Re: Flexbar 2.5 release
Hi again,
any hint about the failed test with unsupported zlib?
Kind regards
Andreas.
On Thu, Aug 07, 2014 at 02:14:49PM +0200, Andreas Tille wrote:
> Hi Johannes,
>
> somehow this update went out of my focus. I now catched up and updated
> the packaging to also include running the test suite. My test endet up
> in
>
> make[1]: Entering directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu'
> /usr/bin/cmake -H/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src -B/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0
> /usr/bin/cmake -E cmake_progress_start /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu/CMakeFiles /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gn
> make -f CMakeFiles/Makefile2 all
> make[2]: Entering directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu'
> make -f src/CMakeFiles/flexbar.dir/build.make src/CMakeFiles/flexbar.dir/depend
> make[3]: Entering directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu'
> cd /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src /home/tillea/d
> Scanning dependencies of target flexbar
> make[3]: Leaving directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu'
> make -f src/CMakeFiles/flexbar.dir/build.make src/CMakeFiles/flexbar.dir/build
> make[3]: Entering directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu'
> /usr/bin/cmake -E cmake_progress_report /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu/CMakeFiles 1
> [100%] Building CXX object src/CMakeFiles/flexbar.dir/Flexbar.cpp.o
> cd /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu/src && /usr/bin/c++ -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werro
> Linking CXX executable ../flexbar
> cd /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/flexbar.dir/link.txt --verbose=1
> /usr/bin/c++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/flexbar.dir/Flexbar.cpp.o -o ../flexbar -rdynamic -ltbb -lz -lbz2
> make[3]: Leaving directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu'
> /usr/bin/cmake -E cmake_progress_report /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu/CMakeFiles 1
> [100%] Built target flexbar
> make[2]: Leaving directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu'
> /usr/bin/cmake -E cmake_progress_start /home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu/CMakeFiles 0
> make[1]: Leaving directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src/obj-x86_64-linux-gnu'
> debian/rules override_dh_auto_test
> make[1]: Entering directory '/home/tillea/debian-maintain/repack/flexbar/flexbar_v2.5_src'
> cd test; PATH="../obj-*;$PATH" ./flexbar_validate.sh
>
> Testing fasta:
> Test 1 OK
> Test 2 OK
> Test 3 OK
> Test 4 OK
> Test 5 OK
>
> Testing csfasta:
> Test 1 OK
> Test 2 OK
> Test 3 OK
> Test 4 OK
> Test 5 OK
>
> Testing fastq:
> Test 1 OK
> Test 2 OK
> Test 3 OK
> Test 4 OK
> Test 5 OK
>
> Testing csfastq:
> Test 1 OK
> Test 2 OK
> Test 3 OK
> Test 4 OK
> Test 5 OK
>
> Testing decompression:
> Input file decompression canceled.
> This build does not support zlib!
>
> debian/rules:9: recipe for target 'override_dh_auto_test' failed
>
>
>
> ...
>
> Do I need some other options to cmake to enable zlib? The Build
> says:
> -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1
>
> Or is this some issue that needs to be fixed in seqan library?
>
> Kind regards
>
> Andreas.
>
>
> On Tue, Jul 01, 2014 at 10:03:40PM +0200, Röhr, Johannes wrote:
> > Hey Tony and Andreas,
> >
> > yesterday, I released Flexbar version 2.5 on sourceforge. A source download is provided and the release is tagged in the svn repo, so the new version would be ready for packaging. By the way, I also included some tests to check compression support.
> >
> > Kind regards,
> > Johannes
>
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>
>
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