- Changed name to ethoscope_metadata_db of which server is just one feature

- Transition this to an installable package, independent of ethoscopy
- Adding an .export() function to metadata_db

Author: ggilestro

Dockerfile

@@ -14,9 +14,9 @@ RUN apt-get update && \
 RUN pip install bottle pandas
 
 WORKDIR /opt
-RUN git clone https://github.com/gilestrolab/ethoscope_metadata_server.git
+RUN git clone https://github.com/gilestrolab/ethoscope_metadata_db.git
 
-WORKDIR /opt/ethoscope_metadata_server
+WORKDIR /opt/ethoscope_metadata_db
 CMD ["python", "/opt/ethoscope_metadata_server/metadata_db_server.py", "--refresh", "--metadata", "/opt/ethoscope_metadata"]
 
 

ethoscope_metadata_db/__init__.py

@@ -22,7 +22,7 @@
 #  
 #  
 
-__version__ = 1.0
+__version__ = 1.1
 
 import pandas as pd
 import fnmatch
@@ -331,7 +331,27 @@ def save( self, project = None):
 
 
         return True
+
+    def export( self, filename, only_dbs=True, include_missing=False ):
+        '''
+        This is the export function that generates a txt file containing the list of db files
+
+        In the default behaviour, with only_dbs == True, the resulting text file can then be used
+        with rsync to copy all the files to a secondary folder, which is useful to upload to public repositories
+        '''
 
+        if include_missing:
+            dt = self.db_files
+        else:
+            dt = self.db_files.loc[~self.db_files.db_filename.isna()]
+
+        if only_dbs:
+            #Save to a txt file only the databases we have actually found
+            dt.db_filename.to_csv(filename, header=None, index=None)
+        else:
+            dt.to_csv(filename, index=None)
+            
+
 
 class metadata_crawler():
 

metadata_db.py ethoscope_metadata_db/metadata_db.py

@@ -0,0 +1,8 @@
+from setuptools import setup, find_packages
+
+setup(
+    name='ethoscope_metadata_db',
+    version='1.1',
+    packages=find_packages(),
+    # other metadata
+)