Mercurial > repos > davidvanzessen > argalaxy_tools
diff imgt_loader/imgt_loader.sh @ 28:798b62942b4b draft
Uploaded
| author | davidvanzessen |
|---|---|
| date | Wed, 01 Mar 2017 10:41:30 -0500 |
| parents | 9185c3dfc679 |
| children | 106275b54470 |
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--- a/imgt_loader/imgt_loader.sh Tue Feb 28 08:10:34 2017 -0500 +++ b/imgt_loader/imgt_loader.sh Wed Mar 01 10:41:30 2017 -0500 @@ -62,9 +62,10 @@ fi find $PWD/$name/files -iname "1_*" -exec cat {} + > $PWD/$name/summ.txt find $PWD/$name/files -iname "3_*" -exec cat {} + > $PWD/$name/sequences.txt +find $PWD/$name/files -iname "4_*" -exec cat {} + > $PWD/$name/gapped_aa.txt find $PWD/$name/files -iname "5_*" -exec cat {} + > $PWD/$name/aa.txt find $PWD/$name/files -iname "6_*" -exec cat {} + > $PWD/$name/junction.txt #python $dir/imgt_loader.py --summ $PWD/$name/summ.txt --aa $PWD/$name/aa.txt --junction $PWD/$name/junction.txt --output $output -Rscript --verbose $dir/imgt_loader.r $PWD/$name/summ.txt $PWD/$name/sequences.txt $PWD/$name/aa.txt $PWD/$name/junction.txt $output 2>&1 +Rscript --verbose $dir/imgt_loader.r $PWD/$name/summ.txt $PWD/$name/sequences.txt $PWD/$name/aa.txt $PWD/$name/junction.txt $PWD/$name/gapped_aa.txt $output 2>&1