tests(processing): Update regression test targets to include dna width

pyproject.toml

@@ -55,7 +55,7 @@ dependencies = [
   "snoop",
   "tensorflow",
   "tifffile",
-  "topoly==1.0.2",
+  "topoly",
   "tqdm",
 ]
 

tests/resources/tracing/ordered_tracing/catenanes_ordered_tracing_molstats.csv

@@ -1,5 +1,5 @@
 ,image,grain_number,molecule_number,circular,topology,topology_flip,processing
-0,catenane,0,0,True,4^2_1,2^2_1,nodestats
-1,catenane,0,1,True,4^2_1,2^2_1,nodestats
-2,catenane,1,0,True,2^2_1,0_1U0_1,nodestats
-3,catenane,1,1,True,2^2_1,0_1U0_1,nodestats
+0,catenane,0,0,True,L4a1,L2a1,nodestats
+1,catenane,0,1,True,L4a1,L2a1,nodestats
+2,catenane,1,0,True,L2a1,0_1U0_1,nodestats
+3,catenane,1,1,True,L2a1,0_1U0_1,nodestats

tests/tracing/_regtest_outputs/test_disordered_tracing.test_trace_image_disordered_dataframes[catenane].out

@@ -0,0 +1,28 @@
+        image  grain_number  grain_endpoints  grain_junctions  total_branch_lengths  grain_width_mean
+0  test_image             0                0               14            5.7552e-07        4.3883e-09
+1  test_image             1                0               12            5.7479e-07        4.4161e-09
+         image  grain_number  branch_distance  branch_type connected_segments  mean_pixel_value  stdev_pixel_value  min_value  median_value  middle_value
+0   test_image             0       2.9858e+01            2          [1, 2, 6]        2.6683e+00         3.5767e-01 1.9935e+00    2.6465e+00    2.6744e+00
+1   test_image             0       2.8645e+01            2          [0, 2, 6]        2.7290e+00         2.1545e-01 2.5507e+00    2.6838e+00    2.6580e+00
+2   test_image             0       1.8683e+00            2       [0, 1, 3, 4]        4.0675e+00         1.6906e-01 3.7890e+00    4.1385e+00    4.1396e+00
+3   test_image             0       1.4661e+02            2          [2, 4, 9]        2.6694e+00         2.9476e-01 1.2200e+00    2.7080e+00    2.9116e+00
+4   test_image             0       2.6170e+01            2          [2, 3, 9]        2.8350e+00         3.4364e-01 2.5354e+00    2.7608e+00    2.7651e+00
+5   test_image             0       2.2459e+02            2     [6, 7, 10, 11]        2.7010e+00         2.6534e-01 1.7874e+00    2.7330e+00    2.2574e+00
+6   test_image             0       6.9504e+00            2       [0, 1, 5, 7]        3.6264e+00         6.4067e-01 2.5888e+00    3.8420e+00    3.8420e+00
+7   test_image             0       3.1203e+01            2      [5, 6, 8, 11]        2.8436e+00         5.5729e-01 2.1307e+00    2.7052e+00    2.7530e+00
+8   test_image             0       3.1287e+01            2     [7, 9, 10, 11]        2.7443e+00         3.8223e-01 2.4149e+00    2.6535e+00    2.4707e+00
+9   test_image             0       5.5701e+00            2      [3, 4, 8, 10]        2.7309e+00         4.9010e-02 2.6526e+00    2.7379e+00    2.7495e+00
+10  test_image             0       3.8188e+01            2      [5, 8, 9, 11]        2.7864e+00         1.5142e-01 2.4451e+00    2.7710e+00    2.6967e+00
+11  test_image             0       4.5941e+00            2      [5, 7, 8, 10]        4.1266e+00         3.7134e-01 3.3511e+00    4.2387e+00    4.2387e+00
+0   test_image             1       3.7700e+01            2       [1, 2, 3, 6]        2.7733e+00         1.3491e-01 2.4451e+00    2.7690e+00    2.7142e+00
+1   test_image             1       2.2389e+02            2       [0, 2, 4, 9]        2.6966e+00         2.6111e-01 1.8203e+00    2.7314e+00    2.2744e+00
+2   test_image             1       5.0821e+00            2       [0, 1, 3, 4]        4.0290e+00         4.6381e-01 3.0770e+00    4.1850e+00    4.1850e+00
+3   test_image             1       3.1001e+01            2       [0, 2, 4, 6]        2.7462e+00         4.0205e-01 2.4439e+00    2.6516e+00    2.4439e+00
+4   test_image             1       3.1405e+01            2       [1, 2, 3, 9]        2.8423e+00         5.6226e-01 2.1307e+00    2.6942e+00    2.7530e+00
+5   test_image             1       1.4750e+02            2         [6, 7, 11]        2.6728e+00         2.9408e-01 1.2200e+00    2.7122e+00    2.9467e+00
+6   test_image             1       5.7723e+00            2       [0, 3, 5, 7]        2.7226e+00         5.1362e-02 2.6526e+00    2.7128e+00    2.7181e+00
+7   test_image             1       2.5682e+01            2         [5, 6, 11]        2.8513e+00         3.6310e-01 2.5354e+00    2.7618e+00    2.7705e+00
+8   test_image             1       2.7871e+01            2        [9, 10, 11]        2.7169e+00         1.7984e-01 2.5507e+00    2.6864e+00    2.6580e+00
+9   test_image             1       6.9504e+00            2      [1, 4, 8, 10]        3.6794e+00         5.9509e-01 2.6486e+00    3.8420e+00    3.8420e+00
+10  test_image             1       2.9370e+01            2         [8, 9, 11]        2.6403e+00         3.1060e-01 1.9935e+00    2.6483e+00    2.6828e+00
+11  test_image             1       2.5584e+00            2      [5, 7, 8, 10]        3.9748e+00         2.3924e-01 3.6041e+00    4.0751e+00    4.0751e+00

