annotate macros.xml @ 2:6367393cae8e draft default tip

"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
author gga
date Wed, 14 Aug 2019 10:03:19 -0400
parents cf07e70c1502
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
1 <?xml version="1.0"?>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
2 <macros>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
3 <xml name="requirements">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
4 <requirements>
1
cf07e70c1502 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 35c5eff77b573a66f3611b4906417df9a440c857
gga
parents: 0
diff changeset
5 <requirement type="package" version="3.2.1">python-tripal</requirement>
0
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
6 <yield/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
7 </requirements>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
8 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
9
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
10 <xml name="stdio">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
11 <stdio>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
12 <regex level="fatal" match="Exception:" source="stderr" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
13 <regex level="fatal" match="error" source="stderr" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
14 <exit_code range="1:" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
15 </stdio>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
16 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
17
1
cf07e70c1502 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 35c5eff77b573a66f3611b4906417df9a440c857
gga
parents: 0
diff changeset
18 <token name="@WRAPPER_VERSION@">3.2.1</token>
0
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
19
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
20 <xml name="citation">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
21 <citations>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
22 <citation type="doi">10.1093/database/bat075</citation>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
23 </citations>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
24 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
25
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
26 <token name="@HELP_OVERVIEW@"><![CDATA[
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
27 **Python-tripal Overview**
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
28
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
29 Python-tripal provides several tools allowing to load data into a remote Chado-based Tripal database.
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
30 The tripal_rest_api Tripal module must be installed on the remote server to use these tools.
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
31 ]]></token>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
32
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
33 <token name="@HELP@"><![CDATA[
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
34 **Useful Links**
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
35
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
36 `Tripal project website <http://tripal.info/>`_
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
37
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
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
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
39 ]]></token>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
40
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
41 <token name="@DATA_DIR@">\$GALAXY_TRIPAL_SHARED_DIR</token>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
42
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
43 <token name="@AUTH@"><![CDATA[
2
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
44 if [ -z "\$TRIPAILLE_GLOBAL_CONFIG_PATH" ]; then
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
45 echo "__default: local" > '.auth.yml' &&
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
46 echo "local:" >> '.auth.yml' &&
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
47 echo " tripal_url: \"\$GALAXY_TRIPAL_URL\"" >> '.auth.yml' &&
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
48 echo " username: \"\$GALAXY_TRIPAL_USER\"" >> '.auth.yml' &&
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
49 echo " password: \"\$GALAXY_TRIPAL_PASSWORD\"" >> '.auth.yml' &&
0
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
50
2
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
51 export TRIPAILLE_GLOBAL_CONFIG_PATH='.auth.yml'
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
52 ; fi &&
0
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
53 ]]></token>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
54
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
55 <xml name="wait_for">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
56 <param name="wait_for"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
57 type="data"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
58 format="data"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
59 optional="true"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
60 label="Run this only after the following dataset is ready"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
61 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."/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
62 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
63
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
64 <xml name="test_result">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
65 <assert_stderr>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
66 <has_text text="MissingSchema" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
67 </assert_stderr>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
68 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
69
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
70 <xml name="analysis">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
71 <section name="analysis" title="Analysis" expanded="True">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
72 <param name="name"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
73 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
74 label="The analysis name [mandatory]">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
75 <expand macro="sanitized"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
76 </param>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
77
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
78 <param name="program"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
79 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
80 label="Program name [mandatory]"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
81 help="Name of the program that was used to perform this analysis">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
82 <expand macro="sanitized"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
83 </param>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
84 <param name="program_version"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
85 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
86 label="Program version [mandatory]"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
87 help="Version of the program that was used to perform this analysis"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
88 <param name="source"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
89 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
90 label="Source name [mandatory]"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
91 help="Where this analysis comes from">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
92 <expand macro="sanitized"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
93 </param>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
94
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
95 <param name="source_version"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
96 argument="--sourceversion"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
97 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
98 optional="True"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
99 label="Source version" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
100 <param name="source_uri"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
101 argument="--sourceuri"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
102 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
103 optional="True"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
104 label="Source URI"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
105 help="URI where source data was retrieved" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
106 <param name="algorithm"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
107 argument="--algorithm"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
108 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
109 label="Algorithm"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
110 optional="True"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
111 help="Algorithm of the program that was used to perform this analysis" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
