Mercurial > repos > davidvanzessen > argalaxy_tools

comparison imgt_loader/imgt_loader.sh @ 35:d7580295e13b draft

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Uploaded
author davidvanzessen
date Fri, 22 Jan 2016 08:45:29 -0500
parents 010402c959aa
children
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34:f2010de70741 35:d7580295e13b
62 fi 62 fi
63 find $PWD/$name/files -iname "1_*" -exec cat {} + > $PWD/$name/summ.txt 63 find $PWD/$name/files -iname "1_*" -exec cat {} + > $PWD/$name/summ.txt
64 find $PWD/$name/files -iname "5_*" -exec cat {} + > $PWD/$name/aa.txt 64 find $PWD/$name/files -iname "5_*" -exec cat {} + > $PWD/$name/aa.txt
65 find $PWD/$name/files -iname "6_*" -exec cat {} + > $PWD/$name/junction.txt 65 find $PWD/$name/files -iname "6_*" -exec cat {} + > $PWD/$name/junction.txt
66 66
67 python $dir/imgt_loader.py --summ $PWD/$name/summ.txt --aa $PWD/$name/aa.txt --junction $PWD/$name/junction.txt --output $output 67 #python $dir/imgt_loader.py --summ $PWD/$name/summ.txt --aa $PWD/$name/aa.txt --junction $PWD/$name/junction.txt --output $output
68
69 Rscript --verbose $dir/imgt_loader.r $PWD/$name/summ.txt $PWD/$name/aa.txt $PWD/$name/junction.txt $output 2>&1