Merge pull request #30 from ttngu207/chronic_and_acute

chronic and acute probe insertions as different python modules

Author: kabilar

Dockerfile

@@ -5,9 +5,9 @@ ARG PKG_NAME
 ARG PKG_VERSION
 
 FROM datajoint/${IMAGE}:py${PY_VER}-${DISTRO}
-COPY --chown=dja:anaconda ./requirements.txt ./setup.py \
+COPY --chown=anaconda:anaconda ./requirements.txt ./setup.py \
     /main/
-COPY --chown=dja:anaconda ./${PKG_NAME} /main/${PKG_NAME}
+COPY --chown=anaconda:anaconda ./${PKG_NAME} /main/${PKG_NAME}
 RUN \
     cd /main && \
     pip install . && \

element_array_ephys/__init__.py

@@ -1,5 +1,7 @@
 import datajoint as dj
 import pathlib
+import uuid
+import hashlib
 
 
 dj.config['enable_python_native_blobs'] = True
@@ -54,3 +56,14 @@ def find_root_directory(root_directories, full_path):
     except StopIteration:
         raise FileNotFoundError('No valid root directory found (from {})'
                                 ' for {}'.format(root_directories, full_path))
+
+
+def dict_to_uuid(key):
+    """
+    Given a dictionary `key`, returns a hash string as UUID
+    """
+    hashed = hashlib.md5()
+    for k, v in sorted(key.items()):
+        hashed.update(str(k).encode())
+        hashed.update(str(v).encode())
+    return uuid.UUID(hex=hashed.hexdigest())

element_array_ephys/ephys.py

@@ -3,12 +3,10 @@
 import re
 import numpy as np
 import inspect
-import uuid
-import hashlib
 import importlib
 
 from .readers import spikeglx, kilosort, openephys
-from . import probe, find_full_path, find_root_directory
+from . import probe, find_full_path, find_root_directory, dict_to_uuid
 
 schema = dj.schema()
 
@@ -481,8 +479,8 @@ class CuratedClustering(dj.Imported):
 
     class Unit(dj.Part):
         definition = """   
-        -> master
         # Properties of a given unit from a round of clustering (and curation)
+        -> master
         unit: int
         ---
         -> probe.ElectrodeConfig.Electrode  # electrode with highest waveform amplitude for this unit
@@ -746,13 +744,3 @@ def generate_electrode_config(probe_type: str, electrodes: list):
 
     return electrode_config_key
 
-
-def dict_to_uuid(key):
-    """
-    Given a dictionary `key`, returns a hash string as UUID
-    """
-    hashed = hashlib.md5()
-    for k, v in sorted(key.items()):
-        hashed.update(str(k).encode())
-        hashed.update(str(v).encode())
-    return uuid.UUID(hex=hashed.hexdigest())