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ukhsa-collaboration / snapperdb

GNU General Public License v3.0
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Versions of additionals tools #13

Closed ConstantinV closed 6 years ago

ConstantinV commented 6 years ago

Thanks a lot for your tool! Now I'm trying to install and run it. I have trouble with GATK while creating VCF. I think I use the wrong version of GATK. Could you please include the actual versions for Postgres Samtools Picard GATK BWA Thank you!

ulfschaefer commented 6 years ago

We use the following versions in the variant calling: samtools/1.1 picard-tools/1.111 gatk/2.6.5 bwa/0.7.12 Whether it works with newer versions needs to be tested. I suspect it wouldn't for GATK and Samtools, but should be OK for others.

For postgres we use a number of subversions of major version 9 that should all work.

Hope this helps.

ConstantinV commented 6 years ago

Now it is clear. Thank you!