| Previous changeset 4:827c8c6ec4c1 (2016-09-26) Next changeset 6:2fdaed222036 (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_refmap.xml |
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| diff -r 827c8c6ec4c1 -r 12aa3ad29980 macros.xml --- a/macros.xml Mon Sep 26 11:45:14 2016 -0400 +++ b/macros.xml Mon Feb 27 05:44:36 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> |
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| diff -r 827c8c6ec4c1 -r 12aa3ad29980 stacks_refmap.xml --- a/stacks_refmap.xml Mon Sep 26 11:45:14 2016 -0400 +++ b/stacks_refmap.xml Mon Feb 27 05:44:36 2017 -0500 |
| [ |
| @@ -11,7 +11,7 @@ #if str( $options_usage.rad_analysis_type ) == "genetic": #for $input_parent in $options_usage.parent_alignments: - #if $input_parent.ext == "sam": + #if $input_parent.is_of_type('sam'): #set $data_path = splitext($input_parent.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".sam" @@ -27,7 +27,7 @@ #for $input_progeny in $options_usage.progeny_alignments: #if $input_progeny: - #if $input_progeny.ext == "sam": + #if $input_progeny.is_of_type('sam'): #set $data_path = splitext($input_progeny.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".sam" @@ -43,7 +43,7 @@ #else: #for $input_indiv in $options_usage.individual_sample: - #if $input_indiv.ext == "sam": + #if $input_indiv.is_of_type('sam'): #set $data_path = splitext($input_indiv.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".sam" @@ -67,7 +67,7 @@ #if str( $options_usage.rad_analysis_type ) == "genetic": #for $input_parent in $options_usage.parent_alignments: - #if $input_parent.ext == "sam": + #if $input_parent.is_of_type('sam'): #set $data_path = splitext($input_parent.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".sam" @@ -84,7 +84,7 @@ #for $input_progeny in $options_usage.progeny_alignments: #if $input_progeny: - #if $input_progeny.ext == "sam": + #if $input_progeny.is_of_type('sam'): #set $data_path = splitext($input_progeny.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".sam" @@ -100,7 +100,7 @@ #else: #for $input_indiv in $options_usage.individual_sample: - #if $input_indiv.ext == "sam": + #if $input_indiv.is_of_type('sam'): #set $data_path = splitext($input_indiv.element_identifier)[0] #set $data_path = re.sub(r'\.1$', '', $data_path) #set $data_path = $data_path + ".sam" |