Mercurial > repos > immport-devteam > extract_fcs_keywords

comparison extractKeywords.xml @ 1:1d5e530c8a5e 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/ImmPortDB/immport-galaxy-tools/tree/master/flowtools/extract_fcs_keywords commit f0a40d58aec0a657b60df338c79dc1ee8e510aa0"
author azomics
date Mon, 22 Jun 2020 17:22:21 -0400
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0:dc00746654dc 1:1d5e530c8a5e
1 <tool id="extract_fcs_keywords" name="Extract keywords" version="1.0+galaxy1">
2 <description>from FCS files</description>
3 <requirements>
4 <requirement type="package" version="1.42.0">bioconductor-flowcore</requirement>
5 </requirements>
6 <stdio>
7 <exit_code range="1:" />
8 </stdio>
9 <command><![CDATA[
10 Rscript $__tool_directory__/FCSKeyword.R '${input}' '${keyword_file}'
11 ]]>
12 </command>
13 <inputs>
14 <param format="fcs" name="input" type="data" label="FCS file"/>
15 </inputs>
16 <outputs>
17 <data format="tabular" name="keyword_file" label="Extract Keywords on ${input.name}"/>
18 </outputs>
19 <tests>
20 <test>
21 <param name="input" value="testfcs1.fcs"/>
22 <output name="keyword_file" file="out.tabular" lines_diff="2"/>
23 </test>
24 </tests>
25 <help><![CDATA[
26 This tool extracts the Keywords from a FCS file.
27
28 -----
29
30 **Input files**
31
32 This tool uses FCS files as input.
33
34 **Output file**
35
36 The list of FCS file headers is output.
37
38 -----
39
40 **Example**
41
42 FCSversion=2
43
44 $BYTEORD=4,3,2,1
45
46 $DATATYPE=I
47
48 $NEXTDATA=0
49
50 $SYS=Macintosh System Software 9.2.2
51
52 CREATOR=CELLQuest 3.3
53
54 $TOT=20000
55
56 $MODE=L
57
58 $PAR=6
59
60 $P1N=FSC-H
61
62 .
63
64 ..
65
66 ...
67 ]]>
68 </help>
69 </tool>