small-fish-gui 1.10.3__py3-none-any.whl → 1.10.4__py3-none-any.whl

small_fish_gui/__init__.py

@@ -37,7 +37,7 @@ ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
 (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
 SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
 """
-__version__ = "1.10.3"
+__version__ = "1.10.4"
 __wiki__ = "https://github.com/2Echoes/small_fish_gui/wiki"
 
 import os

small_fish_gui/gui/_napari_widgets.py

@@ -56,7 +56,7 @@ class ClusterWizard(ABC) :
 CLUSTER_WIZARDS = []
 def register_cluster_wizard(cls):
     """
-    Helper to register all clusters related class
+    Helper to register all clusters related wizard class. Object to be instanciated upon launching napari but that have no widget.
     """
     CLUSTER_WIZARDS.append(cls)
     return cls
@@ -198,6 +198,8 @@ class ClusterIDSetter(ClusterWidget) :
                     new_spot_number = len(self.single_layer.features.loc[self.single_layer.features['cluster_id'] == cluster_id])
                     self.cluster_layer.features.loc[self.cluster_layer.features['cluster_id'] == cluster_id, ["spot_number"]] = new_spot_number
                 self.cluster_layer.events.features()
+            else :
+                print(f"Not cluster with id {cluster_id} was found.")
 
             self.cluster_layer.selected_data.clear()
 
@@ -490,7 +492,6 @@ class ClusterCleaner(ClusterWizard) :
 
         def delete_empty_cluster() :
             drop_idx = self.cluster_layer.features[self.cluster_layer.features['spot_number'] == 0].index
-            print("drop_idx : ",drop_idx)
             
             if len(drop_idx) > 0 :
                 print("Removing {} empty cluster(s)".format(len(drop_idx)))

small_fish_gui/pipeline/detection.py

@@ -218,9 +218,9 @@ def initiate_detection(user_parameters : pipeline_parameters, map_, shape) :
         pass
     else :
         detection_parameters['voxel_size'] = [round(v) if isinstance(v, (float,int)) else None for v in voxel_size]
-        detection_parameters['voxel_size_z'] = detection_parameters['voxel_size'][0]
-        detection_parameters['voxel_size_y'] = detection_parameters['voxel_size'][1]
-        detection_parameters['voxel_size_x'] = detection_parameters['voxel_size'][2]
+        detection_parameters['voxel_size_z'] = detection_parameters['voxel_size'][0] if isinstance(detection_parameters['voxel_size'][0], (float,int)) else None
+        detection_parameters['voxel_size_y'] = detection_parameters['voxel_size'][1] if isinstance(detection_parameters['voxel_size'][1], (float,int)) else None
+        detection_parameters['voxel_size_x'] = detection_parameters['voxel_size'][2] if isinstance(detection_parameters['voxel_size'][2], (float,int)) else None
 
     #Setting default spot size to 1.5 voxel
     if detection_parameters.get('spot_size') is None :

small_fish_gui/requirements.txt

@@ -15,4 +15,5 @@ scikit-image==0.19.1
 scikit-learn==1.3.2
 openpyxl>=3.1.2
 pyarrow>=11.0.0
-aicsimageio>=aicsimageio==4.14.0
+aicsimageio>=aicsimageio==4.14.0
+aicspylibczi==3.3.1

{small_fish_gui-1.10.3.dist-info → small_fish_gui-1.10.4.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: small_fish_gui
-Version: 1.10.3
+Version: 1.10.4
 Summary: Small Fish is a python application for the analysis of smFish images. It provides a ready to use graphical interface to combine famous python packages for cell analysis without any need for coding.
 Project-URL: Homepage, https://github.com/2Echoes/small_fish
 Project-URL: Wiki, https://github.com/2Echoes/small_fish_gui/wiki
@@ -12,6 +12,7 @@ Classifier: Operating System :: OS Independent
 Classifier: Programming Language :: Python :: 3
 Requires-Python: >=3.9
 Requires-Dist: aicsimageio>=4.14.0
+Requires-Dist: aicspylibczi==3.3.1
 Requires-Dist: big-fish==0.6.2
 Requires-Dist: cellpose==3.0.7
 Requires-Dist: czifile==2019.7.2

