diff --git a/CHANGELOG b/CHANGELOG index fd0d62dc..3def1932 100644 --- a/CHANGELOG +++ b/CHANGELOG @@ -7,6 +7,21 @@ The format is based on `Keep a Changelog `_ and this project adheres to `Semantic Versioning `_ +3.4.2 - Unreleased +------------------ + +Fixed +~~~~~ +- Bug in flattening of plot_ranked_posteriors function. +- Bug in plot_images: could not handle 2D images when applying slicing. +- Bug in precision-recall curve. +- Bug in performance estimation plotting. +- Preflighcheck now also accepts labels from txt or XNAT. + +Added +~~~~~~~ +- Label file can now also be separated by semicolons. + 3.4.1 - 2021-05-18 ------------------ diff --git a/README.md b/README.md index 01262ef9..91ff239e 100644 --- a/README.md +++ b/README.md @@ -1,4 +1,4 @@ -# WORC v3.4.1 +# WORC v3.4.2 ## Workflow for Optimal Radiomics Classification ## Information diff --git a/README.rst b/README.rst index 851cb773..4a0ce852 100644 --- a/README.rst +++ b/README.rst @@ -1,4 +1,4 @@ -WORC v3.4.1 +WORC v3.4.2 =========== Workflow for Optimal Radiomics Classification diff --git a/WORC/WORC.py b/WORC/WORC.py index 2a8b0aca..9e25abe1 100644 --- a/WORC/WORC.py +++ b/WORC/WORC.py @@ -409,7 +409,7 @@ def defaultconfig(self): 'RandomUnderSampling, RandomOverSampling, NearMiss, ' +\ 'NeighbourhoodCleaningRule, ADASYN, BorderlineSMOTE, SMOTE, ' +\ 'SMOTEENN, SMOTETomek' - config['Resampling']['sampling_strategy'] = 'majority, minority, not minority, not majority, all' + config['Resampling']['sampling_strategy'] = 'auto, majority, minority, not minority, not majority, all' config['Resampling']['n_neighbors'] = '3, 12' config['Resampling']['k_neighbors'] = '5, 15' config['Resampling']['threshold_cleaning'] = '0.25, 0.5' diff --git a/WORC/doc/_build/doctrees/autogen/WORC.plotting.doctree b/WORC/doc/_build/doctrees/autogen/WORC.plotting.doctree index 7092eb14..232db85f 100644 Binary files a/WORC/doc/_build/doctrees/autogen/WORC.plotting.doctree and b/WORC/doc/_build/doctrees/autogen/WORC.plotting.doctree differ diff --git a/WORC/doc/_build/doctrees/autogen/WORC.processing.doctree b/WORC/doc/_build/doctrees/autogen/WORC.processing.doctree index 2e27f347..2e34a3c3 100644 Binary files a/WORC/doc/_build/doctrees/autogen/WORC.processing.doctree and b/WORC/doc/_build/doctrees/autogen/WORC.processing.doctree differ diff --git a/WORC/doc/_build/doctrees/environment.pickle b/WORC/doc/_build/doctrees/environment.pickle index cbab534a..f758c54a 100644 Binary files a/WORC/doc/_build/doctrees/environment.pickle and b/WORC/doc/_build/doctrees/environment.pickle differ diff --git a/WORC/doc/_build/doctrees/static/changelog.doctree b/WORC/doc/_build/doctrees/static/changelog.doctree index 141fa9d1..38afcd26 100644 Binary files a/WORC/doc/_build/doctrees/static/changelog.doctree and b/WORC/doc/_build/doctrees/static/changelog.doctree differ diff --git a/WORC/doc/_build/doctrees/static/configuration.doctree b/WORC/doc/_build/doctrees/static/configuration.doctree index 7a41317b..ff55fc5f 100644 Binary files a/WORC/doc/_build/doctrees/static/configuration.doctree and b/WORC/doc/_build/doctrees/static/configuration.doctree differ diff --git a/WORC/doc/_build/html/.buildinfo b/WORC/doc/_build/html/.buildinfo index 7902be9b..f0025061 100644 --- a/WORC/doc/_build/html/.buildinfo +++ b/WORC/doc/_build/html/.buildinfo @@ -1,4 +1,4 @@ # Sphinx build info version 1 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done. -config: 73f1da5a99fea16f90c552d633d66cea +config: 33f10d2ce9bf6d5dcfd26d0fd1e86e7b tags: 645f666f9bcd5a90fca523b33c5a78b7 diff --git a/WORC/doc/_build/html/_modules/WORC/IOparser/config_WORC.html b/WORC/doc/_build/html/_modules/WORC/IOparser/config_WORC.html index dc79c9bc..a14569a7 100644 --- a/WORC/doc/_build/html/_modules/WORC/IOparser/config_WORC.html +++ b/WORC/doc/_build/html/_modules/WORC/IOparser/config_WORC.html @@ -8,7 +8,7 @@ - WORC.IOparser.config_WORC — WORC 3.4.1 documentation + WORC.IOparser.config_WORC — WORC 3.4.2 documentation @@ -62,7 +62,7 @@
- 3.4.1 + 3.4.2
diff --git a/WORC/doc/_build/html/_modules/WORC/IOparser/config_io_classifier.html b/WORC/doc/_build/html/_modules/WORC/IOparser/config_io_classifier.html index 185c16b2..0d9af4f9 100644 --- a/WORC/doc/_build/html/_modules/WORC/IOparser/config_io_classifier.html +++ b/WORC/doc/_build/html/_modules/WORC/IOparser/config_io_classifier.html @@ -8,7 +8,7 @@ - WORC.IOparser.config_io_classifier — WORC 3.4.1 documentation + WORC.IOparser.config_io_classifier — WORC 3.4.2 documentation @@ -62,7 +62,7 @@
- 3.4.1 + 3.4.2
diff --git a/WORC/doc/_build/html/_modules/WORC/IOparser/config_preprocessing.html b/WORC/doc/_build/html/_modules/WORC/IOparser/config_preprocessing.html index 474d5443..c27e9d33 100644 --- a/WORC/doc/_build/html/_modules/WORC/IOparser/config_preprocessing.html +++ b/WORC/doc/_build/html/_modules/WORC/IOparser/config_preprocessing.html @@ -8,7 +8,7 @@ - WORC.IOparser.config_preprocessing — WORC 3.4.1 documentation + WORC.IOparser.config_preprocessing — WORC 3.4.2 documentation @@ -62,7 +62,7 @@
- 3.4.1 + 3.4.2
diff --git a/WORC/doc/_build/html/_modules/WORC/IOparser/config_segmentix.html b/WORC/doc/_build/html/_modules/WORC/IOparser/config_segmentix.html index 8db755d9..b6efbde6 100644 --- a/WORC/doc/_build/html/_modules/WORC/IOparser/config_segmentix.html +++ b/WORC/doc/_build/html/_modules/WORC/IOparser/config_segmentix.html @@ -8,7 +8,7 @@ - WORC.IOparser.config_segmentix — WORC 3.4.1 documentation + WORC.IOparser.config_segmentix — WORC 3.4.2 documentation @@ -62,7 +62,7 @@
- 3.4.1 + 3.4.2
diff --git a/WORC/doc/_build/html/_modules/WORC/IOparser/file_io.html b/WORC/doc/_build/html/_modules/WORC/IOparser/file_io.html index 4309d1b3..b09f3219 100644 --- a/WORC/doc/_build/html/_modules/WORC/IOparser/file_io.html +++ b/WORC/doc/_build/html/_modules/WORC/IOparser/file_io.html @@ -8,7 +8,7 @@ - WORC.IOparser.file_io — WORC 3.4.1 documentation + WORC.IOparser.file_io — WORC 3.4.2 documentation @@ -62,7 +62,7 @@
- 3.4.1 + 3.4.2
diff --git a/WORC/doc/_build/html/_modules/WORC/WORC.html b/WORC/doc/_build/html/_modules/WORC/WORC.html index 0cbb74df..b512b18b 100644 --- a/WORC/doc/_build/html/_modules/WORC/WORC.html +++ b/WORC/doc/_build/html/_modules/WORC/WORC.html @@ -8,7 +8,7 @@ - WORC.WORC — WORC 3.4.1 documentation + WORC.WORC — WORC 3.4.2 documentation @@ -62,7 +62,7 @@
- 3.4.1 + 3.4.2
@@ -574,7 +574,7 @@

