Mercurial > repos > iuc > pcdl_get_version

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
author iuc
date Mon, 04 Aug 2025 18:59:14 +0000
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2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
iuc
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1 <tool id="pcdl_get_version" name="pcdl_get_version" version="3.0.1+galaxy0" profile="21.05">
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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2 <macros>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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3 <import>pcdl_macros.xml</import>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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4 </macros>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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5 <requirements>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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6 <expand macro="requirement"/>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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7 </requirements>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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8 <command><![CDATA[
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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9 #import re
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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10 mkdir output_pc &&
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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11 #for $file in $path:
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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12 #set $filename = re.sub('[^\w\-\.\s]', '_', str($file.element_identifier))
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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13 ln -s '$file' output_pc/$filename &&
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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14 #end for
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15
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16 pcdl_get_version 'output_pc'
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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17 --verbose $verbose
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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18 > '$version_txt'
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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19 ]]></command>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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20 <inputs>
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21 <section name="essential" title="essential:" expanded="true">
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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22 <expand macro="path"/>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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23 </section>
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24 <section name="advanced" title="advanced:" expanded="false">
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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25 <expand macro="verbose"/>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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26 </section>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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27 </inputs>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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28 <outputs>
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29 <data name="version_txt" label="version_txt" format="txt"/>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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30 </outputs>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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31 <tests>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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32 <test expect_num_outputs="1">
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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33 <section name="essential">
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34 <param name="path">
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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35 <expand macro="output"/>
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36 </param>
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37 </section>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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38 <section name="advanced">
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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39 <param name="verbose" value="true"/>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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40 </section>
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41 <output name="version_txt">
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42 <assert_contents>
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43 <has_text text="version:"/>
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44 </assert_contents>
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45 </output>
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46 </test>
2d2ef2e2d1e3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/pcdl/ commit 7c74921b41bd7ab639e5a3f8b54e407f79ed8f16
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47 </tests>
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48 <help><![CDATA[
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49 This function is extracting PhysiCell and MultiCellDS version from the dataset and the installed pcdl module version.
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50
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51 Homepage: https://github.com/elmbeech/physicelldataloader
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52 ]]></help>
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53 <citations>
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54 <expand macro="citation"/>
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55 </citations>
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56 </tool>