Commit 663c08ae authored by Nicola Soranzo's avatar Nicola Soranzo Committed by Michael R. Crusoe
Browse files

Fix tool-provided metadata for CONVERTER_tar_to_directory 

The metadata are in the "default" (not "legacy") format, so need to
use a newer tool profile.

Also:
- Use CDATA and `&&` in command
parent 45fdb1de

lib/galaxy/datatypes/converters/tar_to_directory.xml

+14 −9
Original line number Diff line number Diff line 
<tool id="CONVERTER_tar_to_directory" name="Convert tar to directory" version="1.0.1" profile="17.05">

<tool id="CONVERTER_tar_to_directory" name="Convert tar to directory" version="1.0.1" profile="21.09">

    <!-- Don't use tar directly so we can verify safety of results - tar -xzf '$input1'; -->

    <requirements>

        <requirement type="package" version="23.2.1">galaxy-util</requirement>

    </requirements>

    <command>

        mkdir '$output1.files_path';

        cd '$output1.files_path';

    <command detect_errors="exit_code"><![CDATA[

cp '$provided_metadata' 'galaxy.json' &&

mkdir '$output1.files_path' &&

cd '$output1.files_path' &&

python -c "from galaxy.util.compression_utils import CompressedFile; CompressedFile('$input1').extract('.');"

    </command>

    ]]></command>

    <configfiles>

        <configfile name="provided_metadata">{"output1": {"created_from_basename": "${input1.created_from_basename}"}}

</configfile>

    </configfiles>

    <inputs>

        <param format="tar" name="input1" type="data"/>

    </inputs>

    <outputs>

        <data format="directory" name="output1"/>

        <data format="directory" name="output1" metadata_source="input1" />

    </outputs>

    <tests>

        <test>
@@ -20,6 +25,6 @@ 
            <output name="output1" ftype="directory" value="testdir1.tar.directory"/>

        </test>

    </tests>

    <help>

    </help>

    <help><![CDATA[

    ]]></help>

</tool>