broke pooch

Author: cudmore

examples/example.ipynb

@@ -6,24 +6,25 @@
 The first fetch will download the file and will take a few seconds.
 
 The next fetch will reload from the local file (no download)?
+
+As a github workflow:
+    /home/runner/.cache/pooch
 """
 
 import pooch
 
 def getPointsFile() -> str:
     """Download and get path to points csv.
     """
-    urlPoints = 'https://raw.githubusercontent.com/mapmanager/MapManagerCore-Data/main/data/rr30a_s0u/points.csv'
-    # urlPoints = 'https://github.com/mapmanager/MapManagerCore-Data/raw/main/data/rr30a_s0u/points.csv'
+    urlPoints = 'https://github.com/mapmanager/MapManagerCore-Data/raw/main/data/rr30a_s0u/points.csv'
     pointsPath = pooch.retrieve(
         url=urlPoints,
         known_hash=None
     )
     return pointsPath
 
 def getLinesFile() -> str:
-    urlLines = 'https://raw.githubusercontent.com/mapmanager/MapManagerCore-Data/main/data/rr30a_s0u/line_segments.csv'
-    # urlLines = 'https://github.com/mapmanager/MapManagerCore-Data/raw/main/data/rr30a_s0u/line_segments.csv'
+    urlLines = 'https://github.com/mapmanager/MapManagerCore-Data/raw/main/data/rr30a_s0u/line_segments.csv'
     linePath = pooch.retrieve(
         url=urlLines,
         known_hash=None

mapmanagercore/data/__init__.py

@@ -1,14 +1,24 @@
+import pandas as pd
 import pytest
 import mapmanagercore.data
 
 def test_load():
     linesFile = mapmanagercore.data.getLinesFile()
+    
+    dfLines = pd.read_csv(linesFile)
+    print('=== test_load')
+    print(dfLines)
+
     pointsFile = mapmanagercore.data.getPointsFile()
+
     ch1 = mapmanagercore.data.getTiffChannel_1()
+
     ch2 = mapmanagercore.data.getTiffChannel_2()
+
     mmap = mapmanagercore.data.getSingleTimepointMap()
 
+
 if __name__ == '__main__':
     test_load()
-    
+
 

tests/test_data_loader.py

@@ -27,10 +27,11 @@ def test_notebook(self):
             lineSegments=getLinesFile()
             print('lineSegments:', lineSegments)
             map = MapAnnotations(loader.build(),
-                                #  lineSegments="../data/rr30a_s0u/line_segments.csv",
-                                #  points="../data/rr30a_s0u/points.csv")
-                                 lineSegments=getLinesFile(),
-                                 points=getPointsFile())
+                                # lineSegments="../data/rr30a_s0u/line_segments.csv",
+                                # points="../data/rr30a_s0u/points.csv",
+                                lineSegments=getLinesFile(),
+                                points=getPointsFile()
+                                )
             map.points[:]
             map.segments[:]
 
@@ -71,8 +72,8 @@ def test_notebook(self):
             id
 
             # abb
-            timePoint.points["roi"].get_coordinates()
-            timePoint.points["roiBase"].get_coordinates()['x'].tolist()
+            # timePoint.points["roi"].get_coordinates()
+            # timePoint.points["roiBase"].get_coordinates()['x'].tolist()
 
             from mapmanagercore.schemas.spine import Spine