd SeqDist && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/SeqDist'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o SeqDist
make[2]: Leaving directory '/<<PKGBUILDDIR>>/SeqDist'
(cd SeqNoise && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/SeqNoise'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o SeqNoise
make[2]: Leaving directory '/<<PKGBUILDDIR>>/SeqNoise'
(cd SplitClusterEven && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/SplitClusterEven'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o SplitClusterEven
make[2]: Leaving directory '/<<PKGBUILDDIR>>/SplitClusterEven'
(cd SplitClusterClust && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/SplitClusterClust'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o SplitClusterClust
make[2]: Leaving directory '/<<PKGBUILDDIR>>/SplitClusterClust'
(cd Perseus && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/Perseus'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o Perseus
make[2]: Leaving directory '/<<PKGBUILDDIR>>/Perseus'
(cd PerseusD && make clean)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PerseusD'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
rm -rf *.o PerseusD
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PerseusD'
(cd bin && rm -rf *)
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_clean
rm -f *.o
rm -f *.1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules binary-arch
dh binary-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>>'
(cd FCluster && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/FCluster'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c FCluster.c
FCluster.c:223:1: warning: return type defaults to 'int' [-Wimplicit-int]
223 | UpdateMinCacheForMarkedRows(struct t_Min* asMin,float** aafDistMatrix,int nN)
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
FCluster.c: In function 'UpdateMinCacheForMarkedRows':
FCluster.c:230:13: warning: implicit declaration of function 'UpdateMinCacheForRow'; did you mean 'UpdateMinCacheForMarkedRows'? [-Wimplicit-function-declaration]
230 | UpdateMinCacheForRow(asMin,i,aafDistMatrix);
| ^~~~~~~~~~~~~~~~~~~~
| UpdateMinCacheForMarkedRows
FCluster.c: At top level:
FCluster.c:237:1: warning: return type defaults to 'int' [-Wimplicit-int]
237 | UpdateMinCacheForRow(struct t_Min* asMin,int i,float** aafDistMatrix)
| ^~~~~~~~~~~~~~~~~~~~
linking...
cc -Wl,-z,relro -Wl,-z,now -o FCluster FCluster.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/FCluster'
(cd FastaUnique && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/FastaUnique'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c FastaUnique.c
linking...
cc -Wl,-z,relro -Wl,-z,now -o FastaUnique FastaUnique.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/FastaUnique'
(cd NDist && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/NDist'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
mpicc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c NDist.c
NDist.c: In function 'readData':
NDist.c:707:59: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration]
707 | ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]);
| ^~~~~~~
NDist.c:17:1: note: include '<ctype.h>' or provide a declaration of 'toupper'
16 | #include "NDist.h"
+++ |+#include <ctype.h>
17 |
linking...
mpicc -Wl,-z,relro -Wl,-z,now -o NDist NDist.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/NDist'
(cd PyroDist && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PyroDist'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
mpicc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PyroDist.c
linking...
mpicc -Wl,-z,relro -Wl,-z,now -o PyroDist PyroDist.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PyroDist'
(cd PyroNoise && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PyroNoise'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
mpicc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PyroNoise.c
PyroNoise.c: In function 'writeCentroids':
PyroNoise.c:2073:21: warning: too many arguments for format [-Wformat-extra-args]
2073 | fprintf(stderr, "Can't open szCenFile for writing\n",szCenFile);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
linking...
mpicc -Wl,-z,relro -Wl,-z,now -o PyroNoise PyroNoise.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PyroNoise'
(cd SeqDist && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/SeqDist'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
mpicc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SeqDist.c
SeqDist.c: In function 'readData':
SeqDist.c:854:59: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration]
854 | ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]);
| ^~~~~~~
SeqDist.c:17:1: note: include '<ctype.h>' or provide a declaration of 'toupper'
16 | #include "SeqDist.h"
+++ |+#include <ctype.h>
17 |
linking...
mpicc -Wl,-z,relro -Wl,-z,now -o SeqDist SeqDist.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/SeqDist'
(cd PyroNoiseM && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PyroNoiseM'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
mpicc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PyroNoiseM.c
PyroNoiseM.c: In function 'writeCentroids':
PyroNoiseM.c:2139:21: warning: too many arguments for format [-Wformat-extra-args]
2139 | fprintf(stderr, "Can't open szCenFile for writing\n",szCenFile);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
linking...
