Mercurial > repos > iarc > mutspec

comparison mutspecAnnot_wrapper.sh @ 7:eda59b985b1c draft default tip

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author iarc
date Mon, 13 Mar 2017 08:21:19 -0400
parents 46a10309dfe2
children
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6:46a10309dfe2 7:eda59b985b1c
15 15
16 perl $SCRIPT_PATH/mutspecAnnot.pl \ 16 perl $SCRIPT_PATH/mutspecAnnot.pl \
17 --outfile out \ 17 --outfile out \
18 --pathAVDBList $SCRIPT_PATH \ 18 --pathAVDBList $SCRIPT_PATH \
19 --temp "./temp" \ 19 --temp "./temp" \
20 $* 2>&1 20 $*
21 21
22 ls out/Mutational_Analysis/Annovar/ 22 ls out/Mutational_Analysis/Annovar/
23 cp out/Mutational_Analysis/Annovar/${name}.${refg}_multianno.txt $output 23
24 if [ -e "out/Mutational_Analysis/Annovar/${name}.${refg}_multianno.txt" ]; then
25 cp out/Mutational_Analysis/Annovar/${name}.${refg}_multianno.txt $output
26 fi
24 27
25 exit 0 28 exit 0
26 29