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annotate execute_beagle.sh @ 0:a929ef8dea25 draft default tip

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planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
author dereeper
date Tue, 14 Aug 2018 07:59:19 -0400
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a929ef8dea25 planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
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1 #!/bin/bash
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a929ef8dea25 planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
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4 vcf_input=$1
a929ef8dea25 planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
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5 phase=$2
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6 impute=$3
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7 out_prefix="out"
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9 mkdir tmpdir$$
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11 cp -rf $vcf_input tmpdir$$/input.vcf
a929ef8dea25 planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
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a929ef8dea25 planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
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13 beagle gt=$vcf_input phase-its=$phase impute-its=$impute out=$out_prefix
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15 gunzip $out_prefix.vcf.gz
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17 rm -rf tmpdir$$
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