Mercurial > repos > artbio > cnv_facets

annotate macros.xml @ 1:8e1fb7253c1d draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 613efcbc9de2f712eb2ad9540e3e63f7b968640c
author artbio
date Fri, 03 Oct 2025 00:04:22 +0000
parents 3a185b812f46
children 66a56502199d
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
1 <macros>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
2 <token name="@pipefail@"><![CDATA[set -o | grep -q pipefail && set -o pipefail;]]></token>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
3 <token name="@TOOL_VERSION@">0.6.2</token>
1
8e1fb7253c1d planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 613efcbc9de2f712eb2ad9540e3e63f7b968640c
artbio
parents: 0
diff changeset
4 <token name="@VERSION_SUFFIX@">1</token>
0
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
5 <token name="@PROFILE@">23.0</token>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
6 <xml name="requirements">
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
7 <requirements>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
8 <requirement type="package" version="0.6.2">snp-pileup</requirement>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
9 <requirement type="package" version="1.22">bcftools</requirement>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
10 <requirement type="package" version="1.22.1">samtools</requirement>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
11 <requirement type="package" version="1.22.1">htslib</requirement>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
12 <requirement type="package" version="20250822">parallel</requirement>
1
8e1fb7253c1d planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 613efcbc9de2f712eb2ad9540e3e63f7b968640c
artbio
parents: 0
diff changeset
13 <requirement type="package" version="9.5">coreutils</requirement>
0
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
14 </requirements>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
15 </xml> <xml name="citations">
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
16 <citations>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
17 <citation type="bibtex">
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
18 @article{shen2016facets,
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
19 title={FACETS: allele-specific copy number and clonal heterogeneity analysis tool for cancer sequencing data},
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
20 author={Shen, Ronglai and Seshan, Venkatraman E},
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
21 journal={Nucleic acids research},
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
22 volume={44},
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
23 number={12},
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
24 pages={e131--e131},
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
25 year={2016},
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
26 publisher={Oxford University Press}
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
27 }
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
28 </citation>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
29 </citations>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
30 </xml>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
31
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
32 <xml name="stdio">
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
33 <stdio>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
34 <exit_code range="1:" level="fatal" description="Error during script execution." />
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
35 </stdio>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
36 </xml>
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
37
3a185b812f46 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/facets commit 3c440a9075507e077fc8c82244d0313cb6478a01
artbio
parents:
diff changeset
38 </macros>