Mercurial > repos > iuc > slamdunk
comparison alleyoop.xml @ 6:141f65f7c7c8 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit 0502309b17c070efd9c8ab28e538279055835a45"
author | iuc |
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date | Tue, 13 Jul 2021 14:01:12 +0000 |
parents | 57bf9a0d49a5 |
children | 5a26589d95ad |
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5:8b62f89924a7 | 6:141f65f7c7c8 |
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1 <tool id="alleyoop" name="Alleyoop" version="@TOOL_VERSION@"> | 1 <tool id="alleyoop" name="Alleyoop" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@"> |
2 <description>- post-processing and QC of Slamdunk analyses</description> | 2 <description>- post-processing and QC of Slamdunk analyses</description> |
3 <macros> | 3 <macros> |
4 <import>macros.xml</import> | 4 <import>macros.xml</import> |
5 </macros> | 5 </macros> |
6 <expand macro="requirements" /> | 6 <expand macro="requirements" /> |
116 <param name="variants" ftype="vcf" value="reads1_snp.vcf,reads2_snp.vcf" /> | 116 <param name="variants" ftype="vcf" value="reads1_snp.vcf,reads2_snp.vcf" /> |
117 <param name="l" value="100" /> | 117 <param name="l" value="100" /> |
118 <param name="mq" value="27" /> | 118 <param name="mq" value="27" /> |
119 <param name="bams" value="True" /> | 119 <param name="bams" value="True" /> |
120 <output_collection name="outputTCReads" count="2"> | 120 <output_collection name="outputTCReads" count="2"> |
121 <element name="reads1" ftype="bam" file="reads1_TCReads.bam" /> | 121 <element name="reads1" ftype="bam" file="reads1_TCReads.bam" lines_diff="8"/> |
122 </output_collection> | 122 </output_collection> |
123 <output_collection name="outputbkgdReads" count="2"> | 123 <output_collection name="outputbkgdReads" count="2"> |
124 <element name="reads1" ftype="bam" file="reads1_backgroundReads.bam" /> | 124 <element name="reads1" ftype="bam" file="reads1_backgroundReads.bam" lines_diff="8"/><!-- allow for diff in RG and PG lines --> |
125 </output_collection> | 125 </output_collection> |
126 </test> | 126 </test> |
127 </tests> | 127 </tests> |
128 <help><![CDATA[ | 128 <help><![CDATA[ |
129 SLAMseq | 129 SLAMseq |