Mercurial > repos > dereeper > beagle
diff execute_beagle.sh @ 0:a929ef8dea25 draft default tip
planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
author | dereeper |
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date | Tue, 14 Aug 2018 07:59:19 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/execute_beagle.sh Tue Aug 14 07:59:19 2018 -0400 @@ -0,0 +1,18 @@ +#!/bin/bash + + +vcf_input=$1 +phase=$2 +impute=$3 +out_prefix="out" + +mkdir tmpdir$$ + +cp -rf $vcf_input tmpdir$$/input.vcf + +beagle gt=$vcf_input phase-its=$phase impute-its=$impute out=$out_prefix + +gunzip $out_prefix.vcf.gz + +rm -rf tmpdir$$ +