Mercurial > repos > greg > assembly_post_processor

comparison assembly_post_processor.xml @ 41:61977f3f19ea draft

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Uploaded
author greg
date Thu, 27 Apr 2017 10:23:48 -0400
parents b0ea1e985a38
children 3227f0f39800
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40:8102c8bf2414 41:61977f3f19ea
13 #if str($prediction_method_cond.prediction_method) == 'estscan': 13 #if str($prediction_method_cond.prediction_method) == 'estscan':
14 --score_matrices '$score_matrices' 14 --score_matrices '$score_matrices'
15 #end if 15 #end if
16 #if str($options_type.options_type_selector) == 'advanced': 16 #if str($options_type.options_type_selector) == 'advanced':
17 #if str($options_type.target_gene_family_assembly_cond.target_gene_family_assembly) == 'yes': 17 #if str($options_type.target_gene_family_assembly_cond.target_gene_family_assembly) == 'yes':
18 --gene_family_search '$options_type.target_gene_family_assembly_cond.orthogroups' 18 #set target_gene_family_assembly_cond = $options_type.target_gene_family_assembly_cond
19 --scaffold '$options_type.target_gene_family_assembly_cond.scaffold.fields.path' 19 --gene_family_search '$target_gene_family_assembly_cond.orthogroups'
20 --method '$options_type.target_gene_family_assembly_cond.method' 20 --scaffold '$target_gene_family_assembly_cond.scaffold.fields.path'
21 --gap_trimming $options_type.gap_trimming 21 --method '$target_gene_family_assembly_cond.method'
22 --gap_trimming $target_gene_family_assembly_cond.gap_trimming
22 #end if 23 #end if
23 #if str($options_type.strand_specific) == 'yes': 24 #if str($options_type.strand_specific) == 'yes':
24 --strand_specific 25 --strand_specific
25 #end if 26 #end if
26 #if str($options_type.dereplicate) == 'yes': 27 #if str($options_type.dereplicate) == 'yes':