Your message dated Wed, 02 Jan 2019 11:19:50 +0000
with message-id <e1geeyw-000cyf...@fasolo.debian.org>
and subject line Bug#916262: fixed in staden-io-lib 1.14.11-6
has caused the Debian Bug report #916262,
regarding staden-io-lib: data/xx#unsorted.sam fails randomly
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
916262: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=916262
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: staden-io-lib
Version: 1.14.11-5
Severity: serious
Tags: ftbfs
Control: block 912272 by -1
https://buildd.debian.org/status/package.php?p=staden-io-lib
https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/staden-io-lib.html
...
=== testing ./data/xx#unsorted.sam ===
../progs/scramble ./data/xx#unsorted.sam test.out/xx#unsorted.bam
../progs/scramble -r ./data/xx.fa test.out/xx#unsorted.bam
test.out/xx#unsorted.full.cram
../progs/scramble test.out/xx#unsorted.bam > test.out/tmp.sam
../progs/scramble test.out/xx#unsorted.full.cram >
test.out/xx#unsorted.full.sam
../progs/scramble -O bam test.out/xx#unsorted.full.cram >
test.out/xx#unsorted.full.bam
../progs/scramble test.out/xx#unsorted.full.bam test.out/tmp.sam
./compare_sam.pl --nopg test.out/xx#unsorted.full.sam
test.out/xx#unsorted.full.bam.sam
../progs/scramble -x -r ./data/xx.fa test.out/xx#unsorted.bam
test.out/xx#unsorted.full.cram
../progs/scramble test.out/xx#unsorted.full.cram >
test.out/xx#unsorted.full.sam
./compare_sam.pl --unknownrg ./data/xx#unsorted.sam
test.out/xx#unsorted.full.bam.sam
../progs/scramble -H -r ./data/ce.fa test.out/ce#sorted.full.cram
No region: 1024176
FAIL: scram.test
...
=== testing ./data/xx#unsorted.sam ===
../progs/scramble -t4 ./data/xx#unsorted.sam test.out/xx#unsorted.bam
../progs/scramble -t4 -r ./data/xx.fa test.out/xx#unsorted.bam
test.out/xx#unsorted.full.cram
../progs/scramble -t4 test.out/xx#unsorted.bam > test.out/tmp.sam
../progs/scramble -t4 test.out/xx#unsorted.full.cram >
test.out/xx#unsorted.full.sam
../progs/scramble -t4 -O bam test.out/xx#unsorted.full.cram >
test.out/xx#unsorted.full.bam
../progs/scramble -t4 test.out/xx#unsorted.full.bam test.out/tmp.sam
./compare_sam.pl --nopg test.out/xx#unsorted.full.sam
test.out/xx#unsorted.full.bam.sam
../progs/scramble -t4 -x -r ./data/xx.fa test.out/xx#unsorted.bam
test.out/xx#unsorted.full.cram
../progs/scramble -t4 test.out/xx#unsorted.full.cram >
test.out/xx#unsorted.full.sam
./compare_sam.pl --unknownrg ./data/xx#unsorted.sam
test.out/xx#unsorted.full.bam.sam
../progs/scramble -t4 -H -r ./data/ce.fa test.out/ce#sorted.full.cram
No region: 1024176
FAIL: scram_mt.test
...
data/xx#unsorted.sam seems to fail randomly, with failures and passes
seen on the same architecture (including amd64).
--- End Message ---
--- Begin Message ---
Source: staden-io-lib
Source-Version: 1.14.11-6
We believe that the bug you reported is fixed in the latest version of
staden-io-lib, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to 916...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated staden-io-lib
package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Wed, 02 Jan 2019 03:08:23 -0800
Source: staden-io-lib
Binary: staden-io-lib-utils libstaden-read-dev libstaden-read13
staden-io-lib-examples
Architecture: source
Version: 1.14.11-6
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Michael R. Crusoe <michael.cru...@gmail.com>
Description:
libstaden-read-dev - development files for libstaden-read
libstaden-read13 - Staden library for reading and writing DNA sequencing
results
staden-io-lib-examples - programs for manipulating DNA sequencing files (usage
examples)
staden-io-lib-utils - programs for manipulating DNA sequencing files
Closes: 916262
Changes:
staden-io-lib (1.14.11-6) unstable; urgency=medium
.
* Switch to -O0 on armhf, mips. Closes: #916262
* Standards-Version: 4.3.0
* debian/control: mark staden-io-lib-examples as Multi-Arch: foreign
* changelog & debian/patches/spelling: typo fix (independent)
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