The code now runs!

Hjorthmedh · Nov 1, 2024 · d54c760 · d54c760
1 parent 43aef92
commit d54c760
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Showing 3 changed files with 5 additions and 3 deletions.
diff --git a/snudda/synaptic_fitting/neuron_set.json b/snudda/synaptic_fitting/neuron_set.json
@@ -8,4 +8,4 @@
         "baseline_voltage": -0.08,
         "holding_current": 4.569500333673204e-10
     }
-}
+}
diff --git a/snudda/synaptic_fitting/optimiseFullOnlyOne.sh b/snudda/synaptic_fitting/optimiseFullOnlyOne.sh
@@ -16,7 +16,8 @@ fi
 ipcluster start --profile=$IPYTHON_PROFILE --ip=127.0.0.1&
 sleep 20
 
-python3 optimise_synapses_full.py ../data/synapses/example_data/10_MSN12_GBZ_CC_H20.json --synapseParameters ../data/synapses/example_data/M1LH-contra_dSPN.json --compile
+echo "Increase nTrials from 2 to a higher number for a proper optimisation"
+python3 optimise_synapses_full.py ../data/synapses/example_data/10_MSN12_GBZ_CC_H20.json --synapseParameters ../data/synapses/example_data/M1LH-contra_dSPN.json --compile --nTrials 2
 
 ipcluster stop
 

diff --git a/snudda/synaptic_fitting/optimise_synapses_full.py b/snudda/synaptic_fitting/optimise_synapses_full.py
@@ -1406,6 +1406,7 @@ def plot_debug_pars(self):
     parser.add_argument("--compile", action="store_true", help="Compile NEURON modules")
 
     parser.add_argument("--data", help="Snudda data directory")
+    parser.add_argument("--nTrials", help="Number of trials", default=2)
 
     args = parser.parse_args()
 
@@ -1479,4 +1480,4 @@ def plot_debug_pars(self):
 
         sys.exit(0)
 
-    ly.parallel_optimise_single_cell(n_trials=2)
+    ly.parallel_optimise_single_cell(n_trials=args.nTrials)
-Original file line number
+Diff line change
@@ Expand Up / @@ -8,4 +8,4 @@ @@
             "baseline_voltage": -0.08,
             "holding_current": 4.569500333673204e-10
         }
-    }
+    }