mpicc -Wl,-z,relro -Wl,-z,now -o PyroNoiseM PyroNoiseM.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PyroNoiseM'
(cd PyroNoiseA && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PyroNoiseA'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
mpicc -O3 -c PyroNoiseA.c
linking...
mpicc -o PyroNoiseA PyroNoiseA.o -lm -Wl,-z,relro -Wl,-z,now
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PyroNoiseA'
(cd SeqNoise && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/SeqNoise'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
mpicc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SeqNoise.c
SeqNoise.c: In function 'main':
SeqNoise.c:120:25: warning: too many arguments for format [-Wformat-extra-args]
120 | if(bVerbose){printf("%d: Broadcast distance matrix\n", rank, nSize, nPacket); fflush(stdout);}
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SeqNoise.c: In function 'readData':
SeqNoise.c:652:59: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration]
652 | ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]);
| ^~~~~~~
SeqNoise.c:9:1: note: include '<ctype.h>' or provide a declaration of 'toupper'
8 | #include "SeqNoise.h"
+++ |+#include <ctype.h>
9 |
linking...
mpicc -Wl,-z,relro -Wl,-z,now -o SeqNoise SeqNoise.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/SeqNoise'
(cd SplitClusterEven && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/SplitClusterEven'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SplitClusterEven.c
SplitClusterEven.c: In function 'readMapFile':
SplitClusterEven.c:681:19: warning: too many arguments for format [-Wformat-extra-args]
681 | fprintf(stderr, "Failed to open map file\n", szMapFile);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
SplitClusterEven.c: In function 'main':
SplitClusterEven.c:89:28: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=]
89 | sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX);
| ^~ ~~~~~
SplitClusterEven.c:89:5: note: 'sprintf' output between 7 and 2053 bytes into a destination of size 1024
89 | sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SplitClusterEven.c:90:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=]
90 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX);
| ^~ ~~~~~
SplitClusterEven.c:90:5: note: 'sprintf' output between 6 and 2052 bytes into a destination of size 1024
90 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SplitClusterEven.c:91:28: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=]
91 | sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX);
| ^~ ~~~~~
SplitClusterEven.c:91:5: note: 'sprintf' output between 7 and 2053 bytes into a destination of size 1024
91 | sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SplitClusterEven.c:142:30: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=]
142 | sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX);
| ^~ ~~~~~
SplitClusterEven.c:142:7: note: 'sprintf' output between 7 and 2053 bytes into a destination of size 1024
142 | sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SplitClusterEven.c:143:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=]
143 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX);
| ^~ ~~~~~
SplitClusterEven.c:143:7: note: 'sprintf' output between 6 and 2052 bytes into a destination of size 1024
143 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SplitClusterEven.c:144:30: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=]
144 | sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX);
| ^~ ~~~~~
SplitClusterEven.c:144:7: note: 'sprintf' output between 7 and 2053 bytes into a destination of size 1024
144 | sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
linking...
cc -Wl,-z,relro -Wl,-z,now -o SplitClusterEven SplitClusterEven.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/SplitClusterEven'
(cd SplitClusterClust && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/SplitClusterClust'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
gcc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SplitClusterClust.c
SplitClusterClust.c: In function 'readMapFile':
SplitClusterClust.c:316:19: warning: too many arguments for format [-Wformat-extra-args]
316 | fprintf(stderr, "Failed to open map file\n", szMapFile);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
SplitClusterClust.c: In function 'main':
SplitClusterClust.c:52:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=]
52 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX);
| ^~ ~~~~~
SplitClusterClust.c:52:7: note: 'sprintf' output between 6 and 2052 bytes into a destination of size 1024
52 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SplitClusterClust.c:88:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=]
88 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX);
| ^~ ~~~~~
SplitClusterClust.c:88:7: note: 'sprintf' output between 6 and 2052 bytes into a destination of size 1024
88 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
linking...
