Previous changeset 4:5e379358c023 (2024-03-27) Next changeset 6:db1e58e44a5c (2024-06-21) |
Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8 |
modified:
dimet_abundance_plot.xml macros.xml |
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diff -r 5e379358c023 -r 279ce0d93d53 dimet_abundance_plot.xml --- a/dimet_abundance_plot.xml Wed Mar 27 16:52:31 2024 +0000 +++ b/dimet_abundance_plot.xml Tue May 21 13:45:48 2024 +0000 |
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@@ -29,8 +29,8 @@ _target_: dimet.method.AbundancePlotConfig, label: abundance_plot, name: "Generate abundance plots", - barcolor: timepoint, - axisx: condition, + barcolor: '${output_options.bar_color}', + axisx: ${axisx}, axisx_labeltilt: '${output_options.axisx_labeltilt}', height_each_subfig: '${output_options.height_each_subfig}', palette:${output_options.palette}, @@ -66,6 +66,10 @@ <option value="pdf">Pdf</option> <option value="svg">Svg</option> </param> + <param name="bar_color" type="select" value="timepoint" display="radio" label="Select output figure barcolor" help="Please enter at max 1 format"> + <option value="timepoint">timepoint</option> + <option value="condition">condition</option> + </param> <param name="axisx_labeltilt" type="integer" min="0" max="180" value="70" label="X axis label tilt" help="Default value is 70."/> <param name="width_each_subfig" type="float" min="1.0" max="15.0" value="3.0" label="width of subfig plots" @@ -76,7 +80,6 @@ help="Default value is false."/> <param name="do_stripplot" type="boolean" value="false" label="add strip plot on abundance bar" help="Default value is false."/> - </section> </inputs> <outputs> @@ -96,6 +99,8 @@ <param name="metabolites_list" value="Fru1P"/> <section name="output_options"> <param name="axisx_labeltilt" value="70"/> + <param name="bar_color" value="timepoint"/> + <param name="axisx" value="condition"/> <param name="palette" value="pastel"/> <param name="width_each_subfig" value="3.0"/> <param name="height_each_subfig" value="5.5"/> |
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diff -r 5e379358c023 -r 279ce0d93d53 macros.xml --- a/macros.xml Wed Mar 27 16:52:31 2024 +0000 +++ b/macros.xml Tue May 21 13:45:48 2024 +0000 |
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@@ -1,7 +1,6 @@ <macros> <token name="@TOOL_VERSION@">0.2.4</token> - <token name="@VERSION_SUFFIX@">1</token> - <token name="@EXECUTABLE@">pca</token> + <token name="@VERSION_SUFFIX@">2</token> <xml name="requirements"> <requirements> <requirement type="package" version="@TOOL_VERSION@">dimet</requirement> @@ -490,7 +489,7 @@ </valid> </sanitizer> </param> - <repeat name="factor_list" title="Conditions" default="2" min="2" max="2" help="Specify conditions to compare from metadata file (for each comparison, the first specified condition is the reference). You have to load a metadata file prior to have access to condition list"> + <repeat name="factor_list" title="Conditions" default="2" min="2" max="2" help="Specify conditions to compare from metadata file (for each comparison, the last specified condition is the reference). You have to load a metadata file prior to have access to condition list"> <param name="condition" label="Condition" type="select" optional="false" multiple="false"> <options from_dataset="metadata_path"> <column name="condition" index="1"/> @@ -552,7 +551,7 @@ </repeat> </xml> <xml name="factor_list"> - <repeat name="factor_list" title="Conditions" min="2" max="2" help="Specify conditions to compare from metadata file (for each comparison, the first specified condition is the reference). You have to load a metadata file prior to have access to condition list"> + <repeat name="factor_list" title="Conditions" min="2" max="2" help="Specify conditions to be taken into account from metadata file (for each comparison, the last specified condition is the reference). You have to load a metadata file prior to have access to condition list"> <param name="condition" label="Condition" type="select" optional="false" multiple="false"> <options from_dataset="metadata_path"> <column name="condition" index="1"/> @@ -615,6 +614,11 @@ #if $abundance_file: ln -s '$abundance_file' data/abundance.csv && #end if + #set $axisx = "condition" + #if str( $output_options.bar_color ) == "condition": + #set $axisx = "timepoint" + #end if + ]]></token> <token name="@INIT_ENRICHMENT_PLOT@"><![CDATA[ |