Source code for WORC.WORC

             'RandomUnderSampling, RandomOverSampling, NearMiss, ' +\
             'NeighbourhoodCleaningRule, ADASYN, BorderlineSMOTE, SMOTE, ' +\
             'SMOTEENN, SMOTETomek'
-        config['Resampling']['sampling_strategy'] = 'majority, minority, not minority, not majority, all'
+        config['Resampling']['sampling_strategy'] = 'auto, majority, minority, not minority, not majority, all'
         config['Resampling']['n_neighbors'] = '3, 12'
         config['Resampling']['k_neighbors'] = '5, 15'
         config['Resampling']['threshold_cleaning'] = '0.25, 0.5'
diff --git a/WORC/doc/_build/html/_modules/WORC/addexceptions.html b/WORC/doc/_build/html/_modules/WORC/addexceptions.html
index 8a639224..8724bda4 100644
--- a/WORC/doc/_build/html/_modules/WORC/addexceptions.html
+++ b/WORC/doc/_build/html/_modules/WORC/addexceptions.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.addexceptions — WORC 3.4.1 documentation
+  WORC.addexceptions — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/AdvancedSampler.html b/WORC/doc/_build/html/_modules/WORC/classification/AdvancedSampler.html
index 100a8667..bb0b2570 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/AdvancedSampler.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/AdvancedSampler.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.AdvancedSampler — WORC 3.4.1 documentation
+  WORC.classification.AdvancedSampler — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/ObjectSampler.html b/WORC/doc/_build/html/_modules/WORC/classification/ObjectSampler.html
index ca4599c1..70ee7457 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/ObjectSampler.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/ObjectSampler.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.ObjectSampler — WORC 3.4.1 documentation
+  WORC.classification.ObjectSampler — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/RankedSVM.html b/WORC/doc/_build/html/_modules/WORC/classification/RankedSVM.html
index 2c4fa8e9..e65a8523 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/RankedSVM.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/RankedSVM.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.RankedSVM — WORC 3.4.1 documentation
+  WORC.classification.RankedSVM — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/SearchCV.html b/WORC/doc/_build/html/_modules/WORC/classification/SearchCV.html
index 14ffc5a5..c080ac63 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/SearchCV.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/SearchCV.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.SearchCV — WORC 3.4.1 documentation
+  WORC.classification.SearchCV — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/construct_classifier.html b/WORC/doc/_build/html/_modules/WORC/classification/construct_classifier.html
index 04661d10..a91f836c 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/construct_classifier.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/construct_classifier.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.construct_classifier — WORC 3.4.1 documentation
+  WORC.classification.construct_classifier — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/createfixedsplits.html b/WORC/doc/_build/html/_modules/WORC/classification/createfixedsplits.html
index 98f6df04..de4e1ff2 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/createfixedsplits.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/createfixedsplits.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.createfixedsplits — WORC 3.4.1 documentation
+  WORC.classification.createfixedsplits — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/crossval.html b/WORC/doc/_build/html/_modules/WORC/classification/crossval.html
index 9be782fd..0c547ace 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/crossval.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/crossval.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.crossval — WORC 3.4.1 documentation
+  WORC.classification.crossval — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/estimators.html b/WORC/doc/_build/html/_modules/WORC/classification/estimators.html
index 3c9d67e1..ff0758df 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/estimators.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/estimators.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.estimators — WORC 3.4.1 documentation
+  WORC.classification.estimators — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/fitandscore.html b/WORC/doc/_build/html/_modules/WORC/classification/fitandscore.html
index 2de33967..4a58ef1f 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/fitandscore.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/fitandscore.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.fitandscore — WORC 3.4.1 documentation
+  WORC.classification.fitandscore — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/metrics.html b/WORC/doc/_build/html/_modules/WORC/classification/metrics.html
index 3d1d27e5..249ebde5 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/metrics.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/metrics.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.metrics — WORC 3.4.1 documentation
+  WORC.classification.metrics — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/parameter_optimization.html b/WORC/doc/_build/html/_modules/WORC/classification/parameter_optimization.html
index 8ab9f86b..fe3f54d3 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/parameter_optimization.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/parameter_optimization.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.parameter_optimization — WORC 3.4.1 documentation
+  WORC.classification.parameter_optimization — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/classification/trainclassifier.html b/WORC/doc/_build/html/_modules/WORC/classification/trainclassifier.html
index c6ab2f8b..2b7377cf 100644
--- a/WORC/doc/_build/html/_modules/WORC/classification/trainclassifier.html
+++ b/WORC/doc/_build/html/_modules/WORC/classification/trainclassifier.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.classification.trainclassifier — WORC 3.4.1 documentation
