Mercurial > repos > iuc > pcdl_get_unit_dict
comparison pcdl_get_unit_dict.xml @ 0:24993ec6d174 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
| author | iuc |
|---|---|
| date | Mon, 04 Aug 2025 18:57:08 +0000 |
| parents | |
| children |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:24993ec6d174 |
|---|---|
| 1 <tool id="pcdl_get_unit_dict" name="pcdl_get_unit_dict" version="3.0.1+galaxy0" profile="21.05"> | |
| 2 <macros> | |
| 3 <import>pcdl_macros.xml</import> | |
| 4 </macros> | |
| 5 <requirements> | |
| 6 <expand macro="requirement"/> | |
| 7 </requirements> | |
| 8 <command><![CDATA[ | |
| 9 #import re | |
| 10 mkdir output_pc && | |
| 11 #for $file in $path: | |
| 12 #set $filename = re.sub('[^\w\-\.\s]', '_', str($file.element_identifier)) | |
| 13 ln -s '$file' output_pc/$filename && | |
| 14 #end for | |
| 15 | |
| 16 pcdl_get_unit_dict 'output_pc' | |
| 17 --microenv $microenv | |
| 18 --settingxml 'none' | |
| 19 --verbose $verbose | |
| 20 ]]></command> | |
| 21 <inputs> | |
| 22 <section name="essential" title="essential:" expanded="true"> | |
| 23 <expand macro="path"/> | |
| 24 </section> | |
| 25 <section name="advanced" title="advanced:" expanded="false"> | |
| 26 <expand macro="microenv"/> | |
| 27 <expand macro="verbose"/> | |
| 28 </section> | |
| 29 </inputs> | |
| 30 <outputs> | |
| 31 <collection name="timeseries_unit" type="list"> | |
| 32 <discover_datasets pattern="(?P<designation>timeseries_unit)\.csv" format="csv" directory="output_pc" visible="false"/> | |
| 33 </collection> | |
| 34 </outputs> | |
| 35 <tests> | |
| 36 <test expect_num_outputs="1"> | |
| 37 <section name="essential"> | |
| 38 <param name="path"> | |
| 39 <expand macro="output"/> | |
| 40 </param> | |
| 41 </section> | |
| 42 <section name="advanced"> | |
| 43 <param name="verbose" value="true"/> | |
| 44 </section> | |
| 45 <output_collection name="timeseries_unit" count="1"> | |
| 46 <element name="timeseries_unit"> | |
| 47 <assert_contents> | |
| 48 <has_text text="attribute,unit"/> | |
| 49 </assert_contents> | |
| 50 </element> | |
| 51 </output_collection> | |
| 52 </test> | |
| 53 </tests> | |
| 54 <help><![CDATA[ | |
| 55 Function returns a csv that lists all tracked variables from metadata, cell, and microenvironment and maps them to their unit. | |
| 56 | |
| 57 Homepage: https://github.com/elmbeech/physicelldataloader | |
| 58 ]]></help> | |
| 59 <citations> | |
| 60 <expand macro="citation"/> | |
| 61 </citations> | |
| 62 </tool> |