| Previous changeset 0:7000422fbaff (2017-06-08) Next changeset 2:a0def395ad14 (2017-08-08) |
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Commit message:
Uploaded |
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modified:
gene_family_phylogeny_builder.xml |
| b |
| diff -r 7000422fbaff -r f5ae6c86f75f gene_family_phylogeny_builder.xml --- a/gene_family_phylogeny_builder.xml Thu Jun 08 12:51:58 2017 -0400 +++ b/gene_family_phylogeny_builder.xml Tue Aug 01 14:26:25 2017 -0400 |
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| @@ -16,30 +16,30 @@ #set bootstrap_replicates = $tree_inference_cond.bootstrap_replicates #end if -python $__tool_directory__/gene_family_phylogeny_builder.py +python '$__tool_directory__/gene_family_phylogeny_builder.py' #if str($input_format) == 'ptalign': --orthogroup_aln '$input_format_cond.input_ptalign.extra_files_path' - --alignment_type 'aln' - --sequence_type 'protein' + --alignment_type aln + --sequence_type protein #else if str($input_format) == 'ptalignca': --orthogroup_aln '$input_format_cond.input_ptalignca.extra_files_path' - --alignment_type 'aln' + --alignment_type aln --sequence_type $input_format_cond.sequence_type #else if str($input_format) == 'ptalignfiltered': --orthogroup_aln '$input_format_cond.input_ptalignfiltered.extra_files_path' - --alignment_type 'filter' - --sequence_type 'protein' + --alignment_type filter + --sequence_type protein #else if str($input_format) == 'ptalignfilteredca': --orthogroup_aln '$input_format_cond.input_ptalignfilteredca.extra_files_path' - --alignment_type 'filter' + --alignment_type filter --sequence_type $input_format_cond.sequence_type #else if str($input_format) == 'ptaligntrimmed': --orthogroup_aln '$input_format_cond.input_ptaligntrimmed.extra_files_path' - --alignment_type 'trim' - --sequence_type 'protein' + --alignment_type trim + --sequence_type protein #else if str($input_format) == 'ptaligntrimmedca': --orthogroup_aln '$input_format_cond.input_ptaligntrimmedca.extra_files_path' - --alignment_type 'trim' + --alignment_type trim --sequence_type $input_format_cond.sequence_type #end if --scaffold '$scaffold.fields.path' |