Mercurial > repos > gga > tripal_organism_sync

annotate macros.xml @ 3:d5cd04afe47b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
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 04:43:20 -0400
parents 5d45a37e5e9b
children 55a94619ac51
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
1 <?xml version="1.0"?>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
2 <macros>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
3 <xml name="requirements">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
4 <requirements>
3
d5cd04afe47b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit d21999bb3e142fd972a3338b70216989a257d5b1
gga
parents: 2
diff changeset
5 <requirement type="package" version="3.0">python-tripal</requirement>
0
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
6 <yield/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
7 </requirements>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
8 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
9
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
10 <xml name="stdio">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
11 <stdio>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
12 <regex level="fatal" match="Exception:" source="stderr" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
13 <regex level="fatal" match="error" source="stderr" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
14 <exit_code range="1:" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
15 </stdio>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
16 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
17
3
d5cd04afe47b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit d21999bb3e142fd972a3338b70216989a257d5b1
gga
parents: 2
diff changeset
18 <token name="@WRAPPER_VERSION@">3.0</token>
0
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
19
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
20 <xml name="citation">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
21 <citations>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
22 <citation type="doi">10.1093/database/bat075</citation>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
23 </citations>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
24 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
25
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
26 <token name="@HELP_OVERVIEW@"><![CDATA[
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
27 **Python-tripal Overview**
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
28
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
29 Python-tripal provides several tools allowing to load data into a remote Chado-based Tripal database.
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
30 The tripal_rest_api Tripal module must be installed on the remote server to use these tools.
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
31 ]]></token>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
32
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
33 <token name="@HELP@"><![CDATA[
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
34 **Useful Links**
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
35
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
36 `Tripal project website <http://tripal.info/>`_
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
37
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
38 `Tripal REST API module <http://github.com/abretaud/tripal_rest_api>`_: a Tripal module required to use these galaxy tools
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
39 ]]></token>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
40
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
41 <token name="@DATA_DIR@">\$GALAXY_TRIPAL_SHARED_DIR</token>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
42
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
43 <token name="@AUTH@"><![CDATA[
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
44 echo "__default: local" > '.auth.yml' &&
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
45 echo "local:" >> '.auth.yml' &&
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
46 echo " tripal_url: \"\$GALAXY_TRIPAL_URL\"" >> '.auth.yml' &&
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
47 echo " username: \"\$GALAXY_TRIPAL_USER\"" >> '.auth.yml' &&
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
48 echo " password: \"\$GALAXY_TRIPAL_PASSWORD\"" >> '.auth.yml' &&
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
49
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
50 TRIPAILLE_GLOBAL_CONFIG_PATH='.auth.yml'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
51 ]]></token>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
52
2
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
53 <xml name="wait_for">
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
54 <param name="wait_for"
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
55 type="data"
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
56 format="data"
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
57 optional="true"
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
58 label="Run this only after the following dataset is ready"
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
59 help="Use this if you want to delay the job execution until some data is already loaded. The selected dataset will not be used for anything else."/>
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
60 </xml>
5d45a37e5e9b planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
gga
parents: 0
diff changeset
61
0
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
62 <xml name="test_result">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
63 <assert_stderr>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
64 <has_text text="MissingSchema" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
65 </assert_stderr>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
66 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
67
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
68 <xml name="analysis">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
69 <section name="analysis" title="Analysis" expanded="True">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
70 <param name="name"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
71 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
72 label="The analysis name [mandatory]">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
73 <expand macro="sanitized"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
74 </param>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
75
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
76 <param name="program"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
77 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
78 label="Program name [mandatory]"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
79 help="Name of the program that was used to perform this analysis">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
80 <expand macro="sanitized"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
81 </param>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
82 <param name="program_version"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
83 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
84 label="Program version [mandatory]"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
85 help="Version of the program that was used to perform this analysis"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
86 <param name="source"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
87 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
88 label="Source name [mandatory]"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
89 help="Where this analysis comes from">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
90 <expand macro="sanitized"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
91 </param>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
92
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
93 <param name="source_version"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
94 argument="--sourceversion"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
95 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
96 optional="True"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
97 label="Source version" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
98 <param name="source_uri"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
99 argument="--sourceuri"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
100 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
101 optional="True"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
102 label="Source URI"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
103 help="URI where source data was retrieved" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
104 <param name="algorithm"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
105 argument="--algorithm"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
106 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
107 label="Algorithm"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
108 optional="True"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