+  WORC.classification.trainclassifier — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/detectors/detectors.html b/WORC/doc/_build/html/_modules/WORC/detectors/detectors.html
index 498be7d1..36b2a40e 100644
--- a/WORC/doc/_build/html/_modules/WORC/detectors/detectors.html
+++ b/WORC/doc/_build/html/_modules/WORC/detectors/detectors.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.detectors.detectors — WORC 3.4.1 documentation
+  WORC.detectors.detectors — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/exampledata/datadownloader.html b/WORC/doc/_build/html/_modules/WORC/exampledata/datadownloader.html
index d1681573..d6f3c75a 100644
--- a/WORC/doc/_build/html/_modules/WORC/exampledata/datadownloader.html
+++ b/WORC/doc/_build/html/_modules/WORC/exampledata/datadownloader.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.exampledata.datadownloader — WORC 3.4.1 documentation
+  WORC.exampledata.datadownloader — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/featureprocessing/Imputer.html b/WORC/doc/_build/html/_modules/WORC/featureprocessing/Imputer.html
index a51d8091..fc0e437d 100644
--- a/WORC/doc/_build/html/_modules/WORC/featureprocessing/Imputer.html
+++ b/WORC/doc/_build/html/_modules/WORC/featureprocessing/Imputer.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.featureprocessing.Imputer — WORC 3.4.1 documentation
+  WORC.featureprocessing.Imputer — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/featureprocessing/Relief.html b/WORC/doc/_build/html/_modules/WORC/featureprocessing/Relief.html
index 6ffe0991..0a653930 100644
--- a/WORC/doc/_build/html/_modules/WORC/featureprocessing/Relief.html
+++ b/WORC/doc/_build/html/_modules/WORC/featureprocessing/Relief.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.featureprocessing.Relief — WORC 3.4.1 documentation
+  WORC.featureprocessing.Relief — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/featureprocessing/SelectGroups.html b/WORC/doc/_build/html/_modules/WORC/featureprocessing/SelectGroups.html
index 3d79a990..06082e39 100644
--- a/WORC/doc/_build/html/_modules/WORC/featureprocessing/SelectGroups.html
+++ b/WORC/doc/_build/html/_modules/WORC/featureprocessing/SelectGroups.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.featureprocessing.SelectGroups — WORC 3.4.1 documentation
+  WORC.featureprocessing.SelectGroups — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/featureprocessing/SelectIndividuals.html b/WORC/doc/_build/html/_modules/WORC/featureprocessing/SelectIndividuals.html
index 229b87b3..749ece2c 100644
--- a/WORC/doc/_build/html/_modules/WORC/featureprocessing/SelectIndividuals.html
+++ b/WORC/doc/_build/html/_modules/WORC/featureprocessing/SelectIndividuals.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.featureprocessing.SelectIndividuals — WORC 3.4.1 documentation
+  WORC.featureprocessing.SelectIndividuals — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/featureprocessing/StatisticalTestFeatures.html b/WORC/doc/_build/html/_modules/WORC/featureprocessing/StatisticalTestFeatures.html
index e4e1569b..fde8914b 100644
--- a/WORC/doc/_build/html/_modules/WORC/featureprocessing/StatisticalTestFeatures.html
+++ b/WORC/doc/_build/html/_modules/WORC/featureprocessing/StatisticalTestFeatures.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.featureprocessing.StatisticalTestFeatures — WORC 3.4.1 documentation
+  WORC.featureprocessing.StatisticalTestFeatures — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/featureprocessing/StatisticalTestThreshold.html b/WORC/doc/_build/html/_modules/WORC/featureprocessing/StatisticalTestThreshold.html
index f43e4179..8e6c55d5 100644
--- a/WORC/doc/_build/html/_modules/WORC/featureprocessing/StatisticalTestThreshold.html
+++ b/WORC/doc/_build/html/_modules/WORC/featureprocessing/StatisticalTestThreshold.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.featureprocessing.StatisticalTestThreshold — WORC 3.4.1 documentation
+  WORC.featureprocessing.StatisticalTestThreshold — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/featureprocessing/VarianceThreshold.html b/WORC/doc/_build/html/_modules/WORC/featureprocessing/VarianceThreshold.html
index 2f8cb34b..21eb34d3 100644
--- a/WORC/doc/_build/html/_modules/WORC/featureprocessing/VarianceThreshold.html
+++ b/WORC/doc/_build/html/_modules/WORC/featureprocessing/VarianceThreshold.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.featureprocessing.VarianceThreshold — WORC 3.4.1 documentation
+  WORC.featureprocessing.VarianceThreshold — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/plotting/compute_CI.html b/WORC/doc/_build/html/_modules/WORC/plotting/compute_CI.html
index 6fd92282..e66a8eb6 100644
--- a/WORC/doc/_build/html/_modules/WORC/plotting/compute_CI.html
+++ b/WORC/doc/_build/html/_modules/WORC/plotting/compute_CI.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.plotting.compute_CI — WORC 3.4.1 documentation
+  WORC.plotting.compute_CI — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/plotting/linstretch.html b/WORC/doc/_build/html/_modules/WORC/plotting/linstretch.html
index ecb37c57..c09ed18b 100644
--- a/WORC/doc/_build/html/_modules/WORC/plotting/linstretch.html
+++ b/WORC/doc/_build/html/_modules/WORC/plotting/linstretch.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.plotting.linstretch — WORC 3.4.1 documentation
+  WORC.plotting.linstretch — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/plotting/plot_ROC.html b/WORC/doc/_build/html/_modules/WORC/plotting/plot_ROC.html
index 68806217..5988eda7 100644
--- a/WORC/doc/_build/html/_modules/WORC/plotting/plot_ROC.html
+++ b/WORC/doc/_build/html/_modules/WORC/plotting/plot_ROC.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.plotting.plot_ROC — WORC 3.4.1 documentation
+  WORC.plotting.plot_ROC — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
@@ -190,6 +190,7 @@ 
Source code for WORC.plotting.plot_ROC
 from WORC.plotting.compute_CI import compute_confidence as CI
 import numpy as np
 from sklearn.metrics import roc_auc_score, auc
+from sklearn.metrics import precision_recall_curve
 import csv
 from WORC.plotting.plot_estimator_performance import plot_estimator_performance
 
