Adding new/updated io.github.betaseg_cellsketch-analyze_0.2.2

betaseg · Mar 18, 2024 · cf8e6a4 · cf8e6a4
1 parent a624c1e
commit cf8e6a4
Show file tree

Hide file tree

Showing 4 changed files with 19 additions and 8 deletions.
diff --git a/album_catalog_index.db b/album_catalog_index.db
diff --git a/solutions/io.github.betaseg/cellsketch-analyze/CHANGELOG.md b/solutions/io.github.betaseg/cellsketch-analyze/CHANGELOG.md
@@ -4,6 +4,9 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## [0.2.2] - 2024-03-18
+Fix issue when not all components of project exist
+
 ## [0.2.1] - 2024-03-06
 Fix executable issue with gradlew
 

diff --git a/solutions/io.github.betaseg/cellsketch-analyze/solution.py b/solutions/io.github.betaseg/cellsketch-analyze/solution.py
@@ -73,10 +73,18 @@ def calculate_edt(project, skip_existing_distance_maps, num_threads):
 
     project_file = z5py.File(str(project))
     project_name = Path(project).name.rstrip(".n5")
-    masks = project_file.attrs['masks']
-    labelmaps = project_file.attrs['labelmaps']
-    filaments = project_file.attrs['filaments']
-    cell_bounds = project_file.attrs['cellbounds']
+    masks = {}
+    labelmaps = {}
+    filaments = {}
+    cell_bounds = {}
+    if 'labelmaps' in project_file.attrs:
+        labelmaps = project_file.attrs['labelmaps']
+    if 'masks' in project_file.attrs:
+        masks = project_file.attrs['masks']
+    if 'filaments' in project_file.attrs:
+        filaments = project_file.attrs['filaments']
+    if 'cell_bounds' in project_file.attrs:
+        cell_bounds = project_file.attrs['cellbounds']
     to_be_processed = []
     to_be_processed_inverted = []
 
@@ -163,7 +171,7 @@ def is_file_arg(arg_name):
 setup(
     group="io.github.betaseg",
     name="cellsketch-analyze",
-    version="0.2.1",
+    version="0.2.2",
     solution_creators=["Deborah Schmidt"],
     title="CellSketch: Run spatial analysis",
     description="This solution performs spatial analysis for all organelles in a CellSketch project.",

diff --git a/solutions/io.github.betaseg/cellsketch-analyze/solution.yml b/solutions/io.github.betaseg/cellsketch-analyze/solution.yml
@@ -16,7 +16,7 @@ args:
   description: Threads to use to calculate the distance transform maps.
   name: num_threads
   type: integer
-changelog: Fix executable issue with gradlew
+changelog: Fix issue when not all components of project exist
 cite:
 - doi: https://doi.org/10.1083/jcb.202010039
   text: "A. M\xFCller, D. Schmidt, C. S. Xu, S. Pang, J. V. D'Costa, S. Kretschmar,\
@@ -44,6 +44,6 @@ tags:
 - segmentation
 - annotation
 - analysis
-timestamp: '2024-03-06T21:38:59.563153'
+timestamp: '2024-03-18T13:57:07.265027'
 title: 'CellSketch: Run spatial analysis'
-version: 0.2.1
+version: 0.2.2