gcc -Wl,-z,relro -Wl,-z,now -o SplitClusterClust SplitClusterClust.o -lm
make[2]: Leaving directory '/<<PKGBUILDDIR>>/SplitClusterClust'
(cd Perseus && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/Perseus'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c Perseus.c
Perseus.c: In function 'readData':
Perseus.c:856:59: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration]
856 | ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]);
| ^~~~~~~
Perseus.c:17:1: note: include '<ctype.h>' or provide a declaration of 'toupper'
16 | #include "Perseus.h"
+++ |+#include <ctype.h>
17 |
Perseus.c: In function 'calcLoonIndex':
Perseus.c:1637:34: warning: '%s' directive writing up to 65535 bytes into a region of size 65524 [-Wformat-overflow=]
1637 | sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE);
| ^~ ~~~~~~~~~~~
Perseus.c:1637:3: note: 'sprintf' output between 28 and 131098 bytes into a destination of size 65536
1637 | sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
linking...
cc -Wl,-z,relro -Wl,-z,now -o Perseus Perseus.o -lm -lgsl -lgslcblas
make[2]: Leaving directory '/<<PKGBUILDDIR>>/Perseus'
(cd PerseusD && CFLAGS="-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make)
make[2]: Entering directory '/<<PKGBUILDDIR>>/PerseusD'
make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule.
cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PerseusD.c
PerseusD.c: In function 'readData':
PerseusD.c:908:59: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration]
908 | ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]);
| ^~~~~~~
PerseusD.c:17:1: note: include '<ctype.h>' or provide a declaration of 'toupper'
16 | #include "PerseusD.h"
+++ |+#include <ctype.h>
17 |
PerseusD.c: In function 'calcLoonIndex':
PerseusD.c:1648:34: warning: '%s' directive writing up to 65535 bytes into a region of size 65524 [-Wformat-overflow=]
1648 | sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE);
| ^~ ~~~~~~~~~~~
PerseusD.c:1648:3: note: 'sprintf' output between 28 and 131098 bytes into a destination of size 65536
1648 | sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
linking...
cc -Wl,-z,relro -Wl,-z,now -o PerseusD PerseusD.o -lm -lgsl -lgslcblas
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PerseusD'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a
create-stamp debian/debhelper-build-stamp
dh_prep -a
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
make install
make[2]: Entering directory '/<<PKGBUILDDIR>>'
cp FCluster/FCluster bin
cp FastaUnique/FastaUnique bin
cp NDist/NDist bin
cp PyroDist/PyroDist bin
cp PyroNoise/PyroNoise bin
cp PyroNoiseM/PyroNoiseM bin
cp PyroNoiseA/PyroNoiseA bin
cp SeqDist/SeqDist bin
cp SeqNoise/SeqNoise bin
cp SplitClusterEven/SplitClusterEven bin
cp SplitClusterClust/SplitClusterClust bin
cp Perseus/Perseus bin
cp PerseusD/PerseusD bin
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
dh_install bin/* /usr/bin
dh_install Data/* /usr/share/ampliconnoise/Data/
dh_install Scripts/* /usr/share/ampliconnoise/Scripts/
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installdocs -a
dh_installchangelogs -a
dh_installexamples -a
debian/rules override_dh_installman
make[1]: Entering directory '/<<PKGBUILDDIR>>'
debian/ampliconnoise.pod
pod2man -c AmpliconNoise Documentation debian/ampliconnoise.pod > ampliconnoise.1
dh_installman ampliconnoise.1
( for f in bin/* ; do \
ln -s ampliconnoise.1 debian/ampliconnoise/usr/share/man/man1/`basename "$f"`.1 ; \
done )
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
debian/rules override_dh_compress
make[1]: Entering directory '/<<PKGBUILDDIR>>'
# Use xz compression for data file to shrink size even more
find debian -name C005.dat -exec xz \{\} \;
dh_compress --exclude=.pdf
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_fixperms -a
dh_missing -a
dh_dwz -a
dwz: debian/ampliconnoise/usr/bin/PyroNoiseA: .debug_info section not present
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/ampliconnoise/usr/bin/PerseusD debian/ampliconnoise/usr/bin/SeqDist debian/ampliconnoise/usr/bin/FastaUnique debian/ampliconnoise/usr/bin/PyroNoiseM debian/ampliconnoise/usr/bin/Perseus debian/ampliconnoise/usr/bin/PyroNoise debian/ampliconnoise/usr/bin/FCluster debian/ampliconnoise/usr/bin/SeqNoise debian/ampliconnoise/usr/bin/SplitClusterClust debian/ampliconnoise/usr/bin/NDist debian/ampliconnoise/usr/bin/SplitClusterEven debian/ampliconnoise/usr/bin/PyroDist were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: package ampliconnoise: substitution variable ${perl:Depends} unused, but is defined
dpkg-gencontrol: warning: package ampliconnoise: substitution variable ${perl:Depends} unused, but is defined
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'ampliconnoise-dbgsym' in '../ampliconnoise-dbgsym_1.29-10+b1_armhf.deb'.