@@ -280,13 +281,6 @@ 
Source code for WORC.plotting.plot_ROC
     y_score = y_score[inds]
 
     # Compute the TPR and FPR for all possible thresholds
-    FP = 0
-    TP = 0
-    precision = list()
-    tpr = list()
-    thresholds = list()
-    fprev = -np.inf
-    i = 0
     N = float(np.bincount(y_truth)[0])
     if len(np.bincount(y_truth)) == 1:
         # No class = 1 present.
@@ -296,29 +290,19 @@ 
Source code for WORC.plotting.plot_ROC
 
     if N == 0:
         print('[WORC Warning] No negative class samples found, cannot determine PRC. Skipping iteration.')
-        return precision, tpr, thresholds
+        return list(), list(), list()
     elif P == 0:
         print('[WORC Warning] No positive class samples found, cannot determine PRC. Skipping iteration.')
-        return precision, tpr, thresholds
-
-    while i < len(y_truth_sorted):
-        if y_score[i] != fprev:
-            if TP == 0:
-                # Prevent division by zero
-                precision.append(0)
-            else:
-                precision.append(TP/(TP + FP))
+        return list(), list(), list()
 
-            tpr.append(1 - TP/P)
-            thresholds.append(y_score[i])
-            fprev = y_score[i]
+    precision, tpr, thresholds =\
+        precision_recall_curve(y_truth_sorted, y_score)
 
-        if y_truth_sorted[i] == 1:
-            TP += 1
-        else:
-            FP += 1
+    # Convert to lists
+    precision = precision.tolist()
+    tpr = tpr.tolist()
+    thresholds = thresholds.tolist()
 
-        i += 1
 
     if verbose or returnplot:
         prc_auc = auc(tpr, precision)
diff --git a/WORC/doc/_build/html/_modules/WORC/plotting/plot_barchart.html b/WORC/doc/_build/html/_modules/WORC/plotting/plot_barchart.html
index cdc38940..341cdcdc 100644
--- a/WORC/doc/_build/html/_modules/WORC/plotting/plot_barchart.html
+++ b/WORC/doc/_build/html/_modules/WORC/plotting/plot_barchart.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.plotting.plot_barchart — WORC 3.4.1 documentation
+  WORC.plotting.plot_barchart — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/plotting/plot_images.html b/WORC/doc/_build/html/_modules/WORC/plotting/plot_images.html
index 13b9868c..1e73883e 100644
--- a/WORC/doc/_build/html/_modules/WORC/plotting/plot_images.html
+++ b/WORC/doc/_build/html/_modules/WORC/plotting/plot_images.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.plotting.plot_images — WORC 3.4.1 documentation
+  WORC.plotting.plot_images — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
@@ -233,19 +233,24 @@ 
Source code for WORC.plotting.plot_images
     if mask is not None:
         mask = sitk.GetArrayFromImage(mask)
 
-    # Determine which axial slice has the largest area
-    if index is None:
+    if len(image.shape) == 2:
+        # 2D image, so image and mask are already single slices
+        imslice = image
+        maskslice = mask
+    else:
+        # Determine which axial slice has the largest area
+        if index is None:
+            if mask is not None:
+                areas = np.sum(mask, axis=1).tolist()
+                index = areas.index(max(areas))
+            else:
+                index = int(image.shape[0]/2)
+
+        imslice = image[index, :, :]
         if mask is not None:
-            areas = np.sum(mask, axis=1).tolist()
-            index = areas.index(max(areas))
+            maskslice = mask[index, :, :]
         else:
-            index = int(image.shape[0]/2)
-
-    imslice = image[index, :, :]
-    if mask is not None:
-        maskslice = mask[index, :, :]
-    else:
-        maskslice = None
+            maskslice = None
 
     # Rotate, as this is not done automatically
     if flip:
diff --git a/WORC/doc/_build/html/_modules/WORC/plotting/plot_ranked_scores.html b/WORC/doc/_build/html/_modules/WORC/plotting/plot_ranked_scores.html
index e3e9187b..8048a6f1 100644
--- a/WORC/doc/_build/html/_modules/WORC/plotting/plot_ranked_scores.html
+++ b/WORC/doc/_build/html/_modules/WORC/plotting/plot_ranked_scores.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.plotting.plot_ranked_scores — WORC 3.4.1 documentation
+  WORC.plotting.plot_ranked_scores — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
@@ -165,7 +165,7 @@
   
Source code for WORC.plotting.plot_ranked_scores
 #!/usr/bin/env python
 
-# Copyright 2016-2019 Biomedical Imaging Group Rotterdam, Departments of
+# Copyright 2016-2021 Biomedical Imaging Group Rotterdam, Departments of
 # Medical Informatics and Radiology, Erasmus MC, Rotterdam, The Netherlands
 #
 # Licensed under the Apache License, Version 2.0 (the "License");
@@ -268,6 +268,18 @@ 
Source code for WORC.plotting.plot_ranked_scores

                        output_zip=output_zip)

 
 
+
[docs]def flatten_object(input):
+    """Flatten various objects to a 1D list."""
+    out = []
+    for x in input:
+        if isinstance(x, (list, pd.core.series.Series, np.ndarray)):
+            out += flatten_object(x)
+        else:
+            out.append(x)
+
+    return out

