| Previous changeset 4:998dfec32bde (2016-09-26) Next changeset 6:7dbe2afb1d10 (2017-04-06) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks commit 9401451df4a985ef5686864eaadafa077ffc0877 |
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modified:
macros.xml stacks_denovomap.xml |
| b |
| diff -r 998dfec32bde -r 34000c653ae5 macros.xml --- a/macros.xml Mon Sep 26 11:44:20 2016 -0400 +++ b/macros.xml Mon Feb 27 05:43:39 2017 -0500 |
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| @@ -38,9 +38,9 @@ **Project links:** -`Stacks website <http://creskolab.uoregon.edu/stacks/>`_ +`Stacks website <http://catchenlab.life.illinois.edu/stacks/>`_ -`Stacks manual <http://creskolab.uoregon.edu/stacks/stacks_manual.pdf>`_ +`Stacks manual <http://catchenlab.life.illinois.edu/stacks/manual/>`_ `Stacks google group <http://groups.google.com/group/stacks-users>`_ ]]></token> |
| b |
| diff -r 998dfec32bde -r 34000c653ae5 stacks_denovomap.xml --- a/stacks_denovomap.xml Mon Sep 26 11:44:20 2016 -0400 +++ b/stacks_denovomap.xml Mon Feb 27 05:43:39 2017 -0500 |
| [ |
| @@ -12,7 +12,7 @@ #if str( $options_usage.rad_analysis_type ) == "genetic": #for $input_parent in $options_usage.parent_sequences: - #if $input_parent.ext == "fastqsanger": + #if $input_parent.is_of_type('fastqsanger'): #set $data_path = splitext($input_parent.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".fq" @@ -27,7 +27,7 @@ #for $input_progeny in $options_usage.progeny_sequences: #if $input_progeny: - #if $input_progeny.ext == "fastqsanger": + #if $input_progeny.is_of_type('fastqsanger'): #set $data_path = splitext($input_progeny.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".fq" @@ -43,7 +43,7 @@ #else: #for $input_indiv in $options_usage.individual_sample: - #if $input_indiv.ext == "fastqsanger": + #if $input_indiv.is_of_type('fastqsanger'): #set $data_path = splitext($input_indiv.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".fq" @@ -67,7 +67,7 @@ #if str( $options_usage.rad_analysis_type ) == "genetic": #for $input_parent in $options_usage.parent_sequences: - #if $input_parent.ext == "fastqsanger": + #if $input_parent.is_of_type('fastqsanger'): #set $data_path = splitext($input_parent.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".fq" @@ -84,7 +84,7 @@ #for $input_progeny in $options_usage.progeny_sequences: #if $input_progeny: - #if $input_progeny.ext == "fastqsanger": + #if $input_progeny.is_of_type('fastqsanger'): #set $data_path = splitext($input_progeny.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".fq" @@ -104,7 +104,7 @@ #else: #for $i_indiv, $input_indiv in enumerate($options_usage.individual_sample): - #if $input_indiv.ext == "fastqsanger": + #if $input_indiv.is_of_type('fastqsanger'): #set $data_path = splitext($input_indiv.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".fq" |