109 help="Algorithm of the program that was used to perform this analysis" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
110 <param name="description"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
111 argument="--description"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
112 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
113 optional="True"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
114 label="Analysis description">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
115 <expand macro="sanitized"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
116 </param>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
117 <param name="date"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
118 argument="--date_executed"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
119 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
120 optional="True"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
121 label="Execution date"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
122 help="Format: yyyy-mm-dd Default: Today">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
123 <validator type="regex" message="Date in YYYY-MM-DD format">^[0-9]{4}-[0-9]{2}-[0-9]{2}$</validator>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
124 </param>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
125 </section>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
126 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
127
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
128 <xml name="feature_rel">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
129 <param name="rel_subject_re"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
130 argument="--rel-subject-re"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
131 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
132 label="Regular expression to extract the unique name of the parent feature"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
133 help="this regex will be applied on the fasta definition line to generate the unique name of the parent feature">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
134 <expand macro="sanitized"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
135 </param>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
136
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
137 <param name="rel_subject_type"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
138 argument="--rel-subject-type"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
139 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
140 label="Sequence type of the parent"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
141 help="this should be a Sequence Ontology term" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
142 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
143
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
144 <xml name="match_type">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
145 <param name="match_type"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
146 argument="--match-type"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
147 type="select"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
148 label="Match type for already loaded features">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
149 <option value="uniquename" selected="true">Unique name</option>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
150 <option value="name">Name</option>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
151 </param>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
152 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
153
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
154 <xml name="matching">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
155 <section name="matching" title="Feature matching" expanded="True">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
156 <param name="query_type"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
157 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
158 label="The feature type of the blast query"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
159 help="It must be a valid Sequence Ontology term. e.g. 'contig', 'gene', 'mRNA', 'polypeptide'" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
160
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
161 <param name="query_uniquename"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
162 type="boolean"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
163 checked="false"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
164 truevalue="--query_uniquename"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
165 falsevalue=""
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
166 label="Find blast query features using their Unique name"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
167 help="Feature name will be used otherwise" />
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
168
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
169 <param name="query_re"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
170 type="text"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
171 optional="true"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
172 label="Regular expression to extract the feature name from the blast query name"
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
173 help="leave empty if the first word in query name is sufficient">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
174 <expand macro="sanitized"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
175 </param>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
176 </section>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
177 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
178
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
179 <xml name="sanitized">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
180 <sanitizer>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
181 <valid initial="string.printable">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
182 <remove value="&apos;"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
183 </valid>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
184 <mapping initial="none">
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
185 <add source="&apos;" target="&apos;&quot;&apos;&quot;&apos;"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
186 <add source="(" target="\("/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
187 <add source=")" target="\)"/>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
188 </mapping>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
189 </sanitizer>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
190 </xml>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
191
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
192 <token name="@MATCHING@"><![CDATA[
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
193 #if str($matching.query_re):
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
194 --query_re '${matching.query_re}'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
195 #end if
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
196
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
197 $matching.query_uniquename
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
198
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
199 --query_type '$matching.query_type'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
200 ]]></token>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
201
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
202 <token name="@ANALYSIS@"><![CDATA[
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
203 #if $analysis.algorithm:
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
204 --algorithm '$analysis.algorithm'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
205 #end if
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
206 #if $analysis.source_version:
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
207 --sourceversion '$analysis.source_version'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
208 #end if
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
209 #if $analysis.source_uri:
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
210 --sourceuri '$analysis.source_uri'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
211 #end if
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
212 #if $analysis.description:
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
213 --description '$analysis.description'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
214 #end if
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
215 #if $analysis.date:
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
216 --date_executed '$analysis.date'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
217 #end if
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
218
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
219 '$analysis.name'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
220 '$analysis.program'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
221 '$analysis.program_version'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
222 '$analysis.source'
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
223 ]]></token>
98e917aa6819 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
224 </macros>