Index of group ./specifications/reporting

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information reporting on loaded models

1. Spine reporting for a passive morphology that was populated with active channels and spines
2. Delayed rectifier reporting for a passive morphology that was populated with active channels
3. Spines algorithm reporting for a passive morphology that was populated with active channels
4. Cumulated spiny dendrite length

1. Spine reporting for a passive morphology that was populated with active channels and spines

Startup command : bin/neurospaces /var/neurospaces/simulation_projects/purkinje-comparison/morphologies/genesis/gp_pc1.p --no-use-library --traversal-symbol / --spine Purk_spine --condition $d->{context} =~ m(segments/.{22}/head/par/exp)i

1.1. Are spines present ?

1. Expected output 
paths:
  - /gp_pc1/segments/p0b1b1[0]/Purk_spine_0/head/par/exp2
  - /gp_pc1/segments/p0b1b1[1]/Purk_spine_0/head/par/exp2
  - /gp_pc1/segments/p0b1b1[2]/Purk_spine_0/head/par/exp2
  - /gp_pc1/segments/p0b1b1[3]/Purk_spine_0/head/par/exp2
  - /gp_pc1/segments/p0b1b1[4]/Purk_spine_0/head/par/exp2
2. Comment
the condition forces to report only a few of the spines present.

2. Delayed rectifier reporting for a passive morphology that was populated with active channels

Startup command : bin/neurospaces /var/neurospaces/simulation_projects/purkinje-comparison/morphologies/genesis/gp_pc1.p --no-use-library --traversal-symbol / --shrinkage 1.1111111 --condition $d->{context} =~ m(kdr)i --reporting-fields G_MAX

2.1. Are delayed rectifier channels present ?

1. Expected output 
parameters:
  '/gp_pc1/segments/soma/kdr->G_MAX': 6000
  '/gp_pc1/segments/p0b1[0]/kdr->G_MAX': 600
  '/gp_pc1/segments/p0b1[1]/kdr->G_MAX': 600
  '/gp_pc1/segments/p0b1[2]/kdr->G_MAX': 600
  '/gp_pc1/segments/p0b1[3]/kdr->G_MAX': 600
  '/gp_pc1/segments/p0b1b2[0]/kdr->G_MAX': 600
  '/gp_pc1/segments/p0b1b2b2[0]/kdr->G_MAX': 600
  '/gp_pc1/segments/p0b1b2b2[1]/kdr->G_MAX': 600
  '/gp_pc1/segments/p0b1b2b2[2]/kdr->G_MAX': 600
  '/gp_pc1/segments/p0b1b2b2b2[0]/kdr->G_MAX': 600

3. Spines algorithm reporting for a passive morphology that was populated with active channels

Startup command : bin/neurospaces /var/neurospaces/simulation_projects/purkinje-comparison/morphologies/genesis/gp_pc2.p --no-use-library --shrinkage 1.1111111 --spine Purk_spine --algorithm Spines

3.1. Has the spines algorithm worked correctly ?

1. Expected output 
---
name: SpinesInstance Spines__0__Purk_spine
report:
    number_of_added_spines: 1444
    number_of_virtual_spines: 111513.676986
    number_of_spiny_segments: 1444
    number_of_failures_adding_spines: 0
    SpinesInstance_prototype: Purk_spine
    SpinesInstance_surface: 1.33079e-12
2. Comment
This test can suffer from arithmetic rounding

4. Cumulated spiny dendrite length

Startup command : bin/neurospaces /var/neurospaces/simulation_projects/purkinje-comparison/morphologies/genesis/gp_pc1.p --no-use-library --shrinkage 1.114 --traversal-symbol / --type ^T_sym_segment$ --reporting-fields LENGTH --condition $d->{context} !~ /Purk_spine/i --operator cumulate

4.1. What is the cumulated spiny dendrite length ?

1. Expected output 
cumulate:
  description: cumulated value
  final_value: 0.012075620569123