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comparison define_clones.sh @ 1:326165da9ece draft

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author davidvanzessen
date Thu, 04 Aug 2016 08:59:47 -0400
parents dda9b2e72e2b
children 6f57d43a1f4c
comparison
equal deleted inserted replaced
0:dda9b2e72e2b 1:326165da9ece
17 norm=$6 17 norm=$6
18 sym=$7 18 sym=$7
19 link=$8 19 link=$8
20 dist=$9 20 dist=$9
21 output=${10} 21 output=${10}
22 output2=${11}
22 23
23 /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 24 #/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
25 /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
26
27 Rscript $dir/define_clones.r $PWD/outdir/output_clone-pass.tab $output2 2>&1
24 else 28 else
25 method=$3 29 method=$3
26 output=$4 30 output=$4
31 output2=$5
27 32
28 /data/users/david/anaconda3/bin/python $dir/DefineClones.py hclust -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --method $method 33 #/data/users/david/anaconda3/bin/python $dir/DefineClones.py hclust -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --method $method
34 /home/galaxy/anaconda3/bin/python $dir/DefineClones.py hclust -d $PWD/input.tab --nproc 4 --outdir $PWD/outdir --outname output --method $method
35
36 Rscript $dir/define_clones.r $PWD/outdir/output_clone-pass.tab $output2 2>&1
29 fi 37 fi
30 38
31 cp $PWD/outdir/output_clone-pass.tab $output 39 cp $PWD/outdir/output_clone-pass.tab $output