Mercurial > repos > greg > gene_family_classifier

comparison gene_family_classifier.xml @ 22:035e8b85cdf7 draft

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Uploaded
author greg
date Tue, 10 Jan 2017 10:36:22 -0500
parents 795745116516
children 1d3e9e154750
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21:795745116516 22:035e8b85cdf7
13 <command> 13 <command>
14 <![CDATA[ 14 <![CDATA[
15 #if str($options_type.options_type_selector) == 'advanced': 15 #if str($options_type.options_type_selector) == 'advanced':
16 #set create_orthogroup_cond = $options_type.create_orthogroup_cond 16 #set create_orthogroup_cond = $options_type.create_orthogroup_cond
17 #set create_orthogroup = $create_orthogroup_cond.create_orthogroup 17 #set create_orthogroup = $create_orthogroup_cond.create_orthogroup
18
18 #if str($create_orthogroup) == 'yes': 19 #if str($create_orthogroup) == 'yes':
19 #set create_corresponding_coding_sequences_cond = $create_orthogroup_cond.create_corresponding_coding_sequences_cond 20 #set create_corresponding_coding_sequences_cond = $create_orthogroup_cond.create_corresponding_coding_sequences_cond
20 #if str($create_corresponding_coding_sequences_cond.create_corresponding_coding_sequences) == 'yes': 21 #if str($create_corresponding_coding_sequences_cond.create_corresponding_coding_sequences) == 'yes':
21 #set create_corresponding_coding_sequences = True 22 #set create_corresponding_coding_sequences = True
22 #else: 23 #else:
23 #set create_corresponding_coding_sequences = False 24 #set create_corresponding_coding_sequences = False
25 #end if
24 #else: 26 #else:
25 #set create_corresponding_coding_sequences = False 27 #set create_corresponding_coding_sequences = False
26 #end if 28 #end if
29
27 #if str($create_orthogroup) == 'yes': 30 #if str($create_orthogroup) == 'yes':
28 #import os 31 #import os
29 #set create_ortho_sequences = True 32 #set create_ortho_sequences = True
30 #set orthogroups_fasta_src_dir = $os.path.join('geneFamilyClassification_dir', 'orthogroups_fasta') 33 #set orthogroups_fasta_src_dir = $os.path.join('geneFamilyClassification_dir', 'orthogroups_fasta')
31 #set dest_dir = $output.extra_files_path 34 #set dest_dir = $output.extra_files_path