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comparison loadandplot.xml @ 64:bd5ba4648ac0 draft

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Uploaded 20170608
author fabio
date Thu, 08 Jun 2017 17:39:47 -0400
parents 7a806a3aeda1
children 0b07bbe59b14
comparison
equal deleted inserted replaced
63:c3eb6f46884b 64:bd5ba4648ac0
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
7 <stdio> 7 <stdio>
8 <exit_code range="255" source="both" level="fatal" description="Missing IWTomics package. Please be sure to have it installed before using this tool." /> 8 <exit_code range="255" level="fatal" description="Missing IWTomics package. Please be sure to have it installed before using this tool." />
9 <exit_code range="10" source="both" level="fatal" description="An error has occurred reading the header file for regions. Please try again." /> 9 <exit_code range="10" level="fatal" description="An error has occurred reading the header file for regions. Please try again." />
10 <exit_code range="11" source="both" level="fatal" description="Not all region files are present in the first column of header file for regions." /> 10 <exit_code range="11" level="fatal" description="Not all region files are present in the first column of header file for regions." />
11 <exit_code range="20" source="both" level="fatal" description="An error has occurred reading the header file for features. Please try again." /> 11 <exit_code range="20" level="fatal" description="An error has occurred reading the header file for features. Please try again." />
12 <exit_code range="21" source="both" level="fatal" description="Not all feature files are present in the first column of header file for features." /> 12 <exit_code range="21" level="fatal" description="Not all feature files are present in the first column of header file for features." />
13 <exit_code range="30" source="both" level="fatal" description="An error has occurred reading the data. Please try again." /> 13 <exit_code range="30" level="fatal" description="An error has occurred reading the data. Please try again." />
14 <exit_code range="31" source="both" level="fatal" description="Not enough columns in input file." /> 14 <exit_code range="31" level="fatal" description="Not enough columns in input file." />
15 <exit_code range="32" source="both" level="fatal" description="Duplicated regions in region file." /> 15 <exit_code range="32" level="fatal" description="Duplicated regions in region file." />
16 <exit_code range="33" source="both" level="fatal" description="Duplicated windows in feature file." /> 16 <exit_code range="33" level="fatal" description="Duplicated windows in feature file." />
17 <exit_code range="34" source="both" level="fatal" description="Overlapping windows in feature file." /> 17 <exit_code range="34" level="fatal" description="Overlapping windows in feature file." />
18 <exit_code range="35" source="both" level="fatal" description="Windows in feature files do not cover all regions in region files." /> 18 <exit_code range="35" level="fatal" description="Windows in feature files do not cover all regions in region files." />
19 <exit_code range="36" source="both" level="fatal" description="All windows in a feature file must have the same size." /> 19 <exit_code range="36" level="fatal" description="All windows in a feature file must have the same size." />
20 <exit_code range="40" source="both" level="fatal" description="An error has occurred smoothing the data. Please try again." /> 20 <exit_code range="40" level="fatal" description="An error has occurred smoothing the data. Please try again." />
21 <regex match="Error" source="both" level="fatal" description="An error has occurred. Please try again." /> 21 <regex match="Error" level="fatal" description="An error has occurred. Please try again." />
22 </stdio> 22 </stdio>
23 23
24 <command> 24 <command>
25 <![CDATA[ 25 <![CDATA[
26 Rscript $__tool_directory__/loadandplot.R outrdata="${outrdata}" outregions="${outregions}" outfeatures="${outfeatures}" outpdf="${outpdf}" 26 Rscript $__tool_directory__/loadandplot.R outrdata="${outrdata}" outregions="${outregions}" outfeatures="${outfeatures}" outpdf="${outpdf}"