Mercurial > repos > davidvanzessen > change_o
diff define_clones.sh @ 6:3ddd933dd7a2 draft default tip
Uploaded
| author | davidvanzessen |
|---|---|
| date | Thu, 15 Sep 2016 03:54:33 -0400 |
| parents | 6f57d43a1f4c |
| children |
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--- a/define_clones.sh Mon Aug 15 10:06:24 2016 -0400 +++ b/define_clones.sh Thu Sep 15 03:54:33 2016 -0400 @@ -6,7 +6,9 @@ type=$1 input=$2 -mkdir $PWD/outdir +mkdir -p $PWD/outdir + +echo "defineclones: $PWD/outdir" cp $input $PWD/input.tab #file has to have a ".tab" extension @@ -21,7 +23,7 @@ output=${10} output2=${11} - /data/users/david/anaconda3/bin/python $dir/DefineClones.py bygroup -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --mode $mode --act $act --model $model --dist $dist --norm $norm --sym $sym --link $link + python3 $dir/DefineClones.py bygroup -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --mode $mode --act $act --model $model --dist $dist --norm $norm --sym $sym --link $link #/home/galaxy/anaconda3/bin/python $dir/DefineClones.py bygroup -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --mode $mode --act $act --model $model --dist $dist --norm $norm --sym $sym --link $link Rscript $dir/define_clones.r $PWD/outdir/output_clone-pass.tab $output2 2>&1 @@ -30,7 +32,7 @@ output=$4 output2=$5 - /data/users/david/anaconda3/bin/python $dir/DefineClones.py hclust -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --method $method + python3 $dir/DefineClones.py hclust -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --method $method #/home/galaxy/anaconda3/bin/python $dir/DefineClones.py hclust -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --method $method Rscript $dir/define_clones.r $PWD/outdir/output_clone-pass.tab $output2 2>&1