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annotate MLMM.sh @ 1:380b364980f9 draft default tip

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planemo upload commit 475f4d7d8442a0d75e103af326ae5881c4d2a4ac
author dereeper
date Mon, 16 Apr 2018 08:50:05 -0400
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380b364980f9 planemo upload commit 475f4d7d8442a0d75e103af326ae5881c4d2a4ac
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1 #!/bin/bash
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2 geno=$1
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3 map=$2
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4 pheno=$3
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5 steps=$4
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6 method=$5
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7 output=$6
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8 pdf=$7
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9 kinship=$8
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10 rss=$9
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11 step_table=${10}
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12 log=${11}
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14 directory=`dirname $0`
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15 mkdir tmpdir$$
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16 cp -rf $geno tmpdir$$/geno
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17 cp -rf $map tmpdir$$/map
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18 cp -rf $pheno tmpdir$$/pheno
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20 perl $directory/MLMM.pl -g tmpdir$$/geno -i tmpdir$$/map -p tmpdir$$/pheno -s $steps -m $method -o tmpdir$$/output -d $directory/source_library >>$log 2>&1
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22 mv tmpdir$$/output.pdf $pdf
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23 mv tmpdir$$/output.kinship $kinship
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24 mv tmpdir$$/output.res_asso $output
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25 mv tmpdir$$/output.rss $rss
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26 mv tmpdir$$/output.steptable $step_table
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