import os, os.path installationDirectory = os.path.abspath(os.path.dirname(__file__)) whiskers = ['B1','B2','B3','C1','C2','C3','D1','D2','D3','E2'] cellLocations = ['B1border','B2border','B3border','C1border','C2center',\ 'C3border','D1border','D2border','D3border'] pythonScriptName = os.path.join(installationDirectory, 'evoked_network_param_from_template.py') locationBaseName = os.path.join(installationDirectory, 'connectome', 'control') locationFolderNames = {'B1border': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2_B1border_synapses_20150504-1602_10393',\ 'B2border': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2_B2border_synapses_20150504-2001_11709',\ 'B3border': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2_B3border_synapses_20150504-1959_11710',\ 'C1border': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2_C1border_synapses_20150504-1606_10377',\ 'C2center': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2center_synapses_20150504-1611_10389',\ 'C3border': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2_C3border_synapses_20150504-1602_10391',\ 'D1border': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2_D1border_synapses_20150504-1612_10395',\ 'D2border': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2_D2border_synapses_20150504-1629_10397',\ 'D3border': '86_L5_CDK20041214_nr3L5B_dend_PC_neuron_transform_registered_C2_D3border_synapses_20150504-1630_10399'} synParamName = os.path.join(installationDirectory, 'celltype_PSTH/ongoing_activity_celltype_template_exc_conductances_fitted.param') outPath = os.path.join(installationDirectory, 'evoked_activity/control/') fname = os.path.join(installationDirectory, 'install_control_model_step3.sh') outName = 'deflection_control_cell_location' with open(fname, 'w') as scriptFile: header = '#!/bin/bash\n\n' scriptFile.write(header) for cellLocation in cellLocations: for whisker in whiskers: line = 'python ' line += pythonScriptName line += ' ' line += synParamName line += ' ' line += os.path.join(locationBaseName, cellLocation, locationFolderNames[cellLocation], 'NumberOfConnectedCells.csv') line += ' ' line += os.path.join(locationBaseName, cellLocation, locationFolderNames[cellLocation], locationFolderNames[cellLocation]) line += '.syn' line += ' ' line += whisker # output name line += ' ' line += outPath line += whisker line += '_' line += outName line += '_' line += cellLocation line += '.param\n' scriptFile.write(line) # make sure file is also executable os.chmod(fname, 0777)