On Thu, Jul 30, 2009 at 05:42:00PM -0700, Marek Szuba wrote:
-> I have just noticed it is no longer possible to run tests not from
-> inside the tests/ directory, as it causes blast_test to fail three
-> times on not being to open the file 'gapping.fa'. This has been caused
-> by said file being opened as "'data/gapping.fa'" rather than
-> "testutil.datafile('gapping.fa')". I have modified blast_test.py to use
-> the latter approach:
->
->
http://github.com/mkszuba/pygr/commit/d18a0ca82d81864ee8ab600c4d153609da7fdd19
->
-> ('gapping_path' branch)
->
-> Unfortunately, the three tests still fail when called from outside
-> tests/ - this time gapping.fa.seqlen cannot be found. I'll look into
-> the problem and keep you updated.
Genius! This problem has been bedeviling us over at buildbot central.
Sad to see that it's ultimately my fault since I added that code ;(.
Delete 'gapping.fa.pureseq' and try again; that should solve your seqlen
problem. This is in my "known, small, annoying bugs" list ;)
--titus
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