nettracer3d 1.0.9__py3-none-any.whl → 1.1.0__py3-none-any.whl

nettracer3d/nettracer.py

@@ -3143,13 +3143,14 @@ class Network_3D:
         Can be called on a Network_3D object to save the nodes property to hard mem as a tif. It will save to the active directory if none is specified.
         :param directory: (Optional - Val = None; String). The path to an indended directory to save the nodes to.
         """
-        imagej_metadata = {
-            'spacing': self.z_scale,
-            'slices': self._nodes.shape[0],
-            'channels': 1,
-            'axes': 'ZYX'
-        }
-        resolution_value = 1.0 / self.xy_scale if self.xy_scale != 0 else 1
+        if self._nodes is not None:
+            imagej_metadata = {
+                'spacing': self.z_scale,
+                'slices': self._nodes.shape[0],
+                'channels': 1,
+                'axes': 'ZYX'
+            }
+            resolution_value = 1.0 / self.xy_scale if self.xy_scale != 0 else 1
 
         if filename is None:
             filename = "labelled_nodes.tif"
@@ -3184,14 +3185,15 @@ class Network_3D:
         :param directory: (Optional - Val = None; String). The path to an indended directory to save the edges to.
         """
 
-        imagej_metadata = {
-            'spacing': self.z_scale,
-            'slices': self._edges.shape[0],
-            'channels': 1,
-            'axes': 'ZYX'
-        }
+        if self._edges is not None:
+            imagej_metadata = {
+                'spacing': self.z_scale,
+                'slices': self._edges.shape[0],
+                'channels': 1,
+                'axes': 'ZYX'
+            }
 
-        resolution_value = 1.0 / self.xy_scale if self.xy_scale != 0 else 1
+            resolution_value = 1.0 / self.xy_scale if self.xy_scale != 0 else 1
 
         if filename is None:
             filename = "labelled_edges.tif"
@@ -3360,13 +3362,14 @@ class Network_3D:
 
     def save_network_overlay(self, directory = None, filename = None):
 
-        imagej_metadata = {
-            'spacing': self.z_scale,
-            'slices': self._network_overlay.shape[0],
-            'channels': 1,
-            'axes': 'ZYX'
-        }
-        resolution_value = 1.0 / self.xy_scale if self.xy_scale != 0 else 1
+        if self._network_overlay is not None:
+            imagej_metadata = {
+                'spacing': self.z_scale,
+                'slices': self._network_overlay.shape[0],
+                'channels': 1,
+                'axes': 'ZYX'
+            }
+            resolution_value = 1.0 / self.xy_scale if self.xy_scale != 0 else 1
 
         if filename is None:
             filename = "overlay_1.tif"
@@ -3390,13 +3393,14 @@ class Network_3D:
 
     def save_id_overlay(self, directory = None, filename = None):
 
-        imagej_metadata = {
-            'spacing': self.z_scale,
-            'slices': self._id_overlay.shape[0],
-            'channels': 1,
-            'axes': 'ZYX'
-        }
-        resolution_value = 1.0 / self.xy_scale if self.xy_scale != 0 else 1
+        if self._id_overlay is not None:
+            imagej_metadata = {
+                'spacing': self.z_scale,
+                'slices': self._id_overlay.shape[0],
+                'channels': 1,
+                'axes': 'ZYX'
+            }
+            resolution_value = 1.0 / self.xy_scale if self.xy_scale != 0 else 1
 
         if filename is None:
             filename = "overlay_2.tif"

{nettracer3d-1.0.9.dist-info → nettracer3d-1.1.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: nettracer3d
-Version: 1.0.9
+Version: 1.1.0
 Summary: Scripts for intializing and analyzing networks from segmentations of three dimensional images.
 Author-email: Liam McLaughlin <liamm@wustl.edu>
 Project-URL: Documentation, https://nettracer3d.readthedocs.io/en/latest/
@@ -110,9 +110,6 @@ McLaughlin, L., Zhang, B., Sharma, S. et al. Three dimensional multiscalar neuro
 
 NetTracer3D was developed by Liam McLaughlin while working under Dr. Sanjay Jain at Washington University School of Medicine.
 
