Mercurial > repos > bgruening > plotly_ml_performance_plots

diff plotly_ml_performance_plots.xml @ 3:1c5dcef5ce0f draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/plotly_ml_performance_plots commit 271a4454eea5902e29da4b8dfa7b9124fefac6bc
author bgruening
date Tue, 07 May 2024 14:11:16 +0000
parents 62e3a4e8c54c
children f234e2e59d76
line wrap: on
line diff
--- a/plotly_ml_performance_plots.xml	Thu Jan 16 13:49:49 2020 -0500
+++ b/plotly_ml_performance_plots.xml	Tue May 07 14:11:16 2024 +0000
@@ -1,10 +1,7 @@
-<tool id="plotly_ml_performance_plots" name="Plot confusion matrix, precision, recall and ROC and AUC curves" version="0.2">
+<tool id="plotly_ml_performance_plots" name="Plot confusion matrix, precision, recall and ROC and AUC curves" version="0.3" profile="22.05">
     <description>of tabular data</description>
     <requirements>
-        <requirement type="package" version="0.25.3">pandas</requirement>
-        <requirement type="package" version="4.3.0">plotly</requirement>
-        <requirement type="package" version="0.21.3">scikit-learn</requirement>
-        <requirement type="package" version="1.4.1">scipy</requirement>
+	<requirement type="package" version="0.10.0">galaxy-ml</requirement>
     </requirements>
     <version_command>echo $version</version_command>
     <command detect_errors="aggressive"><![CDATA[
@@ -17,7 +14,7 @@
     <inputs>
         <param name="infile_input" type="data" format="tabular" label="Select input data file :" help="Input data is a matrix (tabular) where each column is a feature and the last column contains the (true or original) class labels."/>
         <param name="infile_output" type="data" format="tabular" label="Select predicted data file :" help="Predicted data is a matrix (tabular) where each column is a feature and the last column contains the predicted class labels."/>
-        <param name="infile_trained_model" type="data" format="zip" label="Select trained model :" help="This file is a final model trained on training data."/>
+        <param name="infile_trained_model" type="data" format="h5mlm" label="Select trained model :" help="This file is a final model trained on training data."/>
     </inputs>
 
