{bio}[foss/2018b] OptiType v1.3.2 #6924
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| sanity_check_commands = [( | ||
| 'cd $EBROOTOPTITYPE && OptiTypePipeline.py -i ./test/exome/NA11995_SRR766010_1_fished.fastq ' | ||
| './test/exome/NA11995_SRR766010_2_fished.fastq --dna -v -o ./test/exome/' |
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@smoors OptiType should also work when you're not in the install dir, so we should run this out of the install dir (also to avoid including test output in the installation?)
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Test report by @boegel |
| } | ||
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| sanity_check_commands = [( | ||
| 'OptiTypePipeline.py -i $EBROOTOPTITYPE/test/exome/NA11995_SRR766010_1_fished.fastq ' |
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@smoors I overlooked that sanity check commands are run in the installation directory by default (maybe we need to reconsider that...), which is not a good idea here because of the -o ./.
So, let's add a cd %(builddir)s && before this command?
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Test report by @boegel |
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Test report by @boegel |
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Test report by @boegel |
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Going in, thanks @smoors! |
(created using
eb --new-pr)edit: requires
#6919#6910