Mercurial > repos > yhoogstrate > segmentation_fold
comparison utils_estimate-energy.xml @ 6:4d16cf9414cf draft default tip
planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/galaxytools-emc/tree/master/tools/segmentation_fold commit 3a3c1d069e0a079d8ea7c0b4ac856ef24141b1aa
| author | erasmus-medical-center |
|---|---|
| date | Fri, 24 Feb 2017 04:18:22 -0500 |
| parents | b7cf9b172cfe |
| children |
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| 5:b7cf9b172cfe | 6:4d16cf9414cf |
|---|---|
| 3 | 3 |
| 4 <macros> | 4 <macros> |
| 5 <import>macros.xml</import> | 5 <import>macros.xml</import> |
| 6 </macros> | 6 </macros> |
| 7 | 7 |
| 8 <requirements> | 8 <expand macro="requirements" /> |
| 9 <requirement type="package" version="2.7.10">python</requirement> | 9 <expand macro="version_command" /> |
| 10 <requirement type="package" version="1.9">numpy</requirement> | |
| 11 <requirement type="package" version="0.8.2.1">pysam</requirement> | |
| 12 <requirement type="package" version="0.6.1">htseq</requirement> | |
| 13 <requirement type="package" version="2.1.0">segmentation-fold-utils</requirement> | |
| 14 | |
| 15 <requirement type="package" version="1.6.5">segmentation-fold</requirement> | |
| 16 </requirements> | |
| 17 <expand macro="stdio" /> | |
| 18 | 10 |
| 19 <version_command>echo $(@VERSION_COMMAND_SMF@)", "$(@VERSION_COMMAND_UTILS@)</version_command> | 11 <command detect_errors="aggressive"><![CDATA[ |
| 20 | |
| 21 <command><![CDATA[ | |
| 22 segmentation-fold-utils | 12 segmentation-fold-utils |
| 23 estimate-energy | 13 estimate-energy |
| 24 -T \${GALAXY_SLOTS:-2} | 14 -T \${GALAXY_SLOTS:-2} |
| 25 -x | 15 -x |
| 26 #if str($parameters.use_custom_xml) == "true" | 16 #if str($parameters.use_custom_xml) == "true" |
| 27 "${parameters.input_xml}" | 17 "${parameters.input_xml}" |
| 28 #else | 18 #else |
| 29 "\$SEGMENTATION_FOLD_DEFAULT_XML" | 19 "\$(segmentation-fold -X)" |
| 30 #end if | 20 #end if |
| 31 | 21 |
| 32 -p $precision | 22 -p $precision |
| 33 -r $randomize | 23 -r $randomize |
| 34 | 24 |
| 43 <conditional name="parameters"> | 33 <conditional name="parameters"> |
| 44 <param name="use_custom_xml" | 34 <param name="use_custom_xml" |
| 45 type="boolean" | 35 type="boolean" |
| 46 truevalue="true" | 36 truevalue="true" |
| 47 falsevalue="false" | 37 falsevalue="false" |
| 48 selected="false" | 38 checked="false" |
| 49 label="Use segment definition from history" /> | 39 label="Use segment definition from history" /> |
| 50 | 40 |
| 51 <when value="false" /> | 41 <when value="false" /> |
| 52 <when value="true"> | 42 <when value="true"> |
| 53 <param name="input_xml" | 43 <param name="input_xml" |