     <outputs>
@@ -30,48 +27,112 @@
         <test>
             <param name="infile_input" value="binary_test_label.tabular" ftype="tabular"/>
             <param name="infile_output" value="binary_prediction_sgd.tabular" ftype="tabular"/>
-            <param name="infile_trained_model" value="model_binary_sgd.zip" ftype="zip"/>
-            <output name="output_confusion" file="cnf_binary_sgd.html" compare="sim_size"/>
-            <output name="output_prf" file="prf_binary_sgd.html" compare="sim_size"/>
-            <output name="output_roc" file="roc_auc_binary_sgd.html" compare="sim_size"/>
+            <param name="infile_trained_model" value="model_binary_sgd.h5mlm" ftype="h5mlm"/>
+	    <output name="output_confusion">
+                <assert_contents>
+		    <has_size value="3486809" delta="10000" />
+		    <has_text text="html" />
+		</assert_contents>
+            </output>
+	    <output name="output_prf">
+		<assert_contents>
+		    <has_size value="3486974" delta="10000" />
+		    <has_text text="html" />
+		</assert_contents>
+	    </output>
         </test>
-        
         <test>
             <param name="infile_input" value="binary_test_label.tabular" ftype="tabular"/>
             <param name="infile_output" value="prediction_binary_linearsvm.tabular" ftype="tabular"/>
-            <param name="infile_trained_model" value="model_binary_linearsvm.zip" ftype="zip"/>
-            <output name="output_confusion" file="cnf_binary_linearsvm.html" compare="sim_size"/>
-            <output name="output_prf" file="prf_binary_linearsvm.html" compare="sim_size"/>
-            <output name="output_roc" file="roc_auc_binary_linearsvm.html" compare="sim_size"/>
+            <param name="infile_trained_model" value="model_binary_linearsvm.h5mlm" ftype="h5mlm"/>
+	    <output name="output_confusion">
+	        <assert_contents>
+		    <has_size value="3486810" delta="10000" />
+		    <has_text text="html" />
+                </assert_contents>
+	    </output>
+            <output name="output_prf">
+		<assert_contents>
+		    <has_size value="3486973" delta="10000" />
+		    <has_text text="html" />
+	        </assert_contents>
+	    </output>
+	    <output name="output_roc">
+		<assert_contents>
+                    <has_size value="3497518" delta="10000" />
+		    <has_text text="html" />
+		</assert_contents>
+	    </output>
         </test>
-        
         <test>
             <param name="infile_input" value="binary_test_label.tabular" ftype="tabular"/>
             <param name="infile_output" value="prediction_binary_rfc.tabular" ftype="tabular"/>
-            <param name="infile_trained_model" value="model_binary_rfc.zip" ftype="zip"/>
-            <output name="output_confusion" file="cnf_binary_rfc.html" compare="sim_size"/>
-            <output name="output_prf" file="prf_binary_rfc.html" compare="sim_size"/>
-            <output name="output_roc" file="roc_auc_binary_rfc.html" compare="sim_size"/>
+            <param name="infile_trained_model" value="model_binary_rfc.h5mlm" ftype="h5mlm"/>
+            <output name="output_confusion">
+	        <assert_contents>
+		    <has_size value="3486806" delta="10000" />
+		    <has_text text="html" />
+                </assert_contents>
+	    </output>
+            <output name="output_prf">
+	        <assert_contents>
+		    <has_size value="3486883" delta="10000" />
+		    <has_text text="html" />
+	        </assert_contents>
+	    </output>
+	    <output name="output_roc">
+		<assert_contents>
+                    <has_size value="3488335" delta="10000" />
+		    <has_text text="html" />
+	        </assert_contents>
+	    </output>
         </test>
-        
         <test>
-            <param name="infile_input" value="binary_test_label.tabular" ftype="tabular"/>
+            <param name="infile_input" value="binary_test_label_knn.tabular" ftype="tabular"/>
             <param name="infile_output" value="prediction_binary_knn.tabular" ftype="tabular"/>
-            <param name="infile_trained_model" value="model_binary_knn.zip" ftype="zip"/>
-            <output name="output_confusion" file="cnf_binary_knn.html" compare="sim_size"/>
-            <output name="output_prf" file="prf_binary_knn.html" compare="sim_size"/>
-            <output name="output_roc" file="roc_auc_binary_knn.html" compare="sim_size"/>
+            <param name="infile_trained_model" value="model_binary_knn.h5mlm" ftype="h5mlm"/>
+            <output name="output_confusion">
+	        <assert_contents>
+		    <has_size value="3486856" delta="10000" />
+		    <has_text text="html" />
+                </assert_contents>
+	    </output>
+            <output name="output_prf">
+	        <assert_contents>
+		    <has_size value="3486928" delta="10000" />
+		    <has_text text="html" />
+	        </assert_contents>
+	    </output>
+	    <output name="output_roc">
+		<assert_contents>
+                    <has_size value="3487215" delta="10000" />
+		    <has_text text="html" />
+		</assert_contents>
+	    </output>
         </test>
-        
         <test>
             <param name="infile_input" value="multi_test_label.tabular" ftype="tabular"/>
             <param name="infile_output" value="prediction_multi_lr.tabular" ftype="tabular"/>
-            <param name="infile_trained_model" value="model_multi_lr.zip" ftype="zip"/>
-            <output name="output_confusion" file="cnf_multi_lr.html" compare="sim_size"/>
-            <output name="output_prf" file="prf_multi_lr.html" compare="sim_size"/>
-            <output name="output_roc" file="roc_auc_multi_lr.html" compare="sim_size"/>
-        </test>
-        
+            <param name="infile_trained_model" value="model_multi_lr.h5mlm" ftype="h5mlm"/>
+            <output name="output_confusion">
+	        <assert_contents>
+		    <has_size value="3486832" delta="10000" />
+		    <has_text text="html" />
+                </assert_contents>
+	    </output>
+            <output name="output_prf">
+		<assert_contents>
+		    <has_size value="3487035" delta="10000" />
+		    <has_text text="html" />
+	        </assert_contents>
+	    </output>
+	    <output name="output_roc">
+	        <assert_contents>
+                    <has_size value="3493184" delta="10000" />
+		    <has_text text="html" />
+		</assert_contents>
+	    </output>
+	</test>
     </tests>
     <help><![CDATA[
 **What it does**
@@ -83,4 +144,7 @@
 
     ]]>
     </help>
+    <citations>
+        <citation type="doi">10.1371/journal.pcbi.1009014</citation>
+    </citations>
 </tool>