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annotate beagle_impute.sh @ 22:f0d89ff35ad2 draft

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author nicolas
date Fri, 21 Oct 2016 10:35:13 -0400
parents 27fb6c2a98a3
children 79abc9d00340
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1 #!/bin/bash
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2
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3
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4 vcf_input=$1
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5 ref=$2
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6 out="out_imputed"
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7
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8 directory=`dirname $0`
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9
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10 mkdir tmpdir$$
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12 cp -rf $vcf_input tmpdir$$/input.vcf
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13
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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$$