+
+
 
[docs]def plot_ranked_percentages(estimator, pinfo, label_type=None,
                             ensemble=50, output_csv=None):
 
@@ -423,10 +435,10 @@ 
Source code for WORC.plotting.plot_ranked_scores

     scores = dict()
     truths = dict()
 
-    y_truths_flat = [item for sublist in y_truths for item in sublist]
-    #y_scores_flat = [item for sublist in y_scores for item in sublist]
-    y_scores_flat = np.array(y_scores).flatten()
-    PIDs_scores_flat = [item for sublist in PIDs_scores for item in sublist]
+    y_truths_flat = flatten_object(y_truths)
+    y_scores_flat = flatten_object(y_scores)
+    PIDs_scores_flat = flatten_object(PIDs_scores)
+
     for yt, ys, pid in zip(y_truths_flat, y_scores_flat, PIDs_scores_flat):
         if pid not in scores.keys():
             # No scores yet for patient, create list
diff --git a/WORC/doc/_build/html/_modules/WORC/plotting/scatterplot.html b/WORC/doc/_build/html/_modules/WORC/plotting/scatterplot.html
index 4f572bf0..3e4d5d96 100644
--- a/WORC/doc/_build/html/_modules/WORC/plotting/scatterplot.html
+++ b/WORC/doc/_build/html/_modules/WORC/plotting/scatterplot.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.plotting.scatterplot — WORC 3.4.1 documentation
+  WORC.plotting.scatterplot — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/processing/ExtractNLargestBlobsn.html b/WORC/doc/_build/html/_modules/WORC/processing/ExtractNLargestBlobsn.html
index 5c2d039e..f565344f 100644
--- a/WORC/doc/_build/html/_modules/WORC/processing/ExtractNLargestBlobsn.html
+++ b/WORC/doc/_build/html/_modules/WORC/processing/ExtractNLargestBlobsn.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.processing.ExtractNLargestBlobsn — WORC 3.4.1 documentation
+  WORC.processing.ExtractNLargestBlobsn — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/processing/classes.html b/WORC/doc/_build/html/_modules/WORC/processing/classes.html
index 5e58c3ab..18cea5d9 100644
--- a/WORC/doc/_build/html/_modules/WORC/processing/classes.html
+++ b/WORC/doc/_build/html/_modules/WORC/processing/classes.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.processing.classes — WORC 3.4.1 documentation
+  WORC.processing.classes — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/processing/label_processing.html b/WORC/doc/_build/html/_modules/WORC/processing/label_processing.html
index d0a8961b..021457f9 100644
--- a/WORC/doc/_build/html/_modules/WORC/processing/label_processing.html
+++ b/WORC/doc/_build/html/_modules/WORC/processing/label_processing.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.processing.label_processing — WORC 3.4.1 documentation
+  WORC.processing.label_processing — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
@@ -165,7 +165,7 @@
   
Source code for WORC.processing.label_processing
 #!/usr/bin/env python
 
-# Copyright 2016-2019 Biomedical Imaging Group Rotterdam, Departments of
+# Copyright 2016-2021 Biomedical Imaging Group Rotterdam, Departments of
 # Medical Informatics and Radiology, Erasmus MC, Rotterdam, The Netherlands
 #
 # Licensed under the Apache License, Version 2.0 (the "License");
@@ -191,7 +191,7 @@ 
Source code for WORC.processing.label_processing

 import pandas as pd
 
 
-
[docs]def load_labels(label_file, label_type):
+
[docs]def load_labels(label_file, label_type=None):
     """Loads the label data from a label file
 
     Args:
@@ -218,6 +218,10 @@ 
Source code for WORC.processing.label_processing

     else:
         raise ae.WORCIOError(extension + ' is not valid label file extension.')
 
+    if label_type is None:
+        print("Label_type given is None, extracting all labels.")
+        label_type = label_names
+
     print("Label names to extract: " + str(label_type))
     labels = list()
     for i_label in label_type:
@@ -227,6 +231,7 @@ 
Source code for WORC.processing.label_processing

         else:
             labels.append(label_status[:, label_index])
 
+    # Create object to return
     label_data = dict()
     label_data['patient_IDs'] = patient_IDs
     label_data['label'] = labels
@@ -283,7 +288,7 @@ 
Source code for WORC.processing.label_processing

         label_status (numpy array): The status of the different labels
          for each patient
     """
-    data = pd.read_csv(input_file, header=0)
+    data = pd.read_csv(input_file, sep=None, header=0)
 
