Mercurial > repos > iuc > abricate

annotate abricate_list.xml @ 10:c2ef298da409 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 6285862fce2b3e298ef0333489392335091b5b0d"
author iuc
date Thu, 15 Apr 2021 18:21:41 +0000
parents 78c75f134c16
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
10
c2ef298da409 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 6285862fce2b3e298ef0333489392335091b5b0d"
iuc
parents: 4
diff changeset
1 <tool id="abricate_list" name="ABRicate List" version="@VERSION@" profile="@PROFILE@">
4
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
2 <description>
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
3 List all of abricate's available databases.
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
4 </description>
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
5 <macros>
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
6 <import>macros.xml</import>
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
7 </macros>
10
c2ef298da409 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 6285862fce2b3e298ef0333489392335091b5b0d"
iuc
parents: 4
diff changeset
8 <expand macro='xrefs'/>
c2ef298da409 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 6285862fce2b3e298ef0333489392335091b5b0d"
iuc
parents: 4
diff changeset
9 <expand macro='edam_ontology'/>
4
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
10 <expand macro="requirements" />
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
11 <expand macro="version_command" />
0
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
12
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
13 <command detect_errors="exit_code"><![CDATA[
3
6e9aea89e388 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 962161e1dde26559d0bc1ce5d7b75d2f354606c5
iuc
parents: 2
diff changeset
14 abricate --list > '$report'
0
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
15 ]]></command>
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
16
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
17 <inputs>
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
18 </inputs>
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
19
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
20 <outputs>
1
15197951a756 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 626b990b38e0585abfb6a06a2516ff498dc2257b
iuc
parents: 0
diff changeset
21 <data name="report" format="txt" label="${tool.name} - list of databases"/>
0
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
22 </outputs>
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
23
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
24 <tests>
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
25 <test>
3
6e9aea89e388 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 962161e1dde26559d0bc1ce5d7b75d2f354606c5
iuc
parents: 2
diff changeset
26 <output name="report" ftype="txt" file="output_list.txt" compare="contains" />
0
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
27 </test>
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
28 </tests>
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
29
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
30 <help><![CDATA[
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
31 **What it does**
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
32
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
33 ABRicate List will list all the antibiotic databases used by ABRicate. The database of these genes is built from ResFinder.
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
34 ]]></help>
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
35
4
78c75f134c16 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 1127a471ad5d1a75c311fa3be581476f5d8f9339
iuc
parents: 3
diff changeset
36 <expand macro="citations"/>
0
862f5a86854d planemo upload commit 3fdc0150310db0a67769f9ce6ea85695d595b2ba-dirty
iuc
parents:
diff changeset
37 </tool>