--- Version 1.0.9 Updates --
+-- Version 1.1.0 Updates --
 
-	* Some bug fixes
-	* Added ability to load a full sized highlight overlay from the file menu (in case you need it for a picture - on big images the highlight overlay is computed by slice so if you reload the channel its trying to highlight, it will alter the highlight overlay, but loading in the entire highlight overlay directly will stop this behavior until a new highlight is generated).
-	* For the 'calculate edge < > node interaction' method - now can compute the length of nearby edges as an alternative option to just the volumes.
-	* Added ability to select all nodes/edges participating in the network.
+	* Bug Fix

{nettracer3d-1.0.9.dist-info → nettracer3d-1.1.0.dist-info}/RECORD

@@ -5,7 +5,7 @@ nettracer3d/excelotron.py,sha256=aNof6k-DgMxVyFgsl3ltSCxG4vZW49cuvCBzfzhYhUY,750
 nettracer3d/modularity.py,sha256=pborVcDBvICB2-g8lNoSVZbIReIBlfeBmjFbPYmtq7Y,22443
 nettracer3d/morphology.py,sha256=yYMeV8DRZXJhFSm4bI3VYA562AG2dlp2sqqnnNazqtQ,23128
 nettracer3d/neighborhoods.py,sha256=lh4_zuTwgTq-u8VHy72buBfZf58FEJo9sH3IIBuZr68,52735
-nettracer3d/nettracer.py,sha256=GM5laE2pgxCLWxj4MOEMv2ItWoUWGTzxoGWzxn1hQ-U,277673
+nettracer3d/nettracer.py,sha256=6_I-iuYQVztJYp9g0Imd9dC1tTdtcklj7xXh2dnoWtU,277948
 nettracer3d/nettracer_gui.py,sha256=MZYaCuf5dX_Zv4H-A5CE-O60uc2z2_jmgwMMxvw680E,683698
 nettracer3d/network_analysis.py,sha256=kBzsVaq4dZkMe0k-VGvQIUvM-tK0ZZ8bvb-wtsugZRQ,46150
 nettracer3d/network_draw.py,sha256=F7fw6Pcf4qWOhdKwLmhwqWdschbDlHzwCVolQC9imeU,14117
@@ -18,9 +18,9 @@ nettracer3d/segmenter_GPU.py,sha256=FwzevixleTUoRmwVa8jPPzW82RZoC6nL2eEeZ4-2ZR8,
 nettracer3d/simple_network.py,sha256=dkG4jpc4zzdeuoaQobgGfL3PNo6N8dGKQ5hEEubFIvA,9947
 nettracer3d/smart_dilate.py,sha256=TvRUh6B4q4zIdCO1BWH-xgTdND5OUNmo99eyxG9oIAU,27145
 nettracer3d/stats.py,sha256=0YwrVLeEvll3PlbL5-0_9dstldr48PvxJrQm-PiC8jY,36607
-nettracer3d-1.0.9.dist-info/licenses/LICENSE,sha256=jnNT-yBeIAKAHpYthPvLeqCzJ6nSurgnKmloVnfsjCI,764
-nettracer3d-1.0.9.dist-info/METADATA,sha256=fIu4scBXcOaG4VO_OEfbPFAHyJmug8cunf4L3LYGGsY,7588
-nettracer3d-1.0.9.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
-nettracer3d-1.0.9.dist-info/entry_points.txt,sha256=Nx1rr_0QhJXDBHAQg2vcqCzLMKBzSHfwy3xwGkueVyc,53
-nettracer3d-1.0.9.dist-info/top_level.txt,sha256=zsYy9rZwirfCEOubolhee4TyzqBAL5gSUeFMzhFTX8c,12
-nettracer3d-1.0.9.dist-info/RECORD,,
+nettracer3d-1.1.0.dist-info/licenses/LICENSE,sha256=jnNT-yBeIAKAHpYthPvLeqCzJ6nSurgnKmloVnfsjCI,764
+nettracer3d-1.1.0.dist-info/METADATA,sha256=kdCpkzukBA2Nd3scpTLwy8JlTPfhX_1K-Y9dYDekrMo,6984
+nettracer3d-1.1.0.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
+nettracer3d-1.1.0.dist-info/entry_points.txt,sha256=Nx1rr_0QhJXDBHAQg2vcqCzLMKBzSHfwy3xwGkueVyc,53
+nettracer3d-1.1.0.dist-info/top_level.txt,sha256=zsYy9rZwirfCEOubolhee4TyzqBAL5gSUeFMzhFTX8c,12
+nettracer3d-1.1.0.dist-info/RECORD,,