From 8402cc01114db2cf87fad7aa388c449818dc2ff4 Mon Sep 17 00:00:00 2001
From: Tom Gillespie <tgbugs@gmail.com>
Date: Fri, 28 Aug 2020 01:02:52 -0700
Subject: [PATCH] neurondm update model relative_path calls to handle no repo
 case

---
 neurondm/neurondm/models/allen_cell_types.py | 4 +++-
 neurondm/neurondm/models/bolew.py            | 3 ++-
 neurondm/neurondm/models/keast2020.py        | 2 +-
 neurondm/neurondm/models/ma2015.py           | 5 +++--
 4 files changed, 9 insertions(+), 5 deletions(-)

diff --git a/neurondm/neurondm/models/allen_cell_types.py b/neurondm/neurondm/models/allen_cell_types.py
index 72551390..c2647e64 100755
--- 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
index 20d1dc70..e8b03ebe 100755
--- 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
index 0d9dd16e..c782a764 100755
--- 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
index f0655e04..3f6643fe 100755
--- 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,