     # Load and check the header
     header = data.keys()
diff --git a/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/CalcFeatures_test.html b/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/CalcFeatures_test.html
index 972222eb..24d11ac5 100644
--- a/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/CalcFeatures_test.html
+++ b/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/CalcFeatures_test.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.resources.fastr_tests.CalcFeatures_test — WORC 3.4.1 documentation
+  WORC.resources.fastr_tests.CalcFeatures_test — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/elastix_test.html b/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/elastix_test.html
index d955ead4..96eccd95 100644
--- a/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/elastix_test.html
+++ b/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/elastix_test.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.resources.fastr_tests.elastix_test — WORC 3.4.1 documentation
+  WORC.resources.fastr_tests.elastix_test — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/segmentix_test.html b/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/segmentix_test.html
index 6d34bfc8..b3ae104d 100644
--- a/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/segmentix_test.html
+++ b/WORC/doc/_build/html/_modules/WORC/resources/fastr_tests/segmentix_test.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.resources.fastr_tests.segmentix_test — WORC 3.4.1 documentation
+  WORC.resources.fastr_tests.segmentix_test — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/tools/Elastix.html b/WORC/doc/_build/html/_modules/WORC/tools/Elastix.html
index 03b2db21..5955d50d 100644
--- a/WORC/doc/_build/html/_modules/WORC/tools/Elastix.html
+++ b/WORC/doc/_build/html/_modules/WORC/tools/Elastix.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.tools.Elastix — WORC 3.4.1 documentation
+  WORC.tools.Elastix — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/tools/Evaluate.html b/WORC/doc/_build/html/_modules/WORC/tools/Evaluate.html
index ef8bc1ba..b21014c8 100644
--- a/WORC/doc/_build/html/_modules/WORC/tools/Evaluate.html
+++ b/WORC/doc/_build/html/_modules/WORC/tools/Evaluate.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.tools.Evaluate — WORC 3.4.1 documentation
+  WORC.tools.Evaluate — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/tools/Slicer.html b/WORC/doc/_build/html/_modules/WORC/tools/Slicer.html
index eda5f151..a9cab5c1 100644
--- a/WORC/doc/_build/html/_modules/WORC/tools/Slicer.html
+++ b/WORC/doc/_build/html/_modules/WORC/tools/Slicer.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.tools.Slicer — WORC 3.4.1 documentation
+  WORC.tools.Slicer — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/tools/Transformix.html b/WORC/doc/_build/html/_modules/WORC/tools/Transformix.html
index c567adac..5ebf9dbe 100644
--- a/WORC/doc/_build/html/_modules/WORC/tools/Transformix.html
+++ b/WORC/doc/_build/html/_modules/WORC/tools/Transformix.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.tools.Transformix — WORC 3.4.1 documentation
+  WORC.tools.Transformix — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/WORC/tools/createfixedsplits.html b/WORC/doc/_build/html/_modules/WORC/tools/createfixedsplits.html
index c32b166a..cbc9352d 100644
--- a/WORC/doc/_build/html/_modules/WORC/tools/createfixedsplits.html
+++ b/WORC/doc/_build/html/_modules/WORC/tools/createfixedsplits.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC.tools.createfixedsplits — WORC 3.4.1 documentation
+  WORC.tools.createfixedsplits — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_modules/index.html b/WORC/doc/_build/html/_modules/index.html
index c8ec64c3..b08b7ade 100644
--- a/WORC/doc/_build/html/_modules/index.html
+++ b/WORC/doc/_build/html/_modules/index.html
@@ -8,7 +8,7 @@
   
   
   
-  Overview: module code — WORC 3.4.1 documentation
+  Overview: module code — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/_static/documentation_options.js b/WORC/doc/_build/html/_static/documentation_options.js
index a939770b..04328768 100644
--- a/WORC/doc/_build/html/_static/documentation_options.js
+++ b/WORC/doc/_build/html/_static/documentation_options.js
@@ -1,6 +1,6 @@
 var DOCUMENTATION_OPTIONS = {
     URL_ROOT: document.getElementById("documentation_options").getAttribute('data-url_root'),
-    VERSION: '3.4.1',
+    VERSION: '3.4.2',
     LANGUAGE: 'None',
     COLLAPSE_INDEX: false,
     FILE_SUFFIX: '.html',
diff --git a/WORC/doc/_build/html/autogen/WORC.IOparser.html b/WORC/doc/_build/html/autogen/WORC.IOparser.html
index 4e5e4ba7..9e9df36f 100644
--- a/WORC/doc/_build/html/autogen/WORC.IOparser.html
+++ b/WORC/doc/_build/html/autogen/WORC.IOparser.html
@@ -8,7 +8,7 @@
   
   
   
-  IOparser Package — WORC 3.4.1 documentation
+  IOparser Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.classification.html b/WORC/doc/_build/html/autogen/WORC.classification.html
index 77e525b0..78f08102 100644
--- a/WORC/doc/_build/html/autogen/WORC.classification.html
+++ b/WORC/doc/_build/html/autogen/WORC.classification.html
@@ -8,7 +8,7 @@
   
   
   
-  classification Package — WORC 3.4.1 documentation
+  classification Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.config.html b/WORC/doc/_build/html/autogen/WORC.config.html
index 81312838..8c03634d 100644
--- a/WORC/doc/_build/html/autogen/WORC.config.html
+++ b/WORC/doc/_build/html/autogen/WORC.config.html
@@ -8,7 +8,7 @@
   
   
   
-  <no title> — WORC 3.4.1 documentation
+  <no title> — WORC 3.4.2 documentation
   
 
   
@@ -62,7 +62,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.detectors.html b/WORC/doc/_build/html/autogen/WORC.detectors.html
index 68d42fc2..9a0c240c 100644
--- a/WORC/doc/_build/html/autogen/WORC.detectors.html
+++ b/WORC/doc/_build/html/autogen/WORC.detectors.html
@@ -8,7 +8,7 @@
   
   
   
-  detectors Package — WORC 3.4.1 documentation
+  detectors Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.exampledata.html b/WORC/doc/_build/html/autogen/WORC.exampledata.html
index 91b2fce6..76b0cba7 100644
--- a/WORC/doc/_build/html/autogen/WORC.exampledata.html
+++ b/WORC/doc/_build/html/autogen/WORC.exampledata.html
@@ -8,7 +8,7 @@
   
   
   
-  exampledata Package — WORC 3.4.1 documentation
+  exampledata Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.facade.html b/WORC/doc/_build/html/autogen/WORC.facade.html
index 1b4cdabc..83b08a0d 100644
--- a/WORC/doc/_build/html/autogen/WORC.facade.html
+++ b/WORC/doc/_build/html/autogen/WORC.facade.html
@@ -8,7 +8,7 @@
   
   
   
-  facade Package — WORC 3.4.1 documentation
+  facade Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.featureprocessing.html b/WORC/doc/_build/html/autogen/WORC.featureprocessing.html
index c9d2c759..404e1ab5 100644
--- a/WORC/doc/_build/html/autogen/WORC.featureprocessing.html
+++ b/WORC/doc/_build/html/autogen/WORC.featureprocessing.html
@@ -8,7 +8,7 @@
   
   
   
-  featureprocessing Package — WORC 3.4.1 documentation
+  featureprocessing Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.html b/WORC/doc/_build/html/autogen/WORC.html
index 8fce2ee4..a87276c0 100644
--- a/WORC/doc/_build/html/autogen/WORC.html
+++ b/WORC/doc/_build/html/autogen/WORC.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC Package — WORC 3.4.1 documentation
+  WORC Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.plotting.html b/WORC/doc/_build/html/autogen/WORC.plotting.html
index 043f1c2f..c68aa283 100644
--- a/WORC/doc/_build/html/autogen/WORC.plotting.html
+++ b/WORC/doc/_build/html/autogen/WORC.plotting.html
@@ -8,7 +8,7 @@
   
   
   
-  plotting Package — WORC 3.4.1 documentation
+  plotting Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
@@ -560,6 +560,12 @@ 

 WORC.plotting.plot_ranked_scores.example()[source]
 

 
+

+

+WORC.plotting.plot_ranked_scores.flatten_object(input)[source]

+
Flatten various objects to a 1D list.

