Mercurial > repos > iuc > homer_gtf_to_annotations

comparison macros.xml @ 3:7c5da353e460 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/homer commit 16a919905f336e34e237388c1921d0f4f8a368af
author iuc
date Thu, 06 Apr 2023 16:23:06 +0000
parents 396cf2c12173
children
comparison
equal deleted inserted replaced
2:396cf2c12173 3:7c5da353e460
2 <token name="@TOOL_VERSION@">4.11</token> 2 <token name="@TOOL_VERSION@">4.11</token>
3 <!-- HOMER index version compatible with this version of HOMER 3 <!-- HOMER index version compatible with this version of HOMER
4 This is the HOMER version that introduced the preparsed structure expected 4 This is the HOMER version that introduced the preparsed structure expected
5 by the current version. --> 5 by the current version. -->
6 <token name="@IDX_VERSION@">4.11</token> 6 <token name="@IDX_VERSION@">4.11</token>
7 <token name="@VERSION_SUFFIX@">2</token> 7 <token name="@VERSION_SUFFIX@">3</token>
8 <token name="@PROFILE@">20.05</token>
8 <xml name="xrefs"> 9 <xml name="xrefs">
9 <xrefs> 10 <xrefs>
10 <xref type="bio.tools">homer</xref> 11 <xref type="bio.tools">homer</xref>
11 </xrefs> 12 </xrefs>
12 </xml> 13 </xml>
13 <xml name="requirements"> 14 <xml name="requirements">
14 <requirements> 15 <requirements>
15 <requirement type="package" version="4.11">homer</requirement> 16 <requirement type="package" version="@TOOL_VERSION@">homer</requirement>
16 </requirements> 17 </requirements>
17 </xml> 18 </xml>
18 <xml name="choose_center"> 19 <xml name="choose_center">
19 <conditional name="choose_center"> 20 <conditional name="choose_center">
20 <param name="center" type="select" label="Do you want to center your sequence on the peak center?"> 21 <param name="center" type="select" label="Do you want to center your sequence on the peak center?">
39 <param argument="-size" type="integer" min="0" value="200" label="fragment size in bp"/> 40 <param argument="-size" type="integer" min="0" value="200" label="fragment size in bp"/>
40 <expand macro="choose_center"/> 41 <expand macro="choose_center"/>
41 </when> 42 </when>
42 </conditional> 43 </conditional>
43 </xml> 44 </xml>
45 <xml name="geneid_input">
46 <param name="organism" type="select" label="What is the organism DB to be used?">
47 <options from_data_table="homer_promoters">
48 <filter type="sort_by" column="organism"/>
49 <validator type="no_options" message="No pre-installed organism DBs are available. Contact your galaxy administrator."/>
50 </options>
51 </param>
52 <param name="target_set" type="data" format="tabular" label="List of gene identifiers for the positive set"/>
53 </xml>
44 <xml name="citation"> 54 <xml name="citation">
45 <citations> 55 <citations>
46 <citation type="doi">10.1016/j.molcel.2010.05.004</citation> 56 <citation type="doi">10.1016/j.molcel.2010.05.004</citation>
47 </citations> 57 </citations>
48 </xml> 58 </xml>