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comparison yahs.xml @ 5:ff4031bfaa22 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/yahs commit 270d2e701478bcf3f7cd1db8e188eb2cd69f5db5
author iuc
date Thu, 01 Aug 2024 11:41:41 +0000
parents 425e63adcc5d
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4:425e63adcc5d 5:ff4031bfaa22
1 <tool id="yahs" name="YAHS" version="@VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01"> 1 <tool id="yahs" name="YAHS" version="@VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01">
2 <description>yet another HI-C scaffolding tool</description> 2 <description>yet another HI-C scaffolding tool</description>
3 <macros> 3 <macros>
4 <token name="@VERSION@">1.2a.2</token> 4 <token name="@VERSION@">1.2a.2</token>
5 <token name="@VERSION_SUFFIX@">1</token> 5 <token name="@VERSION_SUFFIX@">2</token>
6 </macros> 6 </macros>
7 <requirements> 7 <requirements>
8 <requirement type="package" version="@VERSION@">yahs</requirement> 8 <requirement type="package" version="@VERSION@">yahs</requirement>
9 <requirement type="package" version="1.11">samtools</requirement> 9 <requirement type="package" version="1.11">samtools</requirement>
10 <requirement type="package" version="3.9">python</requirement> 10 <requirement type="package" version="3.9">python</requirement>
90 help="Comma separated, ascending list of range of resolutions with no spaces. Ex. 50000,100000,200000,500000,1000000,2000000,5000000. By default and the upper limit is automatically adjusted with the genome size"/> 90 help="Comma separated, ascending list of range of resolutions with no spaces. Ex. 50000,100000,200000,500000,1000000,2000000,5000000. By default and the upper limit is automatically adjusted with the genome size"/>
91 <conditional name="enzyme_conditional"> 91 <conditional name="enzyme_conditional">
92 <param name="enzyme_options" type="select" label="Restriction enzyme used in Hi-C experiment" help="Hi-C experiments can use different restriction enzymes. 92 <param name="enzyme_options" type="select" label="Restriction enzyme used in Hi-C experiment" help="Hi-C experiments can use different restriction enzymes.
93 The enzyme frequency in contigs is used to normalize the Hi-C interaction frequency. Note that you need to specify the actual 93 The enzyme frequency in contigs is used to normalize the Hi-C interaction frequency. Note that you need to specify the actual
94 sequence of the cutting site for a restriction enzyme and not the enzyme name. You can also specify DNASE as an enzyme if you 94 sequence of the cutting site for a restriction enzyme and not the enzyme name. You can also specify DNASE as an enzyme if you
95 use an enzyme-free prep, e.g. Omin-C."> 95 use an enzyme-free prep, e.g. Omni-C.">
96 <option value="not_specified">Not specified</option> 96 <option value="not_specified">Not specified</option>
97 <option value="preconfigured">Preconfigured restriction enzymes</option> 97 <option value="preconfigured">Preconfigured restriction enzymes</option>
98 <option value="specific">Enter a specific sequence</option> 98 <option value="specific">Enter a specific sequence</option>
99 </param> 99 </param>
100 <when value="not_specified"/> 100 <when value="not_specified"/>