+

+
 

 

 WORC.plotting.plot_ranked_scores.main()[source]

diff --git a/WORC/doc/_build/html/autogen/WORC.processing.html b/WORC/doc/_build/html/autogen/WORC.processing.html
index fefbf246..999e8cf0 100644
--- a/WORC/doc/_build/html/autogen/WORC.processing.html
+++ b/WORC/doc/_build/html/autogen/WORC.processing.html
@@ -8,7 +8,7 @@
   
   
   
-  processing Package — WORC 3.4.1 documentation
+  processing Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
@@ -382,7 +382,7 @@ 
processing Package
 

-WORC.processing.label_processing.load_labels(label_file, label_type)[source]

+WORC.processing.label_processing.load_labels(label_file, label_type=None)[source]
 
Loads the label data from a label file

 

 
Args:
label_file (string): The path to the label file
diff --git a/WORC/doc/_build/html/autogen/WORC.resources.fastr_tests.html b/WORC/doc/_build/html/autogen/WORC.resources.fastr_tests.html
index bca8ae92..4c38b3c1 100644
--- a/WORC/doc/_build/html/autogen/WORC.resources.fastr_tests.html
+++ b/WORC/doc/_build/html/autogen/WORC.resources.fastr_tests.html
@@ -8,7 +8,7 @@
   
   
   
-  fastr_tests Package — WORC 3.4.1 documentation
+  fastr_tests Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.resources.fastr_tools.html b/WORC/doc/_build/html/autogen/WORC.resources.fastr_tools.html
index fc835fcd..1a808e7d 100644
--- a/WORC/doc/_build/html/autogen/WORC.resources.fastr_tools.html
+++ b/WORC/doc/_build/html/autogen/WORC.resources.fastr_tools.html
@@ -8,7 +8,7 @@
   
   
   
-  fastr_tools Package — WORC 3.4.1 documentation
+  fastr_tools Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.resources.html b/WORC/doc/_build/html/autogen/WORC.resources.html
index a8ce308b..9bc82e18 100644
--- a/WORC/doc/_build/html/autogen/WORC.resources.html
+++ b/WORC/doc/_build/html/autogen/WORC.resources.html
@@ -8,7 +8,7 @@
   
   
   
-  resources Package — WORC 3.4.1 documentation
+  resources Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/autogen/WORC.tools.html b/WORC/doc/_build/html/autogen/WORC.tools.html
index 00bd318a..3d286739 100644
--- a/WORC/doc/_build/html/autogen/WORC.tools.html
+++ b/WORC/doc/_build/html/autogen/WORC.tools.html
@@ -8,7 +8,7 @@
   
   
   
-  tools Package — WORC 3.4.1 documentation
+  tools Package — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
diff --git a/WORC/doc/_build/html/genindex.html b/WORC/doc/_build/html/genindex.html
index 83522074..1555a998 100644
--- a/WORC/doc/_build/html/genindex.html
+++ b/WORC/doc/_build/html/genindex.html
@@ -9,7 +9,7 @@
   
   
   
-  Index — WORC 3.4.1 documentation
+  Index — WORC 3.4.2 documentation
   
 
   
@@ -63,7 +63,7 @@
             
             
               

-                3.4.1
+                3.4.2
               

             
           
@@ -927,6 +927,8 @@ 
F

       
  • fit_and_score() (in module WORC.classification.fitandscore)
 
    • 
       
  • fit_thresholds() (in module WORC.plotting.plot_estimator_performance)
+
    • 
+      
  • flatten_object() (in module WORC.plotting.plot_ranked_scores)
 
    • 
       
  • fullprint() (WORC.facade.helpers.configbuilder.ConfigBuilder method)
 
    • 
diff --git a/WORC/doc/_build/html/index.html b/WORC/doc/_build/html/index.html
index d9dd5243..12ed2621 100644
--- a/WORC/doc/_build/html/index.html
+++ b/WORC/doc/_build/html/index.html
@@ -8,7 +8,7 @@
   
   
   
-  WORC: Workflow for Optimal Radiomics Classification — WORC 3.4.1 documentation
+  WORC: Workflow for Optimal Radiomics Classification — WORC 3.4.2 documentation
   
 
   
@@ -63,7 +63,7 @@
             
             
               
    
-                3.4.1
+                3.4.2
               
    
             
           
@@ -361,133 +361,138 @@ 
    WORC DocumentationResource File Formats
 
  • Changelog
      
-
    • 3.4.1 - 2021-05-18
        
+
      • 3.4.2 - Unreleased
 
        • 
-
      • 3.4.0 - 2021-02-02
          
-
        • Fixed
          • 
-
        • Changed
          • 
-
        • Added
          • 
+
        • 3.4.1 - 2021-05-18
 
          • 
-
        • 3.3.5 - 2020-10-21
            
-
          • Fixed
            • 
-
          • Changed
            • 
-
          • Added
            • 
+
          • 3.4.0 - 2021-02-02
 
            • 
-
          • 3.3.4 - 2020-10-06
              
-
            • Fixed
              • 
-
            • Changed
              • 
-
            • Added
              • 
+
            • 3.3.5 - 2020-10-21
 
              • 
-
            • 3.3.3 - 2020-09-11
                
-
              • Fixed
                • 
-
              • Changed
                • 
-
              • Added
                • 
+
              • 3.3.4 - 2020-10-06
 
                • 
-
              • 3.3.2 - 2020-08-19
                  
-
                • Fixed
                  • 
-
                • Added
                  • 
-
                • Changed
                  • 
+
                • 3.3.3 - 2020-09-11
 
                  • 
-
                • 3.3.1 - 2020-07-31
                    
+
                  • 3.3.2 - 2020-08-19
 
                    • 
-
                  • 3.3.0 - 2020-07-28
                      
-
                    • Added
                      • 
-
                    • Changed
                      • 
-
                    • Fixed
                      • 
+
                    • 3.3.1 - 2020-07-31
+
                      • 
+
                    • 3.3.0 - 2020-07-28
 
