def analyze_batch(batchLabel, batchdatadir=batchdatadir):
params, data = batch_utils.load_batch(batchLabel,
batchdatadir=batchdatadir)
batch = (batchLabel, params, data)
batch_analysis.plot_batch_raster(batch,
timeRange=[100, 1000],
markerSize=0.5,
orderInverse=False)
batch_analysis.plot_vtraces(batch, timerange=[100, 1000])
def plot_all():
for batch in batches1D:
print("Analyzing 1D batch: " + batch)
batch_analysis.plot_vtraces_multicell(batch, celllabel="pop")
try:
#batch_analysis.plot_plat_comps(batch, cellIDs=None, expdata=True)
batch_analysis.plot_plat_comps(batch, cellIDs="all", expdata=True)
except:
print("There was an error executing plot_plat_comps on batch: " +
batch)
if "glutAmp" in batch:
batch_analysis.plot_antic_plateaus(batch)
for batch in batches2D:
print("Analyzing 2D batch: " + batch)
batch_analysis.plot_vtraces(batch)
if "bap" in batch:
batch_analysis.plot_baps(batch, section=bap_branch)
'allocation': allocation,
'walltime': '00:30:00',
'nodes': 4,
'coresPerNode': 48,
'email': '*****@*****.**',
'folder': runFolder,
'script': 'init.py',
'mpiCommand': 'ibrun',
'skip': True,
'custom': '#SBATCH -p skx-normal'
}
elif runType == 'mpi_bulletin':
b.runCfg = {'type': 'mpi_bulletin', 'script': 'init.py', 'skip': True}
else:
raise Exception(
"Problem in batch file: runType must be either 'hpc_slurm' or 'mpi_bulletin'."
)
# Run batch simulations
b.run()
# Main code
if __name__ == '__main__':
batchRun()
import batch_analysis as ba
ba.plot_vtraces(batchLabel)
#batch = ba.plot_vtraces(batchLabel, batchdatadir=saveFolder, outputdir=os.path.join(saveFolder, b.batchLabel))
'email': '*****@*****.**',
'folder': runFolder,
'script': 'init.py',
'mpiCommand': 'ibrun',
'skip': True,
'custom': '#SBATCH -p skx-normal'
}
elif runType == 'mpi_bulletin':
if not os.path.isdir('data'):
os.mkdir('data')
b.saveFolder = 'data/' + b.batchLabel
b.runCfg = {'type': 'mpi_bulletin', 'script': 'init.py', 'skip': True}
else:
raise Exception(
"Problem in batch file: runType must be either 'hpc_slurm' or 'mpi_bulletin'."
)
# Run batch simulations
b.run()
# Main code
if __name__ == '__main__':
batchRun()
import batch_analysis as ba
batch = ba.plot_vtraces(batchLabel,
batchdatadir=saveFolder,
outputdir=saveFolder + batchLabel)
'custom': '#SBATCH -p skx-normal'
}
elif runType == 'mpi_bulletin':
b.runCfg = {'type': 'mpi_bulletin', 'script': 'init.py', 'skip': True}
else:
raise Exception(
"Problem in batch file: runType must be either 'hpc_slurm' or 'mpi_bulletin'."
)
# Run batch simulations
b.run()
return batchLabel
# Main code
if __name__ == '__main__':
batchLabel = batchRun(params)
import batch_analysis as bp
loadedBatch = bp.plot_vtraces(batchLabel)
out = bp.plot_traces(loadedBatch, ['iNa_soma', 'iK_soma', 'iL_soma'],
cellIDs=[0, 100, 200],
param_labels=None,
title=None,
filename=None,
save=True,
outputdir=None)
os.system("say 'batch completed'")