Mercurial > repos > dereeper > beagle
annotate 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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planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
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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 phase=$2 |
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6 impute=$3 |
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7 out_prefix="out" |
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8 |
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9 mkdir tmpdir$$ |
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11 cp -rf $vcf_input tmpdir$$/input.vcf |
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12 |
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13 beagle gt=$vcf_input phase-its=$phase impute-its=$impute out=$out_prefix |
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14 |
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15 gunzip $out_prefix.vcf.gz |
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16 |
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17 rm -rf tmpdir$$ |
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18 |