Mercurial > repos > galaxyp > regex_find_replace

comparison regex_tabular.xml @ 2:538933d9fccc draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/regex_find_replace commit 8871a847daed1f996c0a2069c3e876685bf8d220"
author galaxyp
date Tue, 07 Apr 2020 11:31:27 -0400
parents 209b7c5ee9d7
children ae8c4b2488e7
comparison
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1:209b7c5ee9d7 2:538933d9fccc
1 <tool id="regexColumn1" name="Column Regex Find And Replace" version="1.0.0"> 1 <tool id="regexColumn1" name="Column Regex Find And Replace" version="1.0.1">
2 <description></description> 2 <description></description>
3 <command interpreter="python">regex.py --input '$input' --output '$out_file1' --column $field --input_display_name '$input.display_name' 3 <requirements>
4 #for $check in $checks: 4 <requirement type="package" version="3.7">python</requirement>
5 --pattern='$check.pattern' --replacement='$check.replacement' 5 </requirements>
6 #end for 6 <command>
7 python '$__tool_requirements__/regex.py'
8 --input '$input'
9 --output '$out_file1'
10 --column $field
11 --input_display_name '$input.display_name'
12 #for $check in $checks:
13 --pattern='$check.pattern' --replacement='$check.replacement'
14 #end for
7 </command> 15 </command>
8 <inputs> 16 <inputs>
9 <param format="tabular" name="input" type="data" label="Select cells from"/> 17 <param format="tabular" name="input" type="data" label="Select cells from"/>
10 <param name="field" label="using column" type="data_column" data_ref="input" /> 18 <param name="field" label="using column" type="data_column" data_ref="input" />
11 <repeat name="checks" title="Check"> 19 <repeat name="checks" title="Check">
12 <param name="pattern" size="40" type="text" value="chr([0-9A-Za-z])+" label="Find Regex" help="here you can enter text or regular expression (for syntax check lower part of this frame)"> 20 <param name="pattern" type="text" value="chr([0-9A-Za-z])+" label="Find Regex" help="here you can enter text or regular expression (for syntax check lower part of this frame)">
13 <sanitizer> 21 <sanitizer>
14 <valid> 22 <valid>
15 <add preset="string.printable"/> 23 <add preset="string.printable"/>
16 <remove value="&#92;" /> 24 <remove value="&#92;" />
17 <remove value="&apos;" /> 25 <remove value="&apos;" />
20 <add source="&#92;" target="__backslash__" /> 28 <add source="&#92;" target="__backslash__" />
21 <add source="&apos;" target="__sq__"/> 29 <add source="&apos;" target="__sq__"/>
22 </mapping> 30 </mapping>
23 </sanitizer> 31 </sanitizer>
24 </param> 32 </param>
25 <param name="replacement" size="40" type="text" value="newchr\1" label="Replacement"> 33 <param name="replacement" type="text" value="newchr\1" label="Replacement">
26 <sanitizer> 34 <sanitizer>
27 <valid> 35 <valid>
28 <add preset="string.printable"/> 36 <add preset="string.printable"/>
29 <remove value="&#92;" /> 37 <remove value="&#92;" />
30 <remove value="&apos;" /> 38 <remove value="&apos;" />