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Re: Lets maintain libbpp-phyl-omics in Debian Med team



Hi Julien,

On Sat, Apr 09, 2016 at 12:19:07AM +0200, Andreas Tille wrote:
> 
> I've started with libbpp-core[1] which is now conform to Debian Med
> policy and fixes two open bugs.  I have not yet closed "FTBFS with GCC
> 6: cannot convert x to y" [2].  It would be great if you as upstream
> could have a look and make sure it will at least be fixed in the next
> release (or tell me if it is fixed even in the current release).
> 
> I'll continue with the other packages in this manner.

I continued with libbpp-seq[3] but this build shows a problem when
running the test suite:

   dh_auto_test
        make -j1 test ARGS\+=-j1
make[1]: Verzeichnis „/home/andreas/debian-maintain/alioth/debian-med_git/build-area/libbpp-seq-2.2.0/obj-x86_64-linux-gnu“ wird betreten
Running tests...
/usr/bin/ctest --force-new-ctest-process -j1
Test project /home/andreas/debian-maintain/alioth/debian-med_git/build-area/libbpp-seq-2.2.0/obj-x86_64-linux-gnu
    Start 1: test_alphabets
1/7 Test #1: test_alphabets ...................   Passed    0.01 sec
    Start 2: test_sequences
2/7 Test #2: test_sequences ...................   Passed    0.01 sec
    Start 3: test_io
3/7 Test #3: test_io ..........................***Exception: Other  0.01 sec
terminate called after throwing an instance of 'bpp::IOException'
  what():  Fasta::appendFromStream: can't read from istream input

    Start 4: test_containers
4/7 Test #4: test_containers ..................   Passed    0.01 sec
    Start 5: test_alignment_scores
5/7 Test #5: test_alignment_scores ............   Passed    0.01 sec
    Start 6: test_walker
6/7 Test #6: test_walker ......................   Passed    0.02 sec
    Start 7: test_bowker
7/7 Test #7: test_bowker ......................   Passed   76.56 sec

86% tests passed, 1 tests failed out of 7

Total Test time (real) =  76.62 sec

The following tests FAILED:
          3 - test_io (OTHER_FAULT)
Errors while running CTest
Makefile:130: die Regel für Ziel „test“ scheiterte
make[1]: *** [test] Fehler 8


(Sorry for German locale).

Since libcpp-core needed to pass the new queue due to the name change
forced by the g++-5 transition you need to use your own libbpp-core-dev
package to reproduce this build which hopefully will express the same
problem.  Could you please comment on this?

Kind regards

      Andreas.

> [1] https://anonscm.debian.org/git/debian-med/libbpp-core.git
> [2] https://bugs.debian.org/811657
[3] https://anonscm.debian.org/git/debian-med/libbpp-seq.git

-- 
http://fam-tille.de


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