Mercurial > repos > miller-lab > genome_diversity
diff make_phylip.xml @ 36:51cd0307fb70
Phylip's extra ouputs are now stored in the job working directory
| author | Richard Burhans <burhans@bx.psu.edu> |
|---|---|
| date | Wed, 20 Nov 2013 16:32:01 -0500 |
| parents | ea52b23f1141 |
| children | 884ccb07885b |
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--- a/make_phylip.xml Wed Nov 20 13:46:10 2013 -0500 +++ b/make_phylip.xml Wed Nov 20 16:32:01 2013 -0500 @@ -7,7 +7,7 @@ #set $gen_posClmn = int($input.metadata.rPos) - $zero_based #set $gen_refClmn = int($input.metadata.pos) - $zero_based + 1 #set $gen_altrClmn = int($input.metadata.pos) - $zero_based + 2 - make_phylip.py '--altrClmn=$gen_altrClmn' '--chrClmn=$gen_chrClmn' '--gd_indivs=$indivs_input' '--input=$input' '--input_type=$input.ext' '--output=$output1' '--output_id=$output1.id' '--output_dir=$__new_file_path__' '--posClmn=$gen_posClmn' '--refClmn=$gen_refClmn' + make_phylip.py '--altrClmn=$gen_altrClmn' '--chrClmn=$gen_chrClmn' '--gd_indivs=$indivs_input' '--input=$input' '--input_type=$input.ext' '--output=$output1' '--posClmn=$gen_posClmn' '--refClmn=$gen_refClmn' #if $input_type.choice == '0' #set $cov_chrClmn = int($input_type.coverage_input.metadata.ref) - $zero_based #set $cov_posClmn = int($input_type.coverage_input.metadata.rPos) - $zero_based