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comparison cuffnorm_wrapper.xml @ 6:8701ca0f10fa draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffnorm commit 80b06e80066b32ad53ed418628992f056444256f
author iuc
date Sat, 05 Oct 2024 11:15:24 +0000
parents 5e3670f94019
children
comparison
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5:5e3670f94019 6:8701ca0f10fa
1 <tool id="cuffnorm" name="Cuffnorm" version="@VERSION@.3"> 1 <tool id="cuffnorm" name="Cuffnorm" version="@TOOL_VERSION@.4" profile="@PROFILE@">
2 <description>Create normalized expression levels</description> 2 <description>Create normalized expression levels</description>
3 <macros> 3 <macros>
4 <import>cuff_macros.xml</import> 4 <import>cuff_macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
94 <data format="txt" name="read_groups_info" label="${tool.name} on ${on_string}: Read Groups" from_work_dir="read_groups.info" > 94 <data format="txt" name="read_groups_info" label="${tool.name} on ${on_string}: Read Groups" from_work_dir="read_groups.info" >
95 <filter>(include_read_group_files == 'Yes')</filter> 95 <filter>(include_read_group_files == 'Yes')</filter>
96 <filter>(output_format == 'cuffdiff')</filter> 96 <filter>(output_format == 'cuffdiff')</filter>
97 </data> 97 </data>
98 <!-- simple-table format--> 98 <!-- simple-table format-->
99 <data format="tabular" name="isoforms_attr" label="${tool.name} on ${on_string}: isoforms read group tracking" from_work_dir="isoforms.attr_table" > 99 <data format="tabular" name="isoforms_attr" label="${tool.name} on ${on_string}: isoforms read group tracking" from_work_dir="isoforms.attr_table" >
100 <filter>(include_read_group_files == 'Yes')</filter> 100 <filter>(include_read_group_files == 'Yes')</filter>
101 <filter>(output_format == 'simple-table')</filter> 101 <filter>(output_format == 'simple-table')</filter>
102 </data> 102 </data>
103 <data format="tabular" name="genes_read_group" label="${tool.name} on ${on_string}: genes read group tracking" from_work_dir="genes.attr_table" > 103 <data format="tabular" name="genes_attr" label="${tool.name} on ${on_string}: genes read group tracking" from_work_dir="genes.attr_table" >
104 <filter>(include_read_group_files == 'Yes')</filter> 104 <filter>(include_read_group_files == 'Yes')</filter>
105 <filter>(output_format == 'simple-table')</filter> 105 <filter>(output_format == 'simple-table')</filter>
106 </data> 106 </data>
107 <data format="tabular" name="cds_read_group" label="${tool.name} on ${on_string}: CDs read group tracking" from_work_dir="cds.attr_table" > 107 <data format="tabular" name="cds_attr" label="${tool.name} on ${on_string}: CDs read group tracking" from_work_dir="cds.attr_table" >
108 <filter>(include_read_group_files == 'Yes')</filter> 108 <filter>(include_read_group_files == 'Yes')</filter>
109 <filter>(output_format == 'simple-table')</filter> 109 <filter>(output_format == 'simple-table')</filter>
110 </data> 110 </data>
111 <data format="tabular" name="tss_groups_read_group" label="${tool.name} on ${on_string}: TSS groups read group tracking" from_work_dir="tss_groups.attr_table" > 111 <data format="tabular" name="tss_attr" label="${tool.name} on ${on_string}: TSS groups read group tracking" from_work_dir="tss_groups.attr_table" >
112 <filter>(include_read_group_files == 'Yes')</filter> 112 <filter>(include_read_group_files == 'Yes')</filter>
113 <filter>(output_format == 'simple-table')</filter> 113 <filter>(output_format == 'simple-table')</filter>
114 </data> 114 </data>
115 115
116 <!-- Cuffdiff format datasets. --> 116 <!-- Cuffdiff format datasets. -->