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GMOD / mimosa

Miniature Model Organism Sequence Aligner
http://gmod.github.com/mimosa/
Artistic License 2.0
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Failing tests on master #129

Closed leto closed 12 years ago

leto commented 12 years ago

These tests were passing on my machine because of already-existing files.

Test Summary Report
-------------------
./t/014_submit_multiple_sequence_sets.t (Wstat: 1536 Tests: 7 Failed: 6)
  Failed tests:  2-7
  Non-zero exit status: 6
./t/015_mimosa_database.t              (Wstat: 768 Tests: 6 Failed: 3)
  Failed tests:  2, 4-5
  Non-zero exit status: 3
./t/integration/blast.t                (Wstat: 768 Tests: 33 Failed: 3)
  Failed tests:  30-32
  Non-zero exit status: 3
Files=25, Tests=169, 55 wallclock secs ( 0.18 usr  0.04 sys + 44.78 cusr  3.88 csys = 48.88 CPU)
Result: FAIL
leto commented 12 years ago

014_submit_multiple_sequence_sets.t fails when this happens:

Two already-indexed sequences are aligned against, i.e. we have their SHA1's in the database. The codepath does not populate $composite_fasta, but later on attempts to write $composite_fasta to a file.

leto commented 12 years ago

Fixed failing tests. The condition described above is happening on the Mimosa VM, but I can't seem to reproduce a test for it. Opening up a new issue for it.