Skip to content

Commit

Permalink
patch-seq-dascale.dot: Adapt it
Browse files Browse the repository at this point in the history
  • Loading branch information
@t-b
t-b committed Jan 27, 2025
1 parent 7e34e7a commit eaa0825
Showing 1 changed file with 57 additions and 23 deletions.
80 changes: 57 additions & 23 deletions Packages/doc/dot/patch-seq-dascale.dot
View file
Original file line number Diff line number Diff line change
Expand Up @@ -120,15 +120,19 @@ than MaxFrequencyChangePercent.\n If this is not the case we add DAScale values
n77 -> n72 [label=No];
n86 [label="Mark sweep as passed"];
n77 -> n86;
n86 -> "Calculate TP-like properties\nand store them in the\nlabnotebook" [label=Supra];
n86 -> "Search for spikes\n(x range: pulse onset to end of pulse\ny condition: max above 0.01mV)" [label=Sub];
n94 -> n104;
n95 [label="Fit the last two AP frequency\n and DAScale data from RhSuAd plus this SCI\n (reordered so that we fit the correct neighbours)\nignoring \
entries with the same AP frequency\n as their right neighbour"];
n104 -> n95 [label=Yes];
"Enable \"Repeated Acquisition\"" -> "Enable \"Insert TP\"";
"Check if only one headstage is active" -> "All checks passed";
"Check RMS long" -> "Add BL QC failed labnotebook entry" [label=Failed];
"Check RMS long" -> "Check target voltage [1]" [label=Passed];
"Add BL QC failed labnotebook entry" -> "Early Sweep stop";
"Mark chunk as passed/failed [2]" -> "Grab next completely acquired chunk\n(500ms) of stimset baseline" [label=Failed];
"Mark chunk as passed/failed [2]" -> "Add BL QC passed labnotebook entry" [label=Passed];
n86 -> "Calculate TP-like properties\nand store them in the\nlabnotebook" [label=Supra];
n86 -> "Search for spikes\n(x range: pulse onset to end of pulse\ny condition: max above 0.01mV)" [label=Sub];
"Calculate TP-like properties\nand store them in the\nlabnotebook" -> "Check if $NUM_DA_SCALES\nsweeps passed from RA cycle";
"Calculate TP-like properties\nand store them in the\nlabnotebook" -> "Optional parameter ShowPlot\nis true or missing";
"Search for spikes\n(x range: pulse onset to end of pulse\ny condition: max above 0.01mV)" -> "Write number of spikes\ninto labnotebook";
Expand Down Expand Up @@ -164,23 +168,26 @@ than MaxFrequencyChangePercent.\n If this is not the case we add DAScale values
n133 [label="Add all passing sweeps from the previous SCI\n if all of the following conditions are met:\n- DAScale adaptive suprathreshold was \
run\n- failing set QC\n-all analysis parameters are the same\n- same targetV autobias value"];
n110 -> n133 [label=Found];
n94 -> n104;
n95 [label="Fit the last two AP frequency\n and DAScale data from RhSuAd plus this SCI\n ignoring entries with the same AP frequency\n as their \
right neighbour"];
n104 -> n95 [label=Yes];
"Use the DAScale value of that sweep\n as offset to the DAScale values from the analysis parameters" -> "Use first DAScale value";
n134 [label="Store list of passing RhSuAd sweeps\n in the labnotebook"];
n133 -> n134;
n122 -> "Skip to end of active set";
"Spike count relative to\nMin and Max?" -> "Use next DAScale value" [label="In-between"];
"Spike count relative to\nMin and Max?" -> "Adapt DAScale\n by a factor of 1 - Modifier" [label=Above];
"Spike count relative to\nMin and Max?" -> "Adapt DAScale\n by a factor of 1 + Modifier" [label=Below];
"Create spike frequency vs DAScale (fI) data\nand peform linear regression" -> "Optional parameter ShowPlot\nis true or missing";
"Create spike frequency vs DAScale (fI) data\nand peform linear regression" -> "Write fI-Slope into labnotebook";
"Use the DAScale value of that sweep\n as offset to the DAScale values from the analysis parameters" -> "Use first DAScale value";
n124 [label="Also add passing sweeps from\n the previous \"FailingAdaptiveSCIRange\" SCIs\n which ran DAScale in adaptive mode\n and had failing \
set QC"];
n133 -> n124;
n97 [label="Write fit slope and offset to the labnotebook"];
n95 -> n97 [label="Sucess?"];
n98 [label="Mark the fit slope as invalid in the labnotebook"];
n95 -> n98 [label="Failure?"];
n134 [label="Store list of passing RhSuAd sweeps\n in the labnotebook"];
n114 [label="Gather AP frequency and DAScale data\n from all RhSuAd sweeps\n but using the adaptive E1 epoch length for evaluations"];
n134 -> n114;
"Adapt DAScale\n by a factor of 1 - Modifier" -> "Use next DAScale value";
"Adapt DAScale\n by a factor of 1 + Modifier" -> "Use next DAScale value";
"Write fI-Slope into labnotebook" -> "Optional FinalSlopePercent\nparameter present?";
n114 [label="Gather AP frequency and DAScale data\n from all RhSuAd sweeps\n but using the adaptive E1 epoch length for evaluations"];
n134 -> n114;
"Optional FinalSlopePercent\nparameter present?" -> "Add labnotebook entry if the\ndesired fI-Slope was reached or not" [label=Yes];
