1. Commands for a simple simulation of the purkinje cell model |
2. Commands for an interactive simulation of the purkinje cell model |
1. Expected output | GENESIS 3 shell |
1. Executed command | library_show |
2. Expected output | ndf_library: .: - algorithm_data/ - cells/ - channels/ - chemesis/ - contours/ - conversions/ - descriptor.yml - event_data/ - examples/ - fibers/ - gates/ - legacy/ - mappers/ - morphologies/ - networks/ - pools/ - populations/ - projectionqueries/ - projections/ - pulsegen/ - segments/ - tests/ - utilities/ |
1. Executed command | library_show ndf cells |
2. Expected output | ndf_library: cells: - BDK5cell2-nolib.ndf - RScell-nolib.ndf - cell1.ndf - izhikevich.ndf - purkinje/ - simplecell-nolib.ndf - stand_alone.ndf - traub91-nolib.ndf - traub94-nolib.ndf - traub95-nolib.ndf |
1. Executed command | library_show ndf cells/purkinje |
2. Expected output | ndf_library: cells/purkinje: - edsjb1994.ndf - edsjb1994_dendrogram.ndf - edsjb1994_partitioned.ndf - edsjb1994_passive.ndf - edsjb1994_spinesurface.ndf |
1. Executed command | ndf_load cells/purkinje/edsjb1994.ndf |
2. Expected output |
1. Executed command | list_elements |
2. Expected output | - /Purkinje |
1. Executed command | list_elements /Purkinje |
2. Expected output | - /Purkinje/SpinesNormal_13_1 - /Purkinje/segments |
1. Executed command | ndf_load cells/purkinje/edsjb1994_partitioned.ndf |
2. Expected output |
1. Executed command | list_elements |
2. Expected output | - /Purkinje |
1. Executed command | list_elements /Purkinje |
2. Expected output | - /Purkinje/SpinesNormal_13_1 - /Purkinje/segments |
1. Executed command | list_elements /Purkinje/segments |
2. Expected output | - /Purkinje/segments/soma - /Purkinje/segments/main - /Purkinje/segments/branches - /Purkinje/segments/branchlets |
1. Executed command | ce /Purkinje/segments/soma |
2. Expected output |
1. Executed command | pwe |
2. Expected output | /Purkinje/segments/soma |
1. Executed command | parameter_show . CM |
2. Expected output | value = 0.0164 |
1. Executed command | model_parameter_show |
2. Expected output | - 'parameter name': rel_X type: number value: 0 - 'parameter name': rel_Y type: number value: 0 - 'parameter name': rel_Z type: number value: 0 - 'parameter name': DIA type: number value: 2.98e-05 - 'parameter name': Vm_init type: number value: -0.068 - 'parameter name': RM type: number value: 1 - 'parameter name': RA type: number value: 2.5 - 'parameter name': CM type: number value: 0.0164 - 'parameter name': ELEAK type: number value: -0.08 |
1. Executed command | model_parameter_show cat |
2. Expected output | - 'parameter name': G_MAX type: number value: 5 - 'parameter name': Erev type: function 'function name': NERNST 'function parameters': - 'parameter name': Cin 'field name': concen type: field value: ../ca_pool->concen 'resolved value': /Purkinje/segments/soma/ca_pool->concen - 'parameter name': Cout type: number value: 2.4 - 'parameter name': valency 'field name': VAL type: field value: ../ca_pool->VAL 'resolved value': /Purkinje/segments/soma/ca_pool->VAL - 'parameter name': T type: number value: 37 |
1. Executed command | list_elements /Purkinje/segments/main |
2. Expected output | - /Purkinje/segments/main/main[0] - /Purkinje/segments/main/main[1] - /Purkinje/segments/main/main[2] - /Purkinje/segments/main/main[3] - /Purkinje/segments/main/main[4] - /Purkinje/segments/main/main[5] - /Purkinje/segments/main/main[6] - /Purkinje/segments/main/main[7] - /Purkinje/segments/main/main[8] |