                      • 
-
                    • 3.2.2 - 2020-07-14
                        
-
                      • Added
                        • 
-
                      • Changed
                        • 
-
                      • Fixed
                        • 
+
                      • 3.2.2 - 2020-07-14
 
                        • 
-
                      • 3.2.1 - 2020-07-02
                          
-
                        • Added
                          • 
-
                        • Changed
                          • 
-
                        • Fixed
                          • 
+
                        • 3.2.1 - 2020-07-02
 
                          • 
-
                        • 3.2.0 - 2020-06-26
                            
-
                          • Added
                            • 
-
                          • Changed
                            • 
-
                          • Fixed
                            • 
+
                          • 3.2.0 - 2020-06-26
 
                            • 
-
                          • 3.1.4 - 2020-05-26
                              
-
                            • Added
                              • 
-
                            • Changed
                              • 
-
                            • Fixed
                              • 
+
                            • 3.1.4 - 2020-05-26
 
                              • 
-
                            • 3.1.3 - 2020-01-24
                                
-
                              • Added
                                • 
-
                              • Changed
                                • 
-
                              • Fixed
                                • 
+
                              • 3.1.3 - 2020-01-24
 
                                • 
-
                              • 3.1.2 - 2019-12-09
                                  
-
                                • Added
                                  • 
-
                                • Changed
                                  • 
-
                                • Fixed
                                  • 
+
                                • 3.1.2 - 2019-12-09
 
                                  • 
-
                                • 3.1.1 - 2019-11-28
                                    
-
                                  • Added
                                    • 
-
                                  • Changed
                                    • 
-
                                  • Fixed
                                    • 
+
                                  • 3.1.1 - 2019-11-28
 
                                    • 
-
                                  • 3.1.0 - 2019-10-16
                                      
-
                                    • Added
                                      • 
-
                                    • Changed
                                      • 
-
                                    • Fixed
                                      • 
+
                                    • 3.1.0 - 2019-10-16
 
                                      • 
-
                                    • 3.0.0 - 2019-05-08
                                        
-
                                      • Added
                                        • 
-
                                      • Changed
                                        • 
-
                                      • Fixed
                                        • 
+
                                      • 3.0.0 - 2019-05-08
 
                                        • 
-
                                      • 2.1.3 - 2019-04-08
                                          
-
                                        • Changed
                                          • 
+
                                        • 2.1.3 - 2019-04-08
 
                                          • 
-
                                        • 2.1.2 - 2019-04-02
                                            
-
                                          • Added
                                            • 
-
                                          • Changed
                                            • 
-
                                          • Fixed
                                            • 
+
                                          • 2.1.2 - 2019-04-02
 
                                            • 
-
                                          • 2.1.1 - 2019-02-15
                                              
-
                                            • Added
                                              • 
-
                                            • Changed
                                              • 
-
                                            • Fixed
                                              • 
+
                                            • 2.1.1 - 2019-02-15
 
                                              • 
-
                                            • 2.1.0 - 2018-08-09
                                                
-
                                              • Added
                                                • 
-
                                              • Changed
                                                • 
-
                                              • Fixed
                                                • 
+
                                              • 2.1.0 - 2018-08-09
 
                                                • 
-
                                              • 2.0.0 - 2018-02-13
                                                  
-
                                                • Added
                                                  • 
-
                                                • Changed
                                                  • 
-
                                                • Fixed
                                                  • 
+
                                                • 2.0.0 - 2018-02-13
 
                                                  • 
 
                                                • 1.0.0rc1 - 2017-05-08
                                                  • 
diff --git a/WORC/doc/_build/html/objects.inv b/WORC/doc/_build/html/objects.inv
index b1c98011..ed9db615 100644
Binary files a/WORC/doc/_build/html/objects.inv and b/WORC/doc/_build/html/objects.inv differ
diff --git a/WORC/doc/_build/html/py-modindex.html b/WORC/doc/_build/html/py-modindex.html
index 4d681cce..0e8fa800 100644
--- a/WORC/doc/_build/html/py-modindex.html
+++ b/WORC/doc/_build/html/py-modindex.html
@@ -8,7 +8,7 @@
   
   
   
-  Python Module Index — WORC 3.4.1 documentation
+  Python Module Index — WORC 3.4.2 documentation
   
 
   
@@ -65,7 +65,7 @@
             
             
               
                                                  
-                3.4.1
+                3.4.2
               
                                                  
             
           
diff --git a/WORC/doc/_build/html/search.html b/WORC/doc/_build/html/search.html
index 8361a0fd..68592fd4 100644
--- a/WORC/doc/_build/html/search.html
+++ b/WORC/doc/_build/html/search.html
@@ -8,7 +8,7 @@
   
   
   
-  Search — WORC 3.4.1 documentation
+  Search — WORC 3.4.2 documentation
   
 
   
@@ -63,7 +63,7 @@
             
             
               
                                                  
-                3.4.1
+                3.4.2
               
                                                  
             
           
diff --git a/WORC/doc/_build/html/searchindex.js b/WORC/doc/_build/html/searchindex.js
index a291c660..e2364eb8 100644
--- a/WORC/doc/_build/html/searchindex.js
+++ b/WORC/doc/_build/html/searchindex.js
@@ -1 +1 @@
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diff --git a/WORC/doc/_build/html/static/changelog.html b/WORC/doc/_build/html/static/changelog.html
index 6ef7115f..56e4d2aa 100644
--- a/WORC/doc/_build/html/static/changelog.html
+++ b/WORC/doc/_build/html/static/changelog.html
@@ -8,7 +8,7 @@
   
   
   
-  Changelog — WORC 3.4.1 documentation
+  Changelog — WORC 3.4.2 documentation
   
 
   
@@ -64,7 +64,7 @@
             
             
               
                                                  
-                3.4.1
+                3.4.2
               
                                                  
             
           
@@ -99,133 +99,138 @@
 
                                                • Developer documentation
                                                  • 
 
                                                • Resource File Formats
                                                  • 
 
                                                • Changelog