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comparison cast.xml @ 0:8c13694c3847 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/reshape2 commit 62172bde663955b6c3cb86dc22c47739824f014a
author iuc
date Tue, 22 Aug 2017 07:43:00 -0400
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-1:000000000000 0:8c13694c3847
1 <tool id="cast" name="cast" version="@VERSION@">
2 <description>expand combinations of variables:values to columnar format</description>
3 <macros>
4 <import>macros.xml</import>
5 </macros>
6 <expand macro="requirements"></expand>
7 <command detect_errors="exit_code"><![CDATA[
8 cat '$script' &&
9 Rscript '$script'
10 ]]></command>
11 <configfiles>
12 <configfile name="script"><![CDATA[
13 ## Setup R error handling to go to stderr
14 options(show.error.messages=F, error=function(){cat(geterrmessage(),file=stderr());q("no",1,F)})
15 loc <- Sys.setlocale("LC_MESSAGES", "en_US.UTF-8")
16
17 ## Import library
18 library("reshape2")
19
20 input <- read.csv('$input', sep='\t', header=TRUE)
21 cinput <- dcast(input, ... ~ variable)
22 write.table(cinput, "output.tabular", sep="\t", quote=FALSE, row.names=FALSE)
23
24 ]]></configfile>
25 </configfiles>
26 <inputs>
27 <param name="input" type="data" format="tabular" label="Input should be molten data"/>
28 </inputs>
29 <outputs>
30 <data name="output" format="tabular" from_work_dir="output.tabular"/>
31 </outputs>
32 <tests>
33 <test>
34 <param name="input" value="melt_result1.tabular"/>
35 <output name="output" file="cast_result1.tabular"/>
36 </test>
37 </tests>
38 <help><![CDATA[
39 This tool will apply the dcast function of the reshape2 R package. The input data should be in a 'long' format or molten by the melt tool. The output will be in a wide format.
40 The cast function expands each unique variable:value combination on a single line to columnar format. Documantation on the reshape2 package can be found here: https://cran.r-project.org/web/packages/reshape2/reshape2.pdf
41 ]]></help>
42 <citations>
43 <citation type="bibtex">
44 @Article{,
45 title = {Reshaping Data with the {reshape} Package},
46 author = {Hadley Wickham},
47 journal = {Journal of Statistical Software},
48 year = {2007},
49 volume = {21},
50 number = {12},
51 pages = {1--20},
52 url = {http://www.jstatsoft.org/v21/i12/},
53 }
54 </citation>
55 </citations>
56 </tool>