view tmp2/circos/conf/galaxy_test_case.xml @ 0:e8475d0195fe draft

planemo upload for repository https://github.com/TAMU-CPT/galaxy-circos-tool commit 358dd35a2150af4183d9303af1df4f63be0737cd

<!--
mkdir -p test-data/my-test-case/;
cp /tmp/tmpkiDP9r/files/000/dataset_3.dat test-data/my-test-case/input.fa;
cp /tmp/tmpkiDP9r/files/000/dataset_4.dat test-data/my-test-case/0-0.wig;
cp /tmp/tmpkiDP9r/files/000/dataset_6.dat test-data/my-test-case/0-1.wig;
cp "/tmp/tmpkiDP9r/files/000/dataset_7.dat" test-data/my-test-case/output.png;
cp "/tmp/tmpkiDP9r/files/000/dataset_8.dat" test-data/my-test-case/output.svg;
-->
<test>
    <param name="reference_genome|reference_genome_source" value="history"/>
    <param name="reference_genome|genome_fasta" value="my-test-case/input.fa" />
    <!-- ideograms -->
    <param name="ideogram|spacing" value="0.005" />
    <param name="ideogram|radius" value="0.9" />
    <param name="ideogram|thickness" value="10.0" />
    <param name="ideogram|ideogram_labels|show_label" value="no" />
    <param name="ideogram|ideogram_labels|parallel" value="no" />
    <!-- Ticks -->
    <param name="ticks|show_ticks" value="yes" />
    <param name="ticks|radius" value="1.0" />
    <param name="ticks|color" value="#000000" />
    <param name="ticks|multiplier" value="0.001" />
    <param name="ticks|tick_group_0|tickspacing" value="5000.0" />
    <param name="ticks|tick_group_0|size" value="10.0" />
    <param name="ticks|tick_group_0|show_tick_labels" value="no" />
    <param name="ticks|tick_group_0|label_size" value="20.0" />
    <param name="ticks|tick_group_0|label_offset" value="10.0" />
    <param name="ticks|tick_group_0|label_format" value="%d" />
    <!-- Data -->
    <param name="sec_tdd|data_0|r0" value="0.8" />
    <param name="sec_tdd|data_0|r1" value="0.89" />
    <param name="sec_tdd|data_0|orientation" value="out" />
    <param name="sec_tdd|data_0|plot_format|plot_format_select" value="histogram" />
        <!-- Note, please double check your files -->
        <param name="sec_tdd|data_0|plot_format|data_source" value="my-test-case/0-0.wig,my-test-case/0-1.wig" />
        <param name="sec_tdd|data_0|plot_format|format_specific|fill_color" value="purples-13-seq" />
        <param name="sec_tdd|data_0|plot_format|format_specific|extend_bins" value="no" />



    <!-- Outputs -->
    <output name="output_png" file="my-test-case/output.png" />
    <output name="output_svg" file="my-test-case/output.svg" />
</test>