nettracer3d 0.5.4__py3-none-any.whl → 0.5.6__py3-none-any.whl

{nettracer3d-0.5.4.dist-info → nettracer3d-0.5.6.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: nettracer3d
-Version: 0.5.4
+Version: 0.5.6
 Summary: Scripts for intializing and analyzing networks from segmentations of three dimensional images.
 Author-email: Liam McLaughlin <mclaughlinliam99@gmail.com>
 Project-URL: User_Tutorial, https://www.youtube.com/watch?v=cRatn5VTWDY
@@ -44,10 +44,6 @@ NetTracer3D is free to use/fork for academic/nonprofit use so long as citation i
 
 NetTracer3D was developed by Liam McLaughlin while working under Dr. Sanjay Jain at Washington University School of Medicine.
 
--- Version 0.5.4 updates --
+-- Version 0.5.6 updates --
 
-1. Added new function to GUI in image -> overlays -> color nodes/edges. Generates a rgb array corresponding to the nodes/edge labels where each node/edge (depending which array is selected) is randomly assigned a unique rgb color in an overlay channel. This can be used, for example, to color code labeled branches for easy identification of which branch is which.
-
-2. Improved highlight overlay general functionality (for selecting nodes/edges). Previously selecting a node/edge had the program attempting to create an equal sized array as an overlay, find all objects corresponding to the selected ones, fill those into the new highlight overlay, then overlay that image. This was understandably quite slow in big arrays where the system was wasting a lot of time searching the entire array every time something was selected. New version retains this functionality for arrays below 125 million voxels, since search time is rather manageable at that size. For larger arrays, it instead draws the highlight for the selected objects only into the current slice, rendering a new slice whenever the user scrolls in the stack (although the entire highlight overlay is still initialized as a placeholder). Functions that require the use of the entire highlight overlay (such as masking) are correspondingly updated to draw the entirety of the highlight overlay before executing (when the system has up until that point been drawing slices one at a time). This will likely be the retained behavior moving forward, although to eliminate this behavior, one can open nettracer_gui.py and set self.mini_thresh to some comically large value. The new highlight overlay seems to work effectively the same but faster in my testing although it is possible a bug slipped through, which I will fix if informed about (or if I find it myself).
-
-3. For the machine learning segmenter, changed the system to attempt to segment the image by chunking the array into the largest possible chunks that can be divided across all CPU cores. Previously the system split the array into 64^3 voxel sized chunks and passed those to the CPU cores until everything was processed. I am not sure which version is more efficient/faster so this is somewhat of a test. In theory the new behavior could be faster because it asking Python to interpret less stuff. 
+1. Minor change - Updated some of the overhead and post-random forrest voxel assignment for the segmenter to be faster. The major bottleneck for this is still querying sklearn which seems a bit harder to work around.

{nettracer3d-0.5.4.dist-info → nettracer3d-0.5.6.dist-info}/RECORD

@@ -4,18 +4,18 @@ nettracer3d/hub_getter.py,sha256=KiNtxdajLkwB1ftslvrh1FE1Ch9ZCFEmHSEEotwR-To,829
 nettracer3d/modularity.py,sha256=V1f3s_vGd8EuVz27mzq6ycIGr0BWIpH7c7NU4QjgAHU,30247
 nettracer3d/morphology.py,sha256=yQ0GuieMVXOQpaohZlPnkEXEuCUjf8Fg352axyK8nbM,10755
 nettracer3d/nettracer.py,sha256=OE95IH1TfAZvT-htv1LEhw1EpnnEpkA83R5EcGMQDQg,209828
-nettracer3d/nettracer_gui.py,sha256=fOKzicFOX9z-MEf_aD1SV8P4BuLKOdi6K1pxH-tiqrk,357091
+nettracer3d/nettracer_gui.py,sha256=HN-XJXp_IqmVVHx0p_9u57JNRNW3ssg0InXtmOcdlS8,365657
 nettracer3d/network_analysis.py,sha256=MJBBjslA1k_R8ymid77U-qGSgzxFVfzGVQhE0IdhnbE,48046
 nettracer3d/network_draw.py,sha256=F7fw6Pcf4qWOhdKwLmhwqWdschbDlHzwCVolQC9imeU,14117
 nettracer3d/node_draw.py,sha256=k3sCTfUCJs3aH1C1q1gTNxDz9EAQbBd1hsUIJajxRx8,9823
 nettracer3d/proximity.py,sha256=FnIiI_AzfXd22HwCIFIyQRZxKYJ8YscIDdPnIv-wsO4,10560
 nettracer3d/run.py,sha256=xYeaAc8FCx8MuzTGyL3NR3mK7WZzffAYAH23bNRZYO4,127
-nettracer3d/segmenter.py,sha256=5Dqo_q-m28cYq4ROBhc4lyWjJnYK7ETTiRXyU_QdVXU,29688
+nettracer3d/segmenter.py,sha256=zFWv9chXZ1rgw24KYKvIaQqkptUHy03vMKjmPgwv0-M,49793
 nettracer3d/simple_network.py,sha256=fP1gkDdtQcHruEZpUdasKdZeVacoLOxKhR3bY0L1CAQ,15426
 nettracer3d/smart_dilate.py,sha256=Kekm6YIVlJniMvJMG6_AwwNmCqK2l4Qtvg9VzzqPKMw,24600
-nettracer3d-0.5.4.dist-info/LICENSE,sha256=gM207DhJjWrxLuEWXl0Qz5ISbtWDmADfjHp3yC2XISs,888
-nettracer3d-0.5.4.dist-info/METADATA,sha256=dn0Reda7mqMn5rBXKcn53Ky_K6eXNNTyi6YlICSwwg8,5305
-nettracer3d-0.5.4.dist-info/WHEEL,sha256=In9FTNxeP60KnTkGw7wk6mJPYd_dQSjEZmXdBdMCI-8,91
-nettracer3d-0.5.4.dist-info/entry_points.txt,sha256=Nx1rr_0QhJXDBHAQg2vcqCzLMKBzSHfwy3xwGkueVyc,53
-nettracer3d-0.5.4.dist-info/top_level.txt,sha256=zsYy9rZwirfCEOubolhee4TyzqBAL5gSUeFMzhFTX8c,12
-nettracer3d-0.5.4.dist-info/RECORD,,
+nettracer3d-0.5.6.dist-info/LICENSE,sha256=gM207DhJjWrxLuEWXl0Qz5ISbtWDmADfjHp3yC2XISs,888
+nettracer3d-0.5.6.dist-info/METADATA,sha256=zkrxl6ONb7W6N2MprFGM9yz2Rxf3UGXTt_1yoHQkSSg,3194
+nettracer3d-0.5.6.dist-info/WHEEL,sha256=jB7zZ3N9hIM9adW7qlTAyycLYW9npaWKLRzaoVcLKcM,91
+nettracer3d-0.5.6.dist-info/entry_points.txt,sha256=Nx1rr_0QhJXDBHAQg2vcqCzLMKBzSHfwy3xwGkueVyc,53
+nettracer3d-0.5.6.dist-info/top_level.txt,sha256=zsYy9rZwirfCEOubolhee4TyzqBAL5gSUeFMzhFTX8c,12
+nettracer3d-0.5.6.dist-info/RECORD,,

{nettracer3d-0.5.4.dist-info → nettracer3d-0.5.6.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (75.8.0)
+Generator: setuptools (75.8.2)
 Root-Is-Purelib: true
 Tag: py3-none-any