[Debian-med-packaging] Bug#848735: pynast: FTBFS: Test failures

[Andreas Tille]

Hi Aaron and Olivier,

seems the latest upgrade of ncbi-tools affected further packages.

Aaron, may I assume that changing Build-Depends to

   ncbi-blast+-legacy (>= 2.5.0-2~) | blast2

also in the case of pynast is apropriate?

Could you give some hint for a patch to fix this test suite error:

======================================================================
ERROR: test_align_two_seqs_with_blast (__main__.PyNastTests)
align_two_seqs: fns for simple alignments with blast (bl2seq)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/tests/test_util.py", line 332, in test_align_two_seqs_with_blast
    self.assertEqual(align_two_seqs(s1,s2,f),(s1,s2))
  File "/<<PKGBUILDDIR>>/build/lib.linux-x86_64-2.7/pynast/util.py", line 243, in align_two_seqs
    aln = align_unaligned_seqs_f(seqs,moltype,params=params)
  File "/<<PKGBUILDDIR>>/build/lib.linux-x86_64-2.7/pynast/util.py", line 153, in blast_align_unaligned_seqs
    raise RuntimeError, "bl2seq failed:\n %s" % bl2seq_res
RuntimeError: bl2seq failed:
 768

----------------------------------------------------------------------
Ran 30 tests in 1.050s


Kind regards

        Andreas.

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