dpkg-deb: building package 'ampliconnoise' in '../ampliconnoise_1.29-10+b1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../ampliconnoise_1.29-10+b1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2021-12-09T07:28:51Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
ampliconnoise_1.29-10+b1_armhf.changes:
---------------------------------------
Format: 1.8
Date: Fri, 08 Oct 2021 23:00:19 +0200
Source: ampliconnoise (1.29-10)
Binary: ampliconnoise ampliconnoise-dbgsym
Binary-Only: yes
Architecture: armhf
Version: 1.29-10+b1
Distribution: bookworm-staging
Urgency: low
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Description:
ampliconnoise - removal of noise from 454 sequenced PCR amplicons
Changes:
ampliconnoise (1.29-10+b1) bookworm-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild due to debcheck failure
Checksums-Sha1:
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23e0a2b975735b5ddda5fb82e270deaf6bb7894f 6949 ampliconnoise_1.29-10+b1_armhf.buildinfo
712e983bcc274269a2973b0d2e096eb5f3bdcbfe 1078856 ampliconnoise_1.29-10+b1_armhf.deb
Checksums-Sha256:
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9de0fba01c99ddb0e433be3687a6fa3efb404cde3f3b1d4ac2c92ff1aacfc934 6949 ampliconnoise_1.29-10+b1_armhf.buildinfo
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Files:
52cac94fdb7f036e081e9865ed1a1cbf 298824 debug optional ampliconnoise-dbgsym_1.29-10+b1_armhf.deb
425fda1dd352c28f59812083a46bb35c 6949 science optional ampliconnoise_1.29-10+b1_armhf.buildinfo
017672a8a67d32bbc79343a68eadedcc 1078856 science optional ampliconnoise_1.29-10+b1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
ampliconnoise-dbgsym_1.29-10+b1_armhf.deb
-----------------------------------------
new Debian package, version 2.0.
size 298824 bytes: control archive=1196 bytes.
902 bytes, 12 lines control
1471 bytes, 14 lines md5sums
Package: ampliconnoise-dbgsym
Source: ampliconnoise (1.29-10)
Version: 1.29-10+b1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 408
Depends: ampliconnoise (= 1.29-10+b1)
Section: debug
Priority: optional
Description: debug symbols for ampliconnoise
Build-Ids: 0e436156d32f314583cdd5818199305fc4fab80c 247f87fe8965aa21ed58a5b7447eccb61443d4ef 2f2a20855b7fcb23ae96a8e64d4945829b54ce09 706aab01c2fe06dce4adff98dedb4dff07d26e4a 72c0c0e026903bb2f5ea403392fd9cd7465e4dae 9340d6001965eb93f5b76a8d834c2daf01e6ceae 9765edfc326f1d3bd4f0dddb283e0fd1b4c2224d a1d1970c3423d1dc673a01a9395ad8d4524ec387 a34e2adc774314008ae1aad0d2b05206b83a79e8 bb36109779485fefc48d9ca4f1f27618b636f19d d047667859e40fab3bd8c03993bc3ad96e29f5d6 d2491be9934d419e9031077a800274d5cf0c8c02 dbba0f8d08ec050d8e1e4c7a81256ea1205aa60a
drwxr-xr-x root/root 0 2021-10-08 21:00 ./
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-rw-r--r-- root/root 12944 2021-10-08 21:00 ./usr/lib/debug/.build-id/a1/d1970c3423d1dc673a01a9395ad8d4524ec387.debug
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drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/lib/debug/.dwz/
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-rw-r--r-- root/root 4524 2021-10-08 21:00 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/ampliconnoise.debug
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/doc/
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/doc/ampliconnoise-dbgsym -> ampliconnoise
ampliconnoise_1.29-10+b1_armhf.deb
----------------------------------
new Debian package, version 2.0.
size 1078856 bytes: control archive=2736 bytes.
