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Human-L2-3-Cortical-Microcircuit
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Human-L2-3-C...
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NeuroML2
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channels
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analyse_channels.sh

analyse_channels.sh 2.3 KB
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  1. # CaDynamics.mod  Ca_LVA.mod  Gfluct.mod  Im.mod   K_T.mod    Nap.mod   NMDA.mod          ProbUDFsyn.mod  tonic.mod
    2. 

  2. # Ca_HVA.mod      epsp.mod    Ih.mod      K_P.mod  Kv3_1.mod  NaTg.mod  ProbAMPANMDA.mod  SK.mod
    3. 

  3. #
    4. 

  4. echo "Compiling mod files"
    5. 

  5. nrnivmodl .
    6. 

  6. 

  7. parallel_run() {
    8. 

  8.     parallel -j $1 --\
    9. 

  9.         "pynml-channelanalysis SK.channel.nml -stepTargetVoltage 5 -temperature 6.3 -v"\
    10. 

  10.         "pynml-channelanalysis Kv3_1.channel.nml -stepTargetVoltage 5 -temperature 6.3"\
    11. 

  11.         "pynml-channelanalysis NaTg.channel.nml -stepTargetVoltage 5 -temperature 6.3"\
    12. 

  12.         "pynml-channelanalysis Nap.channel.nml -stepTargetVoltage 5 -temperature 6.3 -duration 20000"\
    13. 

  13.         "pynml-channelanalysis K_P.channel.nml -stepTargetVoltage 5 -temperature 6.3"\
    14. 

  14.         "pynml-channelanalysis K_T.channel.nml -stepTargetVoltage 5 -temperature 6.3"\
    15. 

  15.         "pynml-channelanalysis Ca_HVA.channel.nml -stepTargetVoltage 5 -temperature 6.3"\
    16. 

  16.         "pynml-channelanalysis Ca_LVA.channel.nml -stepTargetVoltage 5 -temperature 6.3"\
    17. 

  17.         "pynml-channelanalysis Ih.channel.nml -stepTargetVoltage 5 -temperature 6.3"\
    18. 

  18.         "pynml-channelanalysis Im.channel.nml -stepTargetVoltage 5 -temperature 6.3"
    19. 

  19. 

  20. }
    21. 

  21. 

  22. serial_run () {
    23. 

  23.     pynml-channelanalysis SK.channel.nml -stepTargetVoltage 5 -temperature 6.3 -v
    24. 

  24.     pynml-channelanalysis Kv3_1.channel.nml -stepTargetVoltage 5 -temperature 6.3
    25. 

  25.     pynml-channelanalysis NaTg.channel.nml -stepTargetVoltage 5 -temperature 6.3
    26. 

  26.     pynml-channelanalysis Nap.channel.nml -stepTargetVoltage 5 -temperature 6.3 -duration 20000
    27. 

  27.     pynml-channelanalysis K_P.channel.nml -stepTargetVoltage 5 -temperature 6.3
    28. 

  28.     pynml-channelanalysis K_T.channel.nml -stepTargetVoltage 5 -temperature 6.3
    29. 

  29.     pynml-channelanalysis Ca_HVA.channel.nml -stepTargetVoltage 5 -temperature 6.3
    30. 

  30.     pynml-channelanalysis Ca_LVA.channel.nml -stepTargetVoltage 5 -temperature 6.3
    31. 

  31.     pynml-channelanalysis Ih.channel.nml -stepTargetVoltage 5 -temperature 6.3
    32. 

  32.     pynml-channelanalysis Im.channel.nml -stepTargetVoltage 5 -temperature 6.3
    33. 

  33. }
    34. 

  34. 

  35. echo "Analysing mod files"
    36. 

  36. 

  37. #serial_run
    38. 

  38. 

  39.     #pynml-channelanalysis Ca_HVA.channel.nml -stepTargetVoltage 5 -temperature 6.3
    40. 

  40.     pynml-channelanalysis Kv3_1.channel.nml -stepTargetVoltage 5 -temperature 6.3
    41. 

  41. ## if gnu parallel is available, use the parallel run, argument is number of parallel jobs:
    42. 

  42. # parallel_run 6
    43.