Commit 3b3a65d1 authored by Matthias Bernt's avatar Matthias Bernt
Browse files

extend tool test for change_format in statically defined collection elements

parent c74194c2

test/functional/tools/collection_creates_pair_format.xml

+42 −2
Original line number Diff line number Diff line
@@ -7,16 +7,28 @@ 
  </command>

  <inputs>

    <param name="input1" type="data" label="Input" help="Input to be split." />

    <param name="out_format" type="select" label="Output data type">

      <option value="">do not change</option>

      <option value="interval">interval</option>

  </param>

  </inputs>

  <outputs>

    <!-- format is specified separately for the elements, i.e. default format (fasta in this case) is ignored -->

    <collection name="paired_output" format="fasta" type="paired" label="Split Pair">

      <data name="forward" format="txt" />

      <data name="forward" format="txt">

        <change_format>

          <when input="out_format" value="interval" format="interval" />

        </change_format>

      </data>

      <data name="reverse" format_source="input1" from_work_dir="reverse.txt" />

    </collection>

    <!-- no format is specified separately for the elements, i.e. default format (fasta in this case) is used -->

    <collection name="paired_output_default_format" format="fasta" type="paired" label="Split Pair">

      <data name="forward" />

      <data name="forward">

        <change_format>

          <when input="out_format" value="interval" format="interval" />

        </change_format>

      </data>

      <data name="reverse" from_work_dir="reverse.txt" />

    </collection>

  </outputs>
@@ -48,5 +60,33 @@ 
        </element>

      </output_collection>

    </test>

    <test>

      <param name="input1" ftype="bed" value="simple_lines_interleaved.txt" />

      <param name="out_format" value="interval"/>

      <output_collection name="paired_output" type="paired">

        <element name="forward" ftype="interval">

          <assert_contents>

            <has_text_matching expression="^This is a line of text.\nThis is a line of text.\n$" />

          </assert_contents>

        </element>

        <element name="reverse" ftype="bed">

          <assert_contents>

            <has_text_matching expression="^This is a different line of text.\nThis is a different line of text.\n$" />

          </assert_contents>

        </element>

      </output_collection>

      <output_collection name="paired_output_default_format" type="paired">

        <element name="forward" ftype="interval">

          <assert_contents>

            <has_text_matching expression="^This is a line of text.\nThis is a line of text.\n$" />

          </assert_contents>

        </element>

        <element name="reverse" ftype="fasta">

          <assert_contents>

            <has_text_matching expression="^This is a different line of text.\nThis is a different line of text.\n$" />

          </assert_contents>

        </element>

      </output_collection>

    </test>

  </tests>

</tool>