Mercurial > repos > public-health-bioinformatics > adjust_bracken_for_unclassified_reads
comparison adjust_bracken_kreport_for_unclassified_reads.xml @ 3:899a650587ed draft default tip
planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/adjust_bracken_for_unclassified_reads commit 24535690aedb81353cf5e036dc4577022d9604ad
author | public-health-bioinformatics |
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date | Thu, 27 Oct 2022 19:13:25 +0000 |
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2:87459bd1615a | 3:899a650587ed |
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1 <tool id="adjust_bracken_kreport_for_unclassified_reads" name="Adjust Kraken-Style Bracken Report for Unclassified Reads" version="0.1.0+galaxy0"> | |
2 <description>Adjust kraken-style bracken report to account for unclassified reads</description> | |
3 <requirements> | |
4 </requirements> | |
5 <command detect_errors="exit_code"><![CDATA[ | |
6 '$__tool_directory__/adjust_bracken_kreport_for_unclassified_reads.py' | |
7 --kraken-report '${kraken_report}' | |
8 --kraken-style-bracken-report '${kraken_style_bracken_report}' | |
9 > ${adjusted_report} | |
10 ]]></command> | |
11 <inputs> | |
12 <param name="kraken_report" type="data" format="txt" /> | |
13 <param name="kraken_style_bracken_report" type="data" format="txt" /> | |
14 </inputs> | |
15 <outputs> | |
16 <data name="adjusted_report" label="Adjusted Report" format="txt"/> | |
17 </outputs> | |
18 <tests> | |
19 <test> | |
20 <param name="kraken_report" value="input/SRR17619849_kraken2.txt"/> | |
21 <param name="kraken_style_bracken_report" value=""/> | |
22 <output name="adjusted_report" file="" ftype="tabular"/> | |
23 </test> | |
24 </tests> | |
25 <help><![CDATA[ | |
26 ]]></help> | |
27 <citations> | |
28 </citations> | |
29 </tool> |