Mercurial > repos > artbio > repenrich
comparison edger-repenrich.xml @ 11:6bba3e33c2e7 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/repenrich commit 11df9f0b68d35d3a9424a17e4cefee6cfb9d4c19
author | artbio |
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date | Sat, 09 Mar 2024 22:32:46 +0000 |
parents | 6f4143893463 |
children | 530626b0757c |
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10:6f4143893463 | 11:6bba3e33c2e7 |
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1 <tool id="edger-repenrich" name="edgeR-repenrich" version="1.5.2"> | 1 <tool id="edger-repenrich" name="edgeR-repenrich" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> |
2 <description>Determines differentially expressed features from RepEnrich counts</description> | 2 <description>Determines differentially expressed features from RepEnrich counts</description> |
3 <requirements> | 3 <macros> |
4 <requirement type="package" version="3.16.5">bioconductor-edger</requirement> | 4 <import>macros.xml</import> |
5 <requirement type="package" version="3.30.13">bioconductor-limma</requirement> | 5 </macros> |
6 <requirement type="package" version="1.20.0">r-getopt</requirement> | 6 <expand macro="requirements"/> |
7 <requirement type="package" version="0.2.15">r-rjson</requirement> | |
8 </requirements> | |
9 <stdio> | 7 <stdio> |
10 <regex match="Execution halted" | 8 <regex match="Execution halted" |
11 source="both" | 9 source="both" |
12 level="fatal" | 10 level="fatal" |
13 description="Execution halted." /> | 11 description="Execution halted." /> |
107 <data format="tabular" name="counts_out" label="Normalized counts file"> | 105 <data format="tabular" name="counts_out" label="Normalized counts file"> |
108 <filter>normCounts == True</filter> | 106 <filter>normCounts == True</filter> |
109 </data> | 107 </data> |
110 </outputs> | 108 </outputs> |
111 <tests> | 109 <tests> |
112 <test> | 110 <test expect_num_outputs="3"> |
113 <param name="factorName" value="Genotype"/> | 111 <param name="factorName" value="Genotype"/> |
114 <param name="factorLevel_A" value="Mutant"/> | 112 <param name="factorLevel_A" value="Mutant"/> |
115 <param name="countsFiles_A" value="355_fraction_counts.tab,356_fraction_counts.tab"/> | 113 <param name="countsFiles_A" value="355_fraction_counts.tab,356_fraction_counts.tab"/> |
116 <param name="alignmentFiles_A" value="aligned_355.tab,aligned_356.tab"/> | 114 <param name="alignmentFiles_A" value="aligned_355.tab,aligned_356.tab"/> |
117 <param name="factorLevel_B" value="Wildtype"/> | 115 <param name="factorLevel_B" value="Wildtype"/> |