Mercurial > repos > bgruening > flexynesis_plot

diff flexynesis_plot.xml @ 2:3c5d82bf6e8a draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/flexynesis commit 1afbaf45449e25238935e222f983da62392c067a
author bgruening
date Fri, 04 Jul 2025 14:57:52 +0000
parents bb91bf19eb40
children 52b6f2ac38c7
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line diff
--- a/flexynesis_plot.xml	Mon Jun 30 17:19:21 2025 +0000
+++ b/flexynesis_plot.xml	Fri Jul 04 14:57:52 2025 +0000
@@ -152,7 +152,7 @@
             <when value="dimred">
                 <expand macro="plots_common_param">
                     <expand macro="plots_common_input"/>
-                    <param argument="--embeddings" type="data" format="tabular,csv" label="Embeddings" help="Generated by flexynesis"/>
+                    <param argument="--embeddings" type="data" format="tabular" label="Embeddings" help="Generated by flexynesis"/>
                     <param argument="--label" type="data_column" data_ref="labels" label="Column in the labels file to use for coloring the points in the plot"/>
                     <param name="method" type="select" label="Transformation method">
                         <option value="pca" selected="true">PCA</option>
@@ -206,10 +206,10 @@
             <param name="non_commercial_use" value="True"/>
             <conditional name="plot_conditional">
                 <param name="plot_type" value="dimred"/>
-                <param name="embeddings" value="embeddings.csv"/>
+                <param name="embeddings" value="embeddings.tabular"/>
                 <param name="label" value="6"/>
                 <param name="method" value="pca"/>
-                <param name="labels" value="labels.csv"/>
+                <param name="labels" value="labels.tabular"/>
                 <param name="format" value="jpg"/>
                 <param name="dpi" value="300"/>
             </conditional>
@@ -227,7 +227,7 @@
             <param name="non_commercial_use" value="True"/>
             <conditional name="plot_conditional">
                 <param name="plot_type" value="scatter"/>
-                <param name="labels" value="labels_scatter.csv"/>
+                <param name="labels" value="labels_scatter.tabular"/>
                 <param name="true_label" value="5"/>
                 <param name="predicted_label" value="6"/>
                 <param name="format" value="jpg"/>
@@ -247,7 +247,7 @@
             <param name="non_commercial_use" value="True"/>
             <conditional name="plot_conditional">
                 <param name="plot_type" value="concordance_heatmap"/>
-                <param name="labels" value="labels.csv"/>
+                <param name="labels" value="labels.tabular"/>
                 <param name="true_label" value="5"/>
                 <param name="predicted_label" value="6"/>
                 <param name="format" value="jpg"/>
@@ -267,7 +267,7 @@
             <param name="non_commercial_use" value="True"/>
             <conditional name="plot_conditional">
                 <param name="plot_type" value="pr_curve"/>
-                <param name="labels" value="labels_pr.csv"/>
+                <param name="labels" value="labels_pr.tabular"/>
                 <param name="format" value="jpg"/>
                 <param name="dpi" value="300"/>
             </conditional>
@@ -285,7 +285,7 @@
             <param name="non_commercial_use" value="True"/>
             <conditional name="plot_conditional">
                 <param name="plot_type" value="roc_curve"/>
-                <param name="labels" value="labels_pr.csv"/>
+                <param name="labels" value="labels_pr.tabular"/>
                 <param name="format" value="jpg"/>
                 <param name="dpi" value="300"/>
             </conditional>
@@ -303,7 +303,7 @@
             <param name="non_commercial_use" value="True"/>
             <conditional name="plot_conditional">
                 <param name="plot_type" value="box_plot"/>
-                <param name="labels" value="labels_pr.csv"/>
+                <param name="labels" value="labels_pr.tabular"/>
                 <param name="format" value="jpg"/>
                 <param name="dpi" value="300"/>
             </conditional>