More testing

test/test8_PyNutil_bigcaudoputamen.json

 {
   "volume_path": "allen2017",
   "label_path": "PyNutil/annotation_volumes/allen2017_colours.csv",
-  "segmentation_folder": "PyNutil/test_data/PyTest_seg",
+  "segmentation_folder": "PyNutil/test_data/PyTest_bigcaudoputamen_seg",
   "alignment_json": "PyNutil/test_data/PyNutil_testdataset_Nonlin_SY_fixed_bigcaudoputamen.json",
   "nonlinear": true,
   "colour": [0, 0, 0],

testOOP.py

@@ -2,7 +2,7 @@ from PyNutil import PyNutil
 import os
 
 os.chdir("..")
-pnt = PyNutil(settings_file=r"PyNutil/test/test9_PyNutil_linear_only.json")
+pnt = PyNutil(settings_file=r"PyNutil/test/test8_PyNutil_bigcaudoputamen.json")
 
 ##Use flat can be set to True if you want to use the flat file
 # instead of the visualign json (this is only useful for testing and will be removed)
@@ -10,7 +10,7 @@ pnt.get_coordinates(object_cutoff=0, use_flat=False)
 
 pnt.quantify_coordinates()
 
-pnt.save_analysis("PyNutil/outputs/test9_PyNutil_linear_noflat")
+pnt.save_analysis("PyNutil/outputs/test8_PyNutil_bigcaudoputamen_noflat_fix")
 
 # remove name, r, g, b, from pixel_
 # add to region_areas df