n116 [label="Store frequency and DAScale data\n in the labnotebook"];
n114 -> n116;
Expand All @@ -189,15 +196,14 @@ right neighbour"];
n117 -> Abort [label=Failure];
n118 [label="Store the fit slope and offset\n in the labnotebook"];
n117 -> n118 [label=Success];
n97 [label="Write fit slope and offset to the labnotebook"];
n95 -> n97 [label="Sucess?"];
n98 [label="Mark the fit slope as invalid in the labnotebook"];
n95 -> n98 [label="Failure?"];
n119 [label="Calculate the maximum fit slope\n and store it in the labnotebook"];
n118 -> n119;
n101 [label="Determine if the fit slope is valid\n and store the result in the labnotebook"];
n97 -> n101;
n99 [label="Calculate the maximum slope in this SCI\n and store it in the labnotebook"];
n98 -> n99;
n101 -> n99;
n125 [label="Calculate negative fit slope QC\n and store in the labnotebook"];
n101 -> n125;
n102 [label="Does the current f-I slope fullfill\n all of the following conditions:\n- finite\n-SlopePercentage smaller than the max slope\n- \
acquired with a larger DAScale value than the maxSlope"];
n99 -> n102;
Expand All @@ -213,24 +219,25 @@ QC and f-I slope QC passing?"];
n138 -> n139;
n112 [label="Mark set as passed"];
n139 -> n112 [label=Yes];
n109 [label="Check if the set can still pass"];
n139 -> n109 [label=No];
n141 [label="Do we have at least two passing sweeps with negative fit slope QC\n or a passing fit slope QC and then a negative fit slope QC\n \
which are adjacent and ignoring sweeps with failed sweep QC in-between?\n"];
n139 -> n141 [label=No];
n113 [label="Skip to end of active set"];
n112 -> n113;
n109 [label="Check if the set can still pass"];
n111 [label="Skip to end"];
n109 -> n111 [label=No];
n100 [label="Has the sweep passed?"];
n109 -> n100 [label=Yes];
n103 [label="Measured all future DAScale values?"];
n100 -> n103 [label=Yes];
n106 [label="Calculate new DAScale value by\n extrapolating fit slope and offset\n and using MaximumChangePercent - 2 as frequency distance.\n \
Uses the fit slopes and offsets from the\n passing sweep with the highest DAScale searching from the back."];
Uses the fit slopes and offsets from the\n passing sweep with the highest DAScale searching from the back.\n Here we use the fit \
offsets and slopes which have\n ignored sweeps with passing neg slope fit QC"];
n103 -> n106 [label=Yes];
n108 [label="Use the next DAScale value"];
n103 -> n108 [label=No];
n106 -> n108;
n119 [label="Calculate the maximum fit slope\n and store it in the labnotebook"];
n118 -> n119;
n128 [label="Calculate the normalized minimum and maximum\n DAScale step witdths and store them in the labnotebook"];
n119 -> n128;
n131 [label="Plot AP frequency and f-I slope both versus DAScale"];
Expand All @@ -242,10 +249,37 @@ Uses the fit slopes and offsets from the\n passing sweep with the highest DAScal
n135 [label="Do we have at least NumSweepsWithSaturation\n sweeps which are adjacent, ignoring sweeps with failed sweep QC,\n and have sweep \
QC and f-I slope QC passing?"];
n120 -> n135 [label="Not Needed"];
n121 -> n106 [label=Success];
n127 [label="Calculate negative fit slope QCs\n and store in the labnotebook"];
n121 -> n127;
n136 [label="Skip to end of active set"];
n135 -> n136 [label=Yes];
n140 [label="Do we have at least two passing sweeps with negative fit slope QC\n or a passing fit slope QC and then a negative fit slope QC\n \
which are adjacent and ignoring sweeps with failed sweep QC in-between?\n"];
n135 -> n140 [label=No];
n137 [label="Reuse already set DAScale value"];
n136 -> n137;
n122 -> "Skip to end of active set";
n124 -> n134;
n125 -> n99;
n127 -> n106 [label=Failure];
n129 [label="Use the analysis parameter \"DAScaleNegativeSlopePercent\"\n combined with the absolute DAScale step width\n to calculate the new \
DAScale value\n"];
n127 -> n129 [label=Success];
n129 -> n108;
n146 [label="Does the fillin negative slope\n labnotebook entry exist?"];
n140 -> n146 [label=Yes];
n141 -> n109 [label=No];
n142 [label="Does the fillin negative slope\n labnotebook entry exist?"];
n141 -> n142;
n142 -> n112 [label=Yes];
n143 [label="Add a future DAScale value between the last \npositive fit slope sweep and the first negative fit slope.\n Do nothing if that transition \
does not exist."];
n142 -> n143 [label=No];
n145 [label="Add the fillin negative slope\n labnotebook entry"];
n143 -> n145;
n146 -> n136 [label=Yes];
n147 [label="Add a future DAScale value between the last \npositive fit slope sweep and the first negative fit slope.\n Do nothing if that transition \
does not exist."];
n146 -> n147 [label=No];
n148 [label="Add the fillin negative slope\n labnotebook entry"];
n147 -> n148;
}

0 comments on commit eaa0825

Please sign in to comment.