comparison sed.xml @ 13:3c685c4106b3 draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit b9d202134c3c6d0e5c398c3ae75e410067fcfc52

12:062ed2bb4f2e

<tool id="tp_sed_tool" name="Text transformation" version="@BASE_VERSION@.0">
    <description>with sed</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements">
        <requirement type="package" version="4.2.2">sed</requirement>
    </expand>
    <version_command>sed --version | head -n 1</version_command>
    <command>
<![CDATA[
        sed
            --sandbox

            -f '$sed_script'
            '$infile'
        > '$output'
]]>
    </command>
    <inputs>
        <param format="txt" name="infile" type="data" label="File to process" />
        <param name="code" type="text" area="true" size="5x35" label="SED Program" help="">
            <sanitizer>
                <valid initial="string.printable">

                    <option value="-n">silent</option>
                </param>
            </when>
        </conditional>
    </inputs>
    <configfiles>
        <configfile name="sed_script">
          $code
        </configfile>
    </configfiles>
    <outputs>
        <data name="output" format_source="infile" metadata_source="infile" />
    </outputs>
    <tests>
        <test>

- Short sed tutorial (http://www.linuxhowtos.org/System/sed_tutorial.htm)
- Long sed tutorial (http://www.grymoire.com/Unix/Sed.html)
- sed faq with good examples (http://sed.sourceforge.net/sedfaq.html)
- sed cheat-sheet (http://www.catonmat.net/download/sed.stream.editor.cheat.sheet.pdf)
- Collection of useful sed one-liners (http://student.northpark.edu/pemente/sed/sed1line.txt)

-----

**Sed commands**

13:3c685c4106b3

<tool id="tp_sed_tool" name="Text transformation" version="@BASE_VERSION@.0">
    <description>with sed</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <requirements>
        <requirement type="package" version="4.2.3.dev0">sed</requirement>
    </requirements>
    <version_command>sed --version | head -n 1</version_command>
    <command>
<![CDATA[
        sed
            --sandbox

            -f '$sed_script'
            '$infile'
        > '$output'
]]>
    </command>
    <configfiles>
        <configfile name="sed_script">
          $code
        </configfile>
    </configfiles>
    <inputs>
        <param format="txt" name="infile" type="data" label="File to process" />
        <param name="code" type="text" area="true" size="5x35" label="SED Program" help="">
            <sanitizer>
                <valid initial="string.printable">

                    <option value="-n">silent</option>
                </param>
            </when>
        </conditional>
    </inputs>
    <outputs>
        <data name="output" format_source="infile" metadata_source="infile" />
    </outputs>
    <tests>
        <test>

- Short sed tutorial (http://www.linuxhowtos.org/System/sed_tutorial.htm)
- Long sed tutorial (http://www.grymoire.com/Unix/Sed.html)
- sed faq with good examples (http://sed.sourceforge.net/sedfaq.html)
- sed cheat-sheet (http://www.catonmat.net/download/sed.stream.editor.cheat.sheet.pdf)

-----

**Sed commands**