Mercurial > repos > gga > tripal_analysis_load_go

comparison analysis_load_go.xml @ 3:60d3281859a0 draft

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planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit d21999bb3e142fd972a3338b70216989a257d5b1
author gga
date Mon, 06 Aug 2018 04:43:30 -0400
parents 976020e5c924
children 719b00f71132
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equal deleted inserted replaced
2:976020e5c924 3:60d3281859a0
3 <description>into Tripal</description> 3 <description>into Tripal</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
8 <code file="tripal.py"/>
8 <expand macro="stdio"/> 9 <expand macro="stdio"/>
9 <command><![CDATA[ 10 <command><![CDATA[
10 tmp_dir=`mktemp -d -p "@DATA_DIR@"` && chmod a+rx "\${tmp_dir}" 11 tmp_dir=`mktemp -d -p "@DATA_DIR@"` && chmod a+rx "\${tmp_dir}"
11 12
12 && 13 &&
17 18
18 @AUTH@ 19 @AUTH@
19 20
20 tripaille analysis load_go 21 tripaille analysis load_go
21 22
23 --organism_id '${organism}'
24
22 @ANALYSIS@ 25 @ANALYSIS@
23 26
24 @MATCHING@ 27 #if str($matching.query_re):
28 --re_name '${matching.query_re}'
29 #end if
30
31 #if $matching.query_uniquename:
32 --query_matching 'uniquename'
33 #else
34 --query_matching 'uniquename'
35 #end if
36
37 --query_type '$matching.query_type'
25 38
26 "\${tmp_dir}/blast2go.gaf" 39 "\${tmp_dir}/blast2go.gaf"
27 40
28 && 41 &&
29 42
32 <inputs> 45 <inputs>
33 <param name="input" 46 <param name="input"
34 type="data" 47 type="data"
35 format="txt" 48 format="txt"
36 label="Blast2Go results (GAF file)" /> 49 label="Blast2Go results (GAF file)" />
50
51 <param argument="--organism"
52 type="select"
53 dynamic_options="list_organisms()"
54 label="Organism" />
37 55
38 <expand macro="matching"/> 56 <expand macro="matching"/>
39 <expand macro="analysis" /> 57 <expand macro="analysis" />
40 <expand macro="wait_for"/> 58 <expand macro="wait_for"/>
41 </inputs> 59 </inputs>