112 <param name="description"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
113 argument="--description"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
114 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
115 optional="True"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
116 label="Analysis description">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
117 <expand macro="sanitized"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
118 </param>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
119 <param name="date"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
120 argument="--date_executed"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
121 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
122 optional="True"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
123 label="Execution date"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
124 help="Format: yyyy-mm-dd Default: Today">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
125 <validator type="regex" message="Date in YYYY-MM-DD format">^[0-9]{4}-[0-9]{2}-[0-9]{2}$</validator>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
126 </param>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
127 </section>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
128 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
129
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
130 <xml name="feature_rel">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
131 <param name="rel_subject_re"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
132 argument="--rel-subject-re"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
133 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
134 label="Regular expression to extract the unique name of the parent feature"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
135 help="this regex will be applied on the fasta definition line to generate the unique name of the parent feature">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
136 <expand macro="sanitized"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
137 </param>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
138
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
139 <param name="rel_subject_type"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
140 argument="--rel-subject-type"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
141 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
142 label="Sequence type of the parent"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
143 help="this should be a Sequence Ontology term" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
144 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
145
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
146 <xml name="match_type">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
147 <param name="match_type"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
148 argument="--match-type"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
149 type="select"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
150 label="Match type for already loaded features">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
151 <option value="uniquename" selected="true">Unique name</option>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
152 <option value="name">Name</option>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
153 </param>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
154 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
155
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
156 <xml name="matching">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
157 <section name="matching" title="Feature matching" expanded="True">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
158 <param name="query_type"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
159 type="text"
2
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
160 label="The feature type of the query"
0
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
161 help="It must be a valid Sequence Ontology term. e.g. 'contig', 'gene', 'mRNA', 'polypeptide'" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
162
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
163 <param name="query_uniquename"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
164 type="boolean"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
165 checked="false"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
166 truevalue="--query_uniquename"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
167 falsevalue=""
2
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
168 label="Find query features using their Unique name"
0
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
169 help="Feature name will be used otherwise" />
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
170
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
171 <param name="query_re"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
172 type="text"
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
173 optional="true"
2
6367393cae8e "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents: 1
diff changeset
174 label="Regular expression to extract the feature name from the query name"
0
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
175 help="leave empty if the first word in query name is sufficient">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
176 <expand macro="sanitized"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
177 </param>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
178 </section>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
179 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
180
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
181 <xml name="sanitized">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
182 <sanitizer>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
183 <valid initial="string.printable">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
184 <remove value="&apos;"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
185 </valid>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
186 <mapping initial="none">
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
187 <add source="&apos;" target="&apos;&quot;&apos;&quot;&apos;"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
188 <add source="(" target="\("/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
189 <add source=")" target="\)"/>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
190 </mapping>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
191 </sanitizer>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
192 </xml>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
193
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
194 <token name="@MATCHING@"><![CDATA[
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
195 #if str($matching.query_re):
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
196 --query_re '${matching.query_re}'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
197 #end if
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
198
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
199 $matching.query_uniquename
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
200
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
201 --query_type '$matching.query_type'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
202 ]]></token>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
203
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
204 <token name="@ANALYSIS@"><![CDATA[
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
205 #if $analysis.algorithm:
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
206 --algorithm '$analysis.algorithm'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
207 #end if
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
208 #if $analysis.source_version:
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
209 --sourceversion '$analysis.source_version'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
210 #end if
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
211 #if $analysis.source_uri:
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
212 --sourceuri '$analysis.source_uri'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
213 #end if
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
214 #if $analysis.description:
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
215 --description '$analysis.description'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
216 #end if
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
217 #if $analysis.date:
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
218 --date_executed '$analysis.date'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
219 #end if
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
220
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
221 '$analysis.name'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
222 '$analysis.program'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
223 '$analysis.program_version'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
224 '$analysis.source'
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
225 ]]></token>
fd775ed5c129 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff changeset
226 </macros>