950 bytes, 23 lines control
5387 bytes, 73 lines md5sums
Package: ampliconnoise
Source: ampliconnoise (1.29-10)
Version: 1.29-10+b1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1876
Depends: libc6 (>= 2.29), libgsl27 (>= 2.7.1), libopenmpi3 (>= 4.1.2~rc1), mafft
Recommends: openmpi-bin
Section: science
Priority: optional
Homepage: https://github.com/lanzen/ampliconnoise
Description: removal of noise from 454 sequenced PCR amplicons
AmpliconNoise is a package of applications to clean up high-throughput
sequence data. It consists of three main parts:
.
Pyronoise - does flowgram-based clustering to spot misreads
SeqNoise - removes PCR point mutations
Perseus - removes PCR chimeras without the need for a set of reference
sequences
.
Previously there was a standalone "Pyronoise" by the same authors and
this package includes an updated version. There is also a "Denoiser"
in Qiime which is related but distinct.
drwxr-xr-x root/root 0 2021-10-08 21:00 ./
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/bin/
-rwxr-xr-x root/root 18016 2021-10-08 21:00 ./usr/bin/FCluster
-rwxr-xr-x root/root 9860 2021-10-08 21:00 ./usr/bin/FastaUnique
-rwxr-xr-x root/root 13940 2021-10-08 21:00 ./usr/bin/NDist
-rwxr-xr-x root/root 30316 2021-10-08 21:00 ./usr/bin/Perseus
-rwxr-xr-x root/root 30316 2021-10-08 21:00 ./usr/bin/PerseusD
-rwxr-xr-x root/root 18016 2021-10-08 21:00 ./usr/bin/PyroDist
-rwxr-xr-x root/root 46688 2021-10-08 21:00 ./usr/bin/PyroNoise
-rwxr-xr-x root/root 50596 2021-10-08 21:00 ./usr/bin/PyroNoiseA
-rwxr-xr-x root/root 50784 2021-10-08 21:00 ./usr/bin/PyroNoiseM
-rwxr-xr-x root/root 18020 2021-10-08 21:00 ./usr/bin/SeqDist
-rwxr-xr-x root/root 34404 2021-10-08 21:00 ./usr/bin/SeqNoise
-rwxr-xr-x root/root 9824 2021-10-08 21:00 ./usr/bin/SplitClusterClust
-rwxr-xr-x root/root 18016 2021-10-08 21:00 ./usr/bin/SplitClusterEven
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/ampliconnoise/
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/ampliconnoise/Data/
-rw-r--r-- root/root 140066 2013-08-01 14:37 ./usr/share/ampliconnoise/Data/LookUp.dat
-rw-r--r-- root/root 140432 2013-08-01 14:37 ./usr/share/ampliconnoise/Data/LookUp_E123.dat
-rw-r--r-- root/root 140348 2013-08-01 14:37 ./usr/share/ampliconnoise/Data/LookUp_Titanium.dat
-rw-r--r-- root/root 156 2013-08-01 14:37 ./usr/share/ampliconnoise/Data/Tran.dat
-rw-r--r-- root/root 44 2013-08-01 14:37 ./usr/share/ampliconnoise/Data/TranN.dat
-rw-r--r-- root/root 156 2013-08-01 14:37 ./usr/share/ampliconnoise/Data/Tran_D.dat
-rw-r--r-- root/root 150 2013-08-01 14:37 ./usr/share/ampliconnoise/Data/Tran_V6.dat
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/ampliconnoise/Scripts/
-rwxr-xr-x root/root 1726 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/CSV.pl
-rwxr-xr-x root/root 645 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Class.pl
-rwxr-xr-x root/root 130 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Clean.sh
-rwxr-xr-x root/root 1954 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Clean360.pl
-rwxr-xr-x root/root 2604 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/CleanAcyclic.pl
-rwxr-xr-x root/root 2554 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/CleanBoth.pl
-rwxr-xr-x root/root 2460 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/CleanBothM.pl
-rwxr-xr-x root/root 2468 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/CleanMinMax.pl
-rwxr-xr-x root/root 133 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/CleanMinMax.sh
-rwxr-xr-x root/root 751 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/ConvertDatFasta.pl
-rwxr-xr-x root/root 268 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/CountFasta.pl
-rwxr-xr-x root/root 185 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/CountSequences.pl
-rwxr-xr-x root/root 1335 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Diversity.pl
-rwxr-xr-x root/root 896 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/FilterGoodClass.pl
-rwxr-xr-x root/root 3001 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/FlowsFA.pl
-rwxr-xr-x root/root 3008 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/FlowsFA360.pl
-rwxr-xr-x root/root 3117 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/FlowsMinMax.pl
-rwxr-xr-x root/root 495 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Join.pl
-rwxr-xr-x root/root 789 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Map.pl
-rwxr-xr-x root/root 374 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/MedianS.sh
-rwxr-xr-x root/root 671 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Parse.pl
-rwxr-xr-x root/root 687 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/ParseBoth.pl
-rwxr-xr-x root/root 1901 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Qiime.pl
