Compiling NEURON/Python
Posted: Sun Feb 15, 2015 9:51 pm
Hi all,
I have been using Matlab calls to run NEURON. While this works for small simulations, the amount of data overhead for our models has caused our run times to be off the scales for simulations. I'm hoping to run python and Neuron so that variables can be shared between NEURON and our control programs in Matlab(soon to be ported to Python). I'm following the procedure in Hines et al 2009 Frontiers paper on a Windows 8 with cygwin machine. When compiling neuron, I get the following error that I am not sure how to track:
Making all in e_editor
make[3]: Entering directory `C:/Users/Brandon/nrn-7.3/src/e_editor'
gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src/nrnoc -I../../src/oc -I../../src/parallel -I../../src/nrnjava -I../../src/nrncvode -I../../src/ivos -I../../src/sundials -I../../src/nrnpython -I../../src/oc -DPROGVERSION=\"ed-1.5\" -g -O2 -MT buffer.o -MD -MP -MF .deps/buffer.Tpo -c -o buffer.o buffer.c
gcc: fatal error: no input files
compilation terminated.
make[3]: *** [buffer.o] Error 1
make[3]: Leaving directory `C:/Users/Brandon/nrn-7.3/src/e_editor'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory `C:/Users/Brandon/nrn-7.3/src'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `C:/Users/Brandon/nrn-7.3'
make: *** [all] Error 2
Any help regarding this error or how to trace it would be much appreciated!
~Brandon
I have been using Matlab calls to run NEURON. While this works for small simulations, the amount of data overhead for our models has caused our run times to be off the scales for simulations. I'm hoping to run python and Neuron so that variables can be shared between NEURON and our control programs in Matlab(soon to be ported to Python). I'm following the procedure in Hines et al 2009 Frontiers paper on a Windows 8 with cygwin machine. When compiling neuron, I get the following error that I am not sure how to track:
Making all in e_editor
make[3]: Entering directory `C:/Users/Brandon/nrn-7.3/src/e_editor'
gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src/nrnoc -I../../src/oc -I../../src/parallel -I../../src/nrnjava -I../../src/nrncvode -I../../src/ivos -I../../src/sundials -I../../src/nrnpython -I../../src/oc -DPROGVERSION=\"ed-1.5\" -g -O2 -MT buffer.o -MD -MP -MF .deps/buffer.Tpo -c -o buffer.o buffer.c
gcc: fatal error: no input files
compilation terminated.
make[3]: *** [buffer.o] Error 1
make[3]: Leaving directory `C:/Users/Brandon/nrn-7.3/src/e_editor'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory `C:/Users/Brandon/nrn-7.3/src'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `C:/Users/Brandon/nrn-7.3'
make: *** [all] Error 2
Any help regarding this error or how to trace it would be much appreciated!
~Brandon