Mercurial > repos > stevecassidy > vowelplot

comparison phonR_tool.xml @ 4:0c6aea9fe490 draft default tip

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planemo upload commit 2d22bc12c66a3d1949d4bf4c84e7ce7c4610383c-dirty
author stevecassidy
date Wed, 14 Dec 2016 21:54:31 -0500
parents 24f05f509f09
children
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3:24f05f509f09 4:0c6aea9fe490
1 <tool id="vowel_plot" name="Plot Vowels" version="0.01" force_history_refresh="True"> 1 <tool id="vowel_plot" name="Plot Vowels" version="0.01" force_history_refresh="True">
2 <description>Using phonR to produce a Vowel Plot</description> 2 <description>Using phonR to produce a Vowel Plot</description>
3 3
4 <requirements> 4 <requirements>
5 <requirement type="package" version="3.2.1">R</requirement>
6 <requirement type="package" version="1.0_3">r-phonr</requirement> 5 <requirement type="package" version="1.0_3">r-phonr</requirement>
7 <requirement type="package">r-getopt</requirement> 6 <requirement type="package">r-getopt</requirement>
8 </requirements> 7 </requirements>
9 8
10 <command interpreter="Rscript"> 9 <command interpreter="Rscript">
11 $__tool_directory__/phonR_tool.R --input="${input}" --pdffile="$pdffile" --column1="${f1}" --column2="${f2}" --columnvowels="${vowel}" --pretty="${pretty}" --ellipse="${ellipse}" --tokens="${tokens}" --means="${means}" --cextokens="${cextokens}" --alphatokens="${alphatokens}" --cexmeans="${cexmeans}" 10 $__tool_directory__/phonR_tool.R --input="${input}" --pdffile="$pdffile" --column1="${f1}" --column2="${f2}" --columnvowels="${vowel}" --pretty="${pretty}" --ellipse="${ellipse}" --tokens="${tokens}" --means="${means}" --cextokens="${cextokens}" --alphatokens="${alphatokens}" --cexmeans="${cexmeans}"
12 </command> 11 </command>
12
13 <stdio>
14 <regex match="Linux: unexpected operator"
15 source="stderr"
16 level="warning"
17 description="conda r-base bash bug" />
18 </stdio>
13 19
14 <inputs> 20 <inputs>
15 <param name="input" type="data" format="tabular" label="Segment List" help=""/> 21 <param name="input" type="data" format="tabular" label="Segment List" help=""/>
16 <param name="f1" type="data_column" data_ref="input" label="Column for f1" force_select="true" use_header_names="true"/> 22 <param name="f1" type="data_column" data_ref="input" label="Column for f1" force_select="true" use_header_names="true"/>
17 <param name="f2" type="data_column" data_ref="input" label="Column for f2" force_select="true" use_header_names="true"/> 23 <param name="f2" type="data_column" data_ref="input" label="Column for f2" force_select="true" use_header_names="true"/>