Mercurial > repos > iuc > usher_matutils
comparison matutils.xml @ 2:e0a0a473fc1e draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/usher commit 5de7b91f2bda9c351f9512601f899248b7278924
| author | iuc |
|---|---|
| date | Sun, 17 Mar 2024 18:10:36 +0000 |
| parents | 52fd1d491417 |
| children |
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| 1:52fd1d491417 | 2:e0a0a473fc1e |
|---|---|
| 1 <tool id='usher_matutils' name='UShER matUtils' version='@TOOL_VERSION@+@GALAXY_TOOL_VERSION@' profile='20.01'> | 1 <tool id='usher_matutils' name='UShER matUtils' version='@TOOL_VERSION@+@GALAXY_TOOL_VERSION@' profile='20.01'> |
| 2 <description>analyze, edit, and manipulate mutation annotated tree files</description> | 2 <description>analyze, edit, and manipulate mutation annotated tree files</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>macros.xml</import> | 4 <import>macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 <expand macro='edam_ontology' /> | 6 <expand macro="xrefs"/> |
| 7 <expand macro='requirements' /> | 7 <expand macro='requirements' /> |
| 8 <version_command>usher --version</version_command> | 8 <version_command>usher --version</version_command> |
| 9 <command detect_errors='exit_code'><![CDATA[ | 9 <command detect_errors='exit_code'><![CDATA[ |
| 10 matUtils | 10 matUtils |
| 11 $matutils_mode.options_mode | 11 $matutils_mode.options_mode |
| 279 <filter>matutils_mode['options_mode'] == 'summary' and 'mutations' in matutils_mode['summary_options']</filter> | 279 <filter>matutils_mode['options_mode'] == 'summary' and 'mutations' in matutils_mode['summary_options']</filter> |
| 280 </data> | 280 </data> |
| 281 <data name="aberrant_stats" format="tabular" from_work_dir='aberrant_stats.tabular' label="${tool.name} on ${on_string}: aberrant stats"> | 281 <data name="aberrant_stats" format="tabular" from_work_dir='aberrant_stats.tabular' label="${tool.name} on ${on_string}: aberrant stats"> |
| 282 <filter>matutils_mode['options_mode'] == 'summary' and 'aberrant' in matutils_mode['summary_options']</filter> | 282 <filter>matutils_mode['options_mode'] == 'summary' and 'aberrant' in matutils_mode['summary_options']</filter> |
| 283 </data> | 283 </data> |
| 284 <data name="output_mat" format="protobuf3" from_work_dir='output_mat.pb' label="${tool.name} on ${on_string}: mutation annotated tree"> | 284 <data name="output_mat" format="protobuf3" from_work_dir='output_mat.pb' label="${tool.name} on ${on_string}: mutation tree"> |
| 285 <filter>matutils_mode['options_mode'] == 'annotate' or matutils_mode['options_mode'] == 'mask'</filter> | 285 <filter>matutils_mode['options_mode'] == 'annotate' or matutils_mode['options_mode'] == 'mask'</filter> |
| 286 </data> | 286 </data> |
| 287 <data name="total_parsimony_tree" format="txt" from_work_dir='output_stdout.txt' label="${tool.name} on ${on_string}: parsimony tree"> | 287 <data name="total_parsimony_tree" format="txt" from_work_dir='output_stdout.txt' label="${tool.name} on ${on_string}: parsimony tree"> |
| 288 <filter>matutils_mode['options_mode'] == 'uncertainty' and 'get-parsimony' in matutils_mode['uncertainty_options']</filter> | 288 <filter>matutils_mode['options_mode'] == 'uncertainty' and 'get-parsimony' in matutils_mode['uncertainty_options']</filter> |
| 289 </data> | 289 </data> |