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comparison beagle_impute.sh @ 18:27fb6c2a98a3 draft

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author nicolas
date Fri, 21 Oct 2016 06:30:52 -0400
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children 79abc9d00340
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17:58b58d95b0e0 18:27fb6c2a98a3
1 #!/bin/bash
2
3
4 vcf_input=$1
5 ref=$2
6 out="out_imputed"
7
8 directory=`dirname $0`
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10 mkdir tmpdir$$
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12 cp -rf $vcf_input tmpdir$$/input.vcf
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15 java -Xmx2g -jar $directory/beagle.jar ref=$ref gt=$vcf_input out=$out
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18 rm -rf tmpdir$$