neurondm update model relative_path calls to handle no repo case

tgbugs · Aug 28, 2020 · 8402cc0 · 8402cc0
1 parent fc5c154
commit 8402cc0
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Showing 4 changed files with 9 additions and 5 deletions.
diff --git a/neurondm/neurondm/models/allen_cell_types.py b/neurondm/neurondm/models/allen_cell_types.py
@@ -240,7 +240,9 @@ def make_config(self):
                              prefixes=self.prefixes,
                              branch=self.branch,
                              sources=tuple(),  # TODO insert the link to the query...
-                             source_file=relative_path(__file__))
+                             source_file=relative_path(
+                                 __file__,
+                                 no_wd_value=__file__))
 
     def build_neurons(self):
         instances = []

diff --git a/neurondm/neurondm/models/bolew.py b/neurondm/neurondm/models/bolew.py
@@ -72,7 +72,8 @@ class BolserLewisNeuron(NeuronEBM):
 
 def main():
     a = APIN()
-    config = Config('bolser-lewis', source_file=relative_path(__file__))
+    config = Config('bolser-lewis',
+                    source_file=relative_path(__file__, no_wd_value=__file__))
     bags = list(a.bags)
     for label, bag in bags:
         BolserLewisNeuron(*bag, label=label, override=True)

diff --git a/neurondm/neurondm/models/keast2020.py b/neurondm/neurondm/models/keast2020.py
@@ -147,7 +147,7 @@ def syn_chain_axons_in(syn_index, soma_index):
 def main():
     from pyontutils.utils import relative_path
     config = Config('keast-2020',
-                    source_file=relative_path(__file__),)
+                    source_file=relative_path(__file__, no_wd_value=__file__))
     with Keast2020:
         needs_keast_namespace()
 

diff --git a/neurondm/neurondm/models/ma2015.py b/neurondm/neurondm/models/ma2015.py
@@ -164,10 +164,11 @@ def _end(self):
 def main():
     import csv
     from neurondm.core import auth
-    with open((auth.get_path('resources') / '26451489 table 1.csv').as_posix(), 'rt') as f:
+    with open(auth.get_path('resources') / '26451489 table 1.csv', 'rt') as f:
         rows = [list(r) for r in zip(*csv.reader(f))]
 
-    config = Config('markram-2015', source_file=relative_path(__file__))
+    config = Config('markram-2015',
+                    source_file=relative_path(__file__, no_wd_value=__file__))
     table1(rows)
     return config,