{small_fish_gui-1.10.3.dist-info → small_fish_gui-1.10.4.dist-info}/RECORD

@@ -1,9 +1,9 @@
 small_fish_gui/LICENSE,sha256=-iFy8VGBYs5VsHglKpk4D-hxqQ2jMJaqmfq_ulIzDks,1303
 small_fish_gui/README.md,sha256=SFXhmWiISVrOd_cBUodAYaHhMPeKBXyVoPe-fiBxuBw,4671
-small_fish_gui/__init__.py,sha256=u3_GHTV7nTxsPq7gk2dj3ZOgHGhW-U1wWMt0T2PNXck,2050
+small_fish_gui/__init__.py,sha256=Y_hSHNTe6GvBP46FzrpZfHYEBm9oSdw8dzJovBVQ1HU,2050
 small_fish_gui/__main__.py,sha256=mgO_BmBGBsp8steg_lcwCPZ7QzgjgeScL8Npgs1D9Pk,1643
 small_fish_gui/hints.py,sha256=57pO8WA_PymBm5QyXCgYxnZIqqt86B-hO_s_6sv8b5s,1962
-small_fish_gui/requirements.txt,sha256=udO54grAFrmnEqUQC4rDeUMaIyBz3hYB1LJtu1ld7tg,354
+small_fish_gui/requirements.txt,sha256=CXWOjBUN6fKtyNQnMkPZICJy-8PhIaLSeC5J42uC-ok,374
 small_fish_gui/utils.py,sha256=LM6QW2ono_LIRv7JXIIq7ZxxbDXqBtZ5uR9gjKJfwM8,1903
 small_fish_gui/.github/workflows/python-publish.yml,sha256=5Ltnuhw9TevhzndlBmdUgYMnS73xEAxSyd1u8DHdn5s,1084
 small_fish_gui/batch/__init__.py,sha256=ku2_Yate-UG89Q0BmE2B9kFV4kOz-u9Lf2lj6VsdFXs,127
@@ -16,7 +16,7 @@ small_fish_gui/batch/update.py,sha256=opSwMLlQDUtCwWpx9d2GfNKVA-t90ziqc1qofDH74D
 small_fish_gui/batch/utils.py,sha256=Pnmzlen8gmLBYBthMiUiK0TErjBBSId9SjKeBd9U6-U,1784
 small_fish_gui/batch/values.txt,sha256=XY8FBgAqExVKbtCXLztptaOUTFKj0G6t1_xX-zjYuTk,999
 small_fish_gui/gui/__init__.py,sha256=k08QFdLv2IXR8a6f8aPzy6iJ6MjDI7ZV143CH-BEXuA,845
-small_fish_gui/gui/_napari_widgets.py,sha256=4wVm09PWyudhSBIaKf5_a3oCfeRty6mitI04X3ems9k,18791
+small_fish_gui/gui/_napari_widgets.py,sha256=43Ue-bEEmpascQLfbM1-JD8MGFGp7VB8gJWN2Fpi3aY,18919
 small_fish_gui/gui/animation.py,sha256=MnYsA1kxQZ72L_H0knxOs41lG0ZZv1re7gSgYNmZY00,983
 small_fish_gui/gui/layout.py,sha256=f45acK2I7o9Q3LYY23G4XAJ8HPoD9mp7AJNNlLbUByI,14371
 small_fish_gui/gui/napari_visualiser.py,sha256=g9ZIcCBQ3HHjclbk8EsJYLLAIdCK-uSYg123-vjP5PQ,10011
@@ -36,14 +36,14 @@ small_fish_gui/pipeline/_custom_errors.py,sha256=tQ-AUhgzIFpK30AZiQQrtHCHyGVRDdA
 small_fish_gui/pipeline/_preprocess.py,sha256=AzSbfIFWXVWs_WRGgZ_2X5afVkbnC0iBMvuP9F3Quc4,15136
 small_fish_gui/pipeline/_signaltonoise.py,sha256=7A9t7xu7zghI6cr201Ldm-LjJ5NOuP56VSeJ8KIzcUo,8497
 small_fish_gui/pipeline/actions.py,sha256=nwXD3NLSJHLQC3hpeNRf_JfBbnCZEQsRgH2W74vXAyk,16048
-small_fish_gui/pipeline/detection.py,sha256=M4Ez2g-GKWcNl3FhgOOPQ1WNv9UePIXYsAd0OTuC5_g,37222
+small_fish_gui/pipeline/detection.py,sha256=icj9-myOulUmZ3ZW9cXneuEsp1aBgJ9pHuGzBvOey38,37450
 small_fish_gui/pipeline/main.py,sha256=5Mjw1glru0WL0o2D4uL8Gf5DtZMCd506Wn2C4wRkyNQ,5850
 small_fish_gui/pipeline/segmentation.py,sha256=CwjNwcFiHYbbjuZednmE8P3S7bnVpebLqD_9mXfQoII,19864
 small_fish_gui/pipeline/spots.py,sha256=9hNOGnOZhrtrIORt8UGBcI-SGCh1XftcUGerkBwN-QY,2201
 small_fish_gui/pipeline/test.py,sha256=w4ZMGDmUDXxVgWTlZ2TKw19W8q5gcE9gLMKe0SWnRrw,2827
 small_fish_gui/pipeline/testing.ipynb,sha256=Rs7VQ7TImNyUzT2_59JgbOjR5_Qs-0NjHHnqS87eiwA,76481
 small_fish_gui/pipeline/utils.py,sha256=run6qtqCAe_mFnE3o1CnmF1xBBmK3ydgc8-jOV9P-_w,448
-small_fish_gui-1.10.3.dist-info/METADATA,sha256=RD1JG9SuZum1q1vpqYGjVOBcC2uo5rf32fGGKUjlT1E,2670
-small_fish_gui-1.10.3.dist-info/WHEEL,sha256=qtCwoSJWgHk21S1Kb4ihdzI2rlJ1ZKaIurTj_ngOhyQ,87
-small_fish_gui-1.10.3.dist-info/licenses/LICENSE,sha256=-iFy8VGBYs5VsHglKpk4D-hxqQ2jMJaqmfq_ulIzDks,1303
-small_fish_gui-1.10.3.dist-info/RECORD,,
+small_fish_gui-1.10.4.dist-info/METADATA,sha256=hT48lQ4C23O0GR8SuCXh_T24TFSO_2F2Ba7nBv3-jXw,2705
+small_fish_gui-1.10.4.dist-info/WHEEL,sha256=qtCwoSJWgHk21S1Kb4ihdzI2rlJ1ZKaIurTj_ngOhyQ,87
+small_fish_gui-1.10.4.dist-info/licenses/LICENSE,sha256=-iFy8VGBYs5VsHglKpk4D-hxqQ2jMJaqmfq_ulIzDks,1303
+small_fish_gui-1.10.4.dist-info/RECORD,,