From 72e6377ae14170cdc3f7a0d1fa6d2722d277781b Mon Sep 17 00:00:00 2001 From: kael Date: Wed, 28 Nov 2018 06:29:30 -0800 Subject: [PATCH 1/2] Updating documentation to be more explicit in simulation block --- docs/SONATA_DEVELOPER_GUIDE.md | 3 +-- 1 file changed, 1 insertion(+), 2 deletions(-) diff --git a/docs/SONATA_DEVELOPER_GUIDE.md b/docs/SONATA_DEVELOPER_GUIDE.md index c7a2b5a..5315329 100644 --- a/docs/SONATA_DEVELOPER_GUIDE.md +++ b/docs/SONATA_DEVELOPER_GUIDE.md @@ -846,7 +846,7 @@ The "run" block specifies some global parameters of the simulation run, such as ### Conditions Configuration -This block specifies optional global parameters with reserved meaning associated with manipulation of the "in silico preparation". +This block specifies optional global parameters with reserved meaning associated with manipulation of the "in silico preparation".dsff Example: @@ -1379,4 +1379,3 @@ Allen folks to fill in For the case that the model_template follows the *bmtk* schema, the following is the expected structure of the hoc template. Allen folks to fill in - From b464e0ae68b1ab5d4ad711fc6007c077444b968d Mon Sep 17 00:00:00 2001 From: kael Date: Wed, 28 Nov 2018 07:57:21 -0800 Subject: [PATCH 2/2] Updating table --- docs/SONATA_DEVELOPER_GUIDE.md | 55 +++++++++++++++++++++++++++++++++- 1 file changed, 54 insertions(+), 1 deletion(-) diff --git a/docs/SONATA_DEVELOPER_GUIDE.md b/docs/SONATA_DEVELOPER_GUIDE.md index 5315329..fa76ba1 100644 --- a/docs/SONATA_DEVELOPER_GUIDE.md +++ b/docs/SONATA_DEVELOPER_GUIDE.md @@ -844,9 +844,62 @@ The "run" block specifies some global parameters of the simulation run, such as "spike_threshold": -15, }, + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
KeyDescriptionTypeRequiredDefault
tstartStart time of the simulation.floatFalse0.0
tstopStop time of the simulation.floatTrue
dtTime step size.floatTrue
dLFor compartmental cell models, used to define the minimum segment size of each given section. For a section of length L > dL, the section will be partitioned into 1 + 2 \* int(section.L / (2\*dL)) segments.floatFalse
spike_thresholdThe default membrane potential value at which it can be assumed an action potential can be recorded.floatFalse
block_step_sizeUsed by the simulator to determine after how many time steps should it save the simulation and results (assume such behavior is available).intFalse
+ + ### Conditions Configuration -This block specifies optional global parameters with reserved meaning associated with manipulation of the "in silico preparation".dsff +This block specifies optional global parameters with reserved meaning associated with manipulation of the "in silico preparation". Example: