Mercurial > repos > galaxyp > metaquantome_viz

comparison macros.xml @ 7:8bd7734309f6 draft default tip

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/metaquantome commit ec66b5b0627e7cf15b6e67e90d82ba8e0743b761
author galaxyp
date Mon, 18 Mar 2024 12:34:39 +0000
parents eb811f3018ea
children
comparison
equal deleted inserted replaced
6:eb811f3018ea 7:8bd7734309f6
1 <macros> 1 <macros>
2 <token name="@TOOL_VERSION@">2.0.2</token> 2 <token name="@TOOL_VERSION@">2.0.2</token>
3 <token name="@VERSION_SUFFIX@">0</token> 3 <token name="@VERSION_SUFFIX@">0</token>
4 <xml name="xrefs">
5 <xrefs>
6 <xref type="bio.tools">metaQuantome</xref>
7 </xrefs>
8 </xml>
4 <xml name="requirements"> 9 <xml name="requirements">
5 <requirements> 10 <requirements>
6 <requirement type="package" version="@TOOL_VERSION@">metaquantome</requirement> 11 <requirement type="package" version="@TOOL_VERSION@">metaquantome</requirement>
7 <yield/> 12 <yield/>
8 </requirements> 13 </requirements>
9 </xml> 14 </xml>
10 <xml name="db"> 15 <xml name="db">
11 <param argument="db_tar" type="data" label="Database Archive File"/> 16 <param argument="db_tar" type="data" label="Database Archive File"/>
12 </xml> 17 </xml>
13 <xml name="ONTOLOGY_ARGS"> 18 <xml name="ONTOLOGY_ARGS">
14 <conditional name="ontology_args"> 19 <conditional name="ontology_args">
15 <param name="ontology" type="select" label="Ontology"> 20 <param name="ontology" type="select" label="Ontology">
16 <option value="go">Gene Ontology (GO terms)</option> 21 <option value="go">Gene Ontology (GO terms)</option>
17 <option value="ec">Enzyme Commission (EC) numbers</option> 22 <option value="ec">Enzyme Commission (EC) numbers</option>
18 <option value="cog">Clusters of Orthologous Groups (COG categories)</option> 23 <option value="cog">Clusters of Orthologous Groups (COG categories)</option>
19 </param> 24 </param>
20 <when value="go"> 25 <when value="go">
21 <param argument="--slim_down" type="boolean" label="Use slim GO"/> 26 <param argument="--slim_down" type="boolean" label="Use slim GO"/>
22 </when> 27 </when>
23 <when value="ec"> 28 <when value="ec">
24 <!-- do nothing --> 29 <!-- do nothing -->
25 </when> 30 </when>
26 <when value="cog"> 31 <when value="cog">
27 <!-- do nothing --> 32 <!-- do nothing -->
28 </when> 33 </when>
29 </conditional> 34 </conditional>
30 </xml> 35 </xml>
31 <token name="@COMMON_PARAMS@"><![CDATA[ 36 <token name="@COMMON_PARAMS@"><![CDATA[
32 --samps '$samps' 37 --samps '$samps'
33 --mode '$mode_args.mode' 38 --mode '$mode_args.mode'
34 #if $mode_args.mode == 'f' 39 #if $mode_args.mode == 'f'
38 --ontology='$mode_args.ontology_args.ontology' 43 --ontology='$mode_args.ontology_args.ontology'
39 #end if 44 #end if
40 ]]> 45 ]]>
41 </token> 46 </token>
42 <xml name="SAMPS"> 47 <xml name="SAMPS">
43 <param name="samps" type="data" format="tabular" label="Samples file" 48 <param name="samps" type="data" format="tabular" label="Samples file" help="must be created by 'metaQuantome: create samples file'"/>
44 help="must be created by 'metaQuantome: create samples file'"/>
45 </xml> 49 </xml>
46 <xml name="citations"> 50 <xml name="citations">
47 <citations> 51 <citations>
48 <yield /> 52 <citation type="doi">10.1021/ACS.JPROTEOME.0C00960</citation>
53 <yield/>
49 </citations> 54 </citations>
50 </xml> 55 </xml>
51 </macros> 56 </macros>