tests/tracing/_regtest_outputs/test_disordered_tracing.test_trace_image_disordered_dataframes[replication_intermediate].out

@@ -0,0 +1,15 @@
+        image  grain_number  grain_endpoints  grain_junctions  total_branch_lengths  grain_width_mean
+0  test_image             0                0               13            9.6852e-07        3.0318e-09
+         image  grain_number  branch_distance  branch_type connected_segments  mean_pixel_value  stdev_pixel_value  min_value  median_value  middle_value
+0   test_image             0       1.7269e+02            2       [1, 2, 3, 8]        2.1474e+00         1.8580e-01 1.4118e+00    2.1479e+00    2.1939e+00
+1   test_image             0       3.3804e+02            2      [0, 2, 7, 11]        2.1262e+00         1.8417e-01 1.1279e+00    2.1329e+00    2.2363e+00
+2   test_image             0       6.9014e-01            2       [0, 1, 3, 4]        3.5129e+00         2.4417e-01 3.2687e+00    3.5129e+00    3.5129e+00
+3   test_image             0       7.5415e+01            2       [0, 2, 4, 8]        2.1781e+00         2.2953e-01 1.4118e+00    2.1784e+00    2.2734e+00
+4   test_image             0       3.1893e+01            2       [2, 3, 5, 6]        2.1379e+00         3.3898e-01 1.7556e+00    2.0944e+00    2.2880e+00
+5   test_image             0       5.1517e+01            2          [4, 6, 7]        2.2339e+00         2.3611e-01 1.7265e+00    2.2070e+00    2.0221e+00
+6   test_image             0       1.1781e+00            2          [4, 5, 7]        3.4336e+00         2.9158e-01 3.0268e+00    3.5782e+00    3.6957e+00
+7   test_image             0       1.5383e+02            2      [1, 5, 6, 11]        2.1708e+00         2.3399e-01 1.3202e+00    2.1774e+00    2.1908e+00
+8   test_image             0       5.8754e+01            2     [0, 3, 10, 11]        2.0020e+00         3.3701e-01 8.8592e-01    2.0826e+00    2.2475e+00
+9   test_image             0       3.8962e+01            3               [10]        2.2736e+00         1.7805e-01 2.0016e+00    2.2595e+00    2.2033e+00
+10  test_image             0       4.8800e-01            2         [8, 9, 11]        2.8751e+00         9.8813e-03 2.8652e+00    2.8751e+00    2.8751e+00
+11  test_image             0       4.5069e+01            2      [1, 7, 8, 10]        2.1855e+00         2.2638e-01 1.2893e+00    2.2271e+00    2.2271e+00