fixes imports after source files moved to imlib (#85)

brainglobe · Apr 15, 2020 · fb6e1c4 · fb6e1c4
1 parent 5471bb9
commit fb6e1c4
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Showing 5 changed files with 5 additions and 22 deletions.
diff --git a/cellfinder/analyse/group/region_summary.py b/cellfinder/analyse/group/region_summary.py
@@ -4,7 +4,7 @@
 import pandas as pd
 from imlib.general.list import remove_empty_string, unique_elements_lists
 
-from cellfinder.tools.source_files import get_structures_path
+from imlib.source.source_files import get_structures_path
 
 
 def structure_name_to_id(structure_name, reference_structures_table):

diff --git a/cellfinder/summarise/count_summary.py b/cellfinder/summarise/count_summary.py
@@ -22,7 +22,7 @@
 
 import cellfinder.tools.parser as cellfinder_parse
 from cellfinder.tools.prep import prep_atlas_conf, Paths
-from cellfinder.tools.source_files import get_structures_path
+from imlib.source.source_files import get_structures_path
 
 LEFT_HEMISPHERE = 2
 RIGHT_HEMISPHERE = 1

diff --git a/cellfinder/tools/source_files.py b/cellfinder/tools/source_files.py
diff --git a/cellfinder/utils/generate_region_volume.py b/cellfinder/utils/generate_region_volume.py
@@ -8,8 +8,8 @@
 from imlib.image.scale import scale_and_convert_to_16_bits
 from imlib.image import nii
 
-from cellfinder.tools.source_files import source_custom_config
-from cellfinder.tools.source_files import get_structures_path
+from imlib.source.source_files import source_custom_config_cellfinder
+from imlib.source.source_files import get_structures_path
 from cellfinder.analyse.group.region_summary import get_substructures
 
 

diff --git a/cellfinder/utils/xml_crop.py b/cellfinder/utils/xml_crop.py
@@ -8,7 +8,7 @@
 import cellfinder.summarise.count_summary as cells_regions
 from imlib.IO.cells import cells_to_xml
 from cellfinder.tools.prep import prep_atlas_conf
-from cellfinder.tools.source_files import get_structures_path
+from imlib.source.source_files import get_structures_path
 from imlib.IO.structures import load_structures_as_df