Bug in benchmarking about truvari HOT 4 CLOSED

I also tried plug in different VCF files for real condition, but the same error appeared

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It seems like Truvari is able to finish doing the comparisons, but when it's calling bcftools to sort/index the output the error is raised.

Does your machine have a /tmp directory?

Could you try setting the $TMPDIR environment variable? I don't expect this to work since bcftools doesn't check that variable (It should) and older versions of bcftools sort used a hardcoded /tmp details

The long term solution is that it looks like pysam's bcftools dispatch might expose the --temp-dir option details, so perhaps I can fix it by having Truvari pass tempfile.gettempdir to it.

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If setting $TMPDIR doesn't work, the long term solution is now in develop and you can install from there.

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@ACEnglish
Hi English, thank you for your immediate help!
I have figured out, it's due to the full capacity of my RAM, cuz I have multiple containers running behind.
Now it's up and running,
Thank yo so much!!

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