1. Executed command | list_elements /Purkinje/segments/branches |
2. Expected output | - /Purkinje/segments/branches/br1 - /Purkinje/segments/branches/br2 - /Purkinje/segments/branches/br3 |
1. Executed command | list_elements /Purkinje/segments/branchlets |
2. Expected output | - /Purkinje/segments/branchlets/b0s01 - /Purkinje/segments/branchlets/b0s02 - /Purkinje/segments/branchlets/b0s03 - /Purkinje/segments/branchlets/b0s04 - /Purkinje/segments/branchlets/b1s05 - /Purkinje/segments/branchlets/b1s06 - /Purkinje/segments/branchlets/b1s07 - /Purkinje/segments/branchlets/b1s08 - /Purkinje/segments/branchlets/b1s09 - /Purkinje/segments/branchlets/b1s10 - /Purkinje/segments/branchlets/b1s11 - /Purkinje/segments/branchlets/b1s12 - /Purkinje/segments/branchlets/b1s13 - /Purkinje/segments/branchlets/b1s14 - /Purkinje/segments/branchlets/b1s15 - /Purkinje/segments/branchlets/b1s16 - /Purkinje/segments/branchlets/b1s17 - /Purkinje/segments/branchlets/b1s18 - /Purkinje/segments/branchlets/b1s19 - /Purkinje/segments/branchlets/b1s20 - /Purkinje/segments/branchlets/b2s21 - /Purkinje/segments/branchlets/b2s22 - /Purkinje/segments/branchlets/b2s23 - /Purkinje/segments/branchlets/b2s24 - /Purkinje/segments/branchlets/b2s25 - /Purkinje/segments/branchlets/b2s26 - /Purkinje/segments/branchlets/b2s27 - /Purkinje/segments/branchlets/b2s28 - /Purkinje/segments/branchlets/b2s29 - /Purkinje/segments/branchlets/b2s30 - /Purkinje/segments/branchlets/b2s31 - /Purkinje/segments/branchlets/b2s32 - /Purkinje/segments/branchlets/b2s33 - /Purkinje/segments/branchlets/b2s34 - /Purkinje/segments/branchlets/b3s35 - /Purkinje/segments/branchlets/b3s36 - /Purkinje/segments/branchlets/b3s37 - /Purkinje/segments/branchlets/b3s38 - /Purkinje/segments/branchlets/b3s39 - /Purkinje/segments/branchlets/b3s40 - /Purkinje/segments/branchlets/b3s41 - /Purkinje/segments/branchlets/b3s42 - /Purkinje/segments/branchlets/b3s43 - /Purkinje/segments/branchlets/b3s44 - /Purkinje/segments/branchlets/b3s45 - /Purkinje/segments/branchlets/b3s46 |
1. Executed command | run /Purkinje 0.001 |
2. Expected output |
1. Executed command | sh ls -l /tmp/ |
2. Expected output | output |
1. Executed command | sh cat /tmp/output |
2. Expected output | 0.001 -0.0678441 |
3. Comment | only testing the last line of output |
1. Expected output | GENESIS 3 shell |
1. Executed command | ndf_load cells/purkinje/edsjb1994_partitioned.ndf |
2. Expected output |
1. Executed command | list_elements |
2. Expected output | - /Purkinje |
1. Executed command | list_elements /Purkinje |
2. Expected output | - /Purkinje/SpinesNormal_13_1 - /Purkinje/segments |
1. Executed command | run /Purkinje 0.001 |
2. Expected output |
1. Executed command | sh ls -l /tmp/ |
2. Expected output | output |
1. Executed command | sh cat /tmp/output |
2. Expected output | 0.001 -0.0678441 |
3. Comment | only testing the last line of output |
1. Executed command | runtime_parameter_add /Purkinje/segments/soma INJECT 2e-9 |
2. Expected output |
1. Executed command | run /Purkinje 0.001 |
2. Expected output |
1. Executed command | sh cat /tmp/output |
2. Expected output | 0.002 -0.0586612 |
3. Comment | only testing the last line of output |