Mercurial > repos > iuc > poretools_tabular
comparison poretools_tabular.xml @ 2:5f5f1da94d7f draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
| author | iuc |
|---|---|
| date | Fri, 27 Sep 2024 07:48:17 +0000 |
| parents | 7f0b324de883 |
| children |
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| 1:2cb2feb94f0e | 2:5f5f1da94d7f |
|---|---|
| 1 <?xml version="1.0"?> | 1 <tool id="poretools_tabular" name="Extract FASTQ" version="@VERSION@.0" profile="@PROFILE@"> |
| 2 <tool id="poretools_tabular" name="Extract FASTQ" version="@VERSION@.0"> | |
| 3 <description>in tabular format from a set of FAST5 files</description> | 2 <description>in tabular format from a set of FAST5 files</description> |
| 4 <macros> | 3 <macros> |
| 5 <import>macros.xml</import> | 4 <import>macros.xml</import> |
| 6 </macros> | 5 </macros> |
| 6 <expand macro="bio_tools"/> | |
| 7 <expand macro="requirements" /> | 7 <expand macro="requirements" /> |
| 8 <command detect_errors="aggressive"> | 8 <command detect_errors="aggressive"> |
| 9 <![CDATA[ | 9 <![CDATA[ |
| 10 poretools tabular --type $type '$input' > '$output' | 10 poretools tabular --type $type '$input' > '$output' |
| 11 ]]> | 11 ]]> |
| 18 <data name="output" format="tabular" /> | 18 <data name="output" format="tabular" /> |
| 19 </outputs> | 19 </outputs> |
| 20 <tests> | 20 <tests> |
| 21 <test> | 21 <test> |
| 22 <expand macro="test_input" /> | 22 <expand macro="test_input" /> |
| 23 <param name="types" value="fwd" /> | 23 <param name="type" value="fwd" /> |
| 24 <param name="detailed" value="true" /> | |
| 25 <output name="output" file="poretools-tabular-out1.tabular" ftype="tabular" /> | 24 <output name="output" file="poretools-tabular-out1.tabular" ftype="tabular" /> |
| 26 </test> | 25 </test> |
| 27 <test> | 26 <test> |
| 28 <expand macro="test_input" /> | 27 <expand macro="test_input" /> |
| 29 <param name="types" value="rev" /> | 28 <param name="type" value="rev" /> |
| 30 <param name="detailed" value="false" /> | |
| 31 <output name="output" file="poretools-tabular-out2.tabular" ftype="tabular" /> | 29 <output name="output" file="poretools-tabular-out2.tabular" ftype="tabular" /> |
| 32 </test> | 30 </test> |
| 33 <test> | 31 <test> |
| 34 <expand macro="test_input" /> | 32 <expand macro="test_input" /> |
| 35 <param name="types" value="2D" /> | 33 <param name="type" value="2D" /> |
| 36 <param name="detailed" value="true" /> | |
| 37 <output name="output" file="poretools-tabular-out3.tabular" ftype="tabular" /> | 34 <output name="output" file="poretools-tabular-out3.tabular" ftype="tabular" /> |
| 38 </test> | 35 </test> |
| 39 <test> | 36 <test> |
| 40 <expand macro="test_input" /> | 37 <expand macro="test_input" /> |
| 41 <param name="types" value="best" /> | 38 <param name="type" value="best" /> |
| 42 <param name="detailed" value="false" /> | |
| 43 <output name="output" file="poretools-tabular-out4.tabular" ftype="tabular" /> | 39 <output name="output" file="poretools-tabular-out4.tabular" ftype="tabular" /> |
| 44 </test> | 40 </test> |
| 45 <test> | 41 <test> |
| 46 <expand macro="test_input" /> | 42 <expand macro="test_input" /> |
| 47 <param name="types" value="all" /> | 43 <param name="type" value="all" /> |
| 48 <param name="detailed" value="true" /> | |
| 49 <output name="output" file="poretools-tabular-out5.tabular" ftype="tabular" /> | 44 <output name="output" file="poretools-tabular-out5.tabular" ftype="tabular" /> |
| 50 </test> | 45 </test> |
| 51 </tests> | 46 </tests> |
| 52 <help> | 47 <help> |
| 53 Dump the length, name, sequence, and quality scores of the sequence in one or a set of FAST5 files. | 48 Dump the length, name, sequence, and quality scores of the sequence in one or a set of FAST5 files. |