Your message dated Thu, 9 Jan 2020 15:26:04 +0100
with message-id <5a98b45f-00a7-35dd-4f44-7437c74d7...@debian.org>
and subject line Re: Bug#947423: kallisto ftbfs with htslib 1.10.2
has caused the Debian Bug report #947423,
regarding kallisto ftbfs with htslib 1.10.2
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.
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947423: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=947423
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: kallisto
Version: 0.46.1+dfsg-1
Severity: serious
Justification: ftbfs
Tags: ftbfs sid bullseye
Dear maintainer,
Your package is part of the htslib 1.10.2 transition. I tried to binNMU
your package but it fails to build from source. Please have a look.
Paul
https://buildd.debian.org/status/package.php?p=kallisto
Tail of log for kallisto on amd64:
86 | } kstring_t;
| ^~~~~~~~~
[ 66%] Building CXX object src/CMakeFiles/kallisto_core.dir/common.cpp.o
cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/src && /usr/bin/c++
-I/<<PKGBUILDDIR>>/src -I/usr/include/hdf5/serial -g -O2
-fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o
CMakeFiles/kallisto_core.dir/common.cpp.o -c /<<PKGBUILDDIR>>/src/common.cpp
[ 71%] Building CXX object src/CMakeFiles/kallisto_core.dir/h5utils.cpp.o
cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/src && /usr/bin/c++
-I/<<PKGBUILDDIR>>/src -I/usr/include/hdf5/serial -g -O2
-fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o
CMakeFiles/kallisto_core.dir/h5utils.cpp.o -c
/<<PKGBUILDDIR>>/src/h5utils.cpp
make[3]: *** [src/CMakeFiles/kallisto_core.dir/build.make:209:
src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o] Error 1
make[3]: *** Waiting for unfinished jobs....
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[2]: *** [CMakeFiles/Makefile2:131:
src/CMakeFiles/kallisto_core.dir/all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[1]: *** [Makefile:133: all] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
dh_auto_build: cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install
--strip-program=true" returned exit code 2
make: *** [debian/rules:14: build-arch] Error 255
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--- End Message ---
--- Begin Message ---
Version: 0.46.1+dfsg-2
Hi Andreas,
On 09-01-2020 14:36, Andreas Tille wrote:
> do you have continuous issues with kallisto?
Normally we only try to build once. And it failed on all arches.
> On Fri, Jan 03, 2020 at 07:27:57PM +0100, Andreas Tille wrote:
>> Control: tags -1 unreproducible
>>
>> Hi Paul,
I never saw your message, until the message of today. Remember, the bts
doesn't notify the submitter of a bug about messages to the bug by default.
>> I've build kallisto in an unstable pbuilder chroot without any problems.
Well, there is now the give-back facility. If you were convinced the
package was fine, you could give it back yourself. However, one day
after I filed the bug, somebody uploaded 0.46.1+dfsg-2 which fixed the
issue apparently. Could you really not have found that out yourself and
just close the bug like I do now, so that I didn't have to investigate
it for you?
Paul
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--- End Message ---
