Mercurial > repos > devteam > cuffdiff
comparison cuffdiff_wrapper.xml @ 11:5ce5197de50c draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/cufflinks/cuffdiff commit 220e70acb66016873732b193b3ac20ae48083f0b-dirty
| author | devteam |
|---|---|
| date | Wed, 16 Sep 2015 09:39:31 -0400 |
| parents | 4e6f043995ff |
| children | 0f32ad418df8 |
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| 10:4e6f043995ff | 11:5ce5197de50c |
|---|---|
| 1 <tool id="cuffdiff" name="Cuffdiff" version="@VERSION@.2"> | 1 <tool id="cuffdiff" name="Cuffdiff" version="@VERSION@.3"> |
| 2 <description>find significant changes in transcript expression, splicing, and promoter use</description> | 2 <description>find significant changes in transcript expression, splicing, and promoter use</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="set_environment">CUFFDIFF_SCRIPT_PATH</requirement> | 4 <requirement type="set_environment">CUFFDIFF_SCRIPT_PATH</requirement> |
| 5 <requirement type="package" version="2.2.1">cufflinks</requirement> | 5 <requirement type="package" version="2.2.1">cufflinks</requirement> |
| 6 <requirement type="package" version="2.8.2">cummeRbund</requirement> | 6 <requirement type="package" version="2.8.2">cummeRbund</requirement> |
| 201 <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> | 201 <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> |
| 202 </data> | 202 </data> |
| 203 <data format="tabular" name="tss_groups_read_group" label="${tool.name} on ${on_string}: TSS groups read group tracking" from_work_dir="tss_groups.read_group_tracking" > | 203 <data format="tabular" name="tss_groups_read_group" label="${tool.name} on ${on_string}: TSS groups read group tracking" from_work_dir="tss_groups.read_group_tracking" > |
| 204 <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> | 204 <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> |
| 205 </data> | 205 </data> |
| 206 <data format="text" name="read_group_info" label="${tool.name} on ${on_string}: read group info" from_work_dir="read_groups.info" > | 206 <data format="txt" name="read_group_info" label="${tool.name} on ${on_string}: read group info" from_work_dir="read_groups.info" > |
| 207 <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> | 207 <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> |
| 208 </data> | 208 </data> |
| 209 <data format="text" name="run_info" label="${tool.name} on ${on_string}: run info" from_work_dir="run.info" > | 209 <data format="txt" name="run_info" label="${tool.name} on ${on_string}: run info" from_work_dir="run.info" > |
| 210 <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> | 210 <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> |
| 211 </data> | 211 </data> |
| 212 <!-- Standard datasets. --> | 212 <!-- Standard datasets. --> |
| 213 <data format="tabular" name="splicing_diff" label="${tool.name} on ${on_string}: splicing differential expression testing" from_work_dir="splicing.diff"> | 213 <data format="tabular" name="splicing_diff" label="${tool.name} on ${on_string}: splicing differential expression testing" from_work_dir="splicing.diff"> |
| 214 <filter>not omit_tabular_output</filter> | 214 <filter>not omit_tabular_output</filter> |