Question: HUMANn2 test error
0
gravatar for shibl_a
3 months ago by
shibl_a20
shibl_a20 wrote:

Installed humann2 recently on Ubuntu 16.04

Ran `humann2_test` and all was ok

Ran `humann2_test --run-functional-tests-tools` and all was ok

Ran `humann2_test --run-functional-tests-end-to-end` and got the following one error (below are the last few output lines of this command):

Process the gene table ...

Computing pathways abundance and coverage ...

Output files created:
/tmp/humann2_test_cRRzt5_gene_families/demo_genefamilies_pathabundance.tsv
/tmp/humann2_test_cRRzt5_gene_families/demo_genefamilies_pathcoverage.tsv

ok

======================================================================
FAIL: test_humann2_fastq_biom_output_pathways (functional_tests_biom_humann2.TestFunctionalHumann2EndtoEndBiom)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "~/miniconda3/envs/humann2/lib/python2.7/site-packages/humann2/tests/functional_tests_biom_humann2.py", line 56, in test_humann2_fastq_biom_output_pathways
    self.assertEqual(pathways_found,cfg.expected_demo_output_files_biom_pathways)
AssertionError: Items in the first set but not the second:
u'PWY-5423'

----------------------------------------------------------------------
Ran 200 tests in 1475.294s

FAILED (failures=1)

Any ideas?

ADD COMMENTlink modified 3 months ago by WouterDeCoster37k • written 3 months ago by shibl_a20

Cross-posted to https://bitbucket.org/biobakery/humann2/issues/26/one-error-with-test, where it is more likely to get an answer I believe...

ADD REPLYlink written 3 months ago by WouterDeCoster37k
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