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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http://fam-tille.de
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