-rwxr-xr-x root/root 2772 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Qiime_OTU.pl
-rwxr-xr-x root/root 1746 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Qiime_Typical.pl
-rwxr-xr-x root/root 11538 2013-08-01 14:50 ./usr/share/ampliconnoise/Scripts/RunBoth.sh
-rwxr-xr-x root/root 11534 2013-08-01 14:54 ./usr/share/ampliconnoise/Scripts/RunBothFLX.sh
-rwxr-xr-x root/root 11195 2013-08-01 14:40 ./usr/share/ampliconnoise/Scripts/RunFLX.sh
-rwxr-xr-x root/root 11259 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/RunTitanium.sh
-rwxr-xr-x root/root 11259 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/RunTitaniumA.sh
-rwxr-xr-x root/root 14461 2013-08-01 14:40 ./usr/share/ampliconnoise/Scripts/RunTitaniumFast.sh
-rwxr-xr-x root/root 13951 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/RunTitaniumWeb.sh
-rwxr-xr-x root/root 967 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Split.pl
-rwxr-xr-x root/root 3580 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/SplitKeys.pl
-rwxr-xr-x root/root 3440 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/SplitKeysBoth.pl
-rwxr-xr-x root/root 2839 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/SplitKeysFlower.pl
-rwxr-xr-x root/root 538 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Sub.pl
-rwxr-xr-x root/root 320 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Subsample.sh
-rwxr-xr-x root/root 699 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/SubsampleDat.pl
-rwxr-xr-x root/root 225 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Truncate.pl
-rwxr-xr-x root/root 1747 2013-08-01 14:37 ./usr/share/ampliconnoise/Scripts/Typical.pl
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/doc-base/
-rw-r--r-- root/root 808 2021-10-08 21:00 ./usr/share/doc-base/ampliconnoise.ampliconnoise
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/doc/
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/
-rw-r--r-- root/root 306514 2013-08-01 14:53 ./usr/share/doc/ampliconnoise/Doc.pdf
-rw-r--r-- root/root 353 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/README.Debian
-rw-r--r-- root/root 866 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/README.source
-rw-r--r-- root/root 717 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/README.test
-rw-r--r-- root/root 225 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/changelog.Debian.armhf.gz
-rw-r--r-- root/root 2585 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/changelog.Debian.gz
-rw-r--r-- root/root 1214 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/copyright
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/examples/
-rw-r--r-- root/root 632232 2013-08-01 14:37 ./usr/share/doc/ampliconnoise/examples/C005.dat.xz
-rwxr-xr-x root/root 1835 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/examples/Run.sh
-rw-r--r-- root/root 1487 2021-10-08 21:00 ./usr/share/doc/ampliconnoise/run-unit-test
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/man/
drwxr-xr-x root/root 0 2021-10-08 21:00 ./usr/share/man/man1/
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/FCluster.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/FastaUnique.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/NDist.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/Perseus.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/PerseusD.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/PyroDist.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/PyroNoise.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/PyroNoiseA.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/PyroNoiseM.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/SeqDist.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/SeqNoise.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/SplitClusterClust.1.gz -> ampliconnoise.1.gz
lrwxrwxrwx root/root 0 2021-10-08 21:00 ./usr/share/man/man1/SplitClusterEven.1.gz -> ampliconnoise.1.gz
-rw-r--r-- root/root 2822 2021-10-08 21:00 ./usr/share/man/man1/ampliconnoise.1.gz
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| Post Build |
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| Cleanup |
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Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
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| Summary |
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Build Architecture: armhf
Build-Space: 13204
Build-Time: 63
Distribution: bookworm-staging
Host Architecture: armhf
Install-Time: 311
Job: ampliconnoise_1.29-10
Machine Architecture: armhf
Package: ampliconnoise
Package-Time: 393
Source-Version: 1.29-10
Space: 13204
Status: successful
Version: 1.29-10+b1
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Finished at 2021-12-09T07:28:51Z
Build needed 00:06:33, 13204k disk space