Testing notes for surgical tools data for the project: "Reference Models for Multi-Layer Tissue Structures". Protocol deviations, data collection notes, and thickness analysis voids/notes are included for each subject. Notes captured from https://simtk.org/plugins/moinmoin/multis/InstToolsExperiments?action=recall&rev=22. A dynamic version of the testing notes can be found at https://simtk.org/plugins/moinmoin/multis/InstToolsExperiments. 


MRI and CT image files (.nii) associated with each subject are included on the sister website (https://multisgamma.stanford.edu). The numbering system between subjects in surgical tools and in vitro experiments is the same (for non-mock trials): CMULTIS005-1 is the same as SMULTIS005-1. 

=== SMULTIS001-1 mock ===
 donor: CMULTIS002
 * First mock of instrumented surgical tool procedures minus Vic3D strain measurement.
 1. Cut skin 10 cm - measured length, width, depth
 1. retracted skin 2 cm
 1. widened incision with forceps
 1. closed incision for approximation with forceps
 1. everted tissue with forceps
 1. (trial #16) closed suture with square knot at midpoint connected to scalpel bolt 
 1. (17) closed suture with a loop, no knot, take first trial not last.
 1. (18) closed suture with surgeons knot (first knot)
 1. (19) tied 3rd knot (second was not instrumented)
 1. (20 & 21) tissue pulling. Not a loop like (17). tied knot to one end, pulled on other. mechanically the same as the loop, just pulled on one side instead of both.

 * Notes: 
  * finalize trial naming convention
  * build in length, width, depth window after each trial
  * build apparatus to hold metal ruler (use manfrotto arm)

=== SMULTIS001-2 mock ===
 donor: CMULTIS002
 (the name was actually SMULTIS002-1 but this will be archived as mock data to leave 002 for a different donor)
'''Goal''':
Test Vic3D system integration and use during first three surgical procedures

  * all software and hardware modifications were made prior
  * Vic3D triggered at 30fps for 20s by multis computer
  * Synchronization signal also sent and stored with Vic3D
  * For each trial, a folder was created for Vic3D
  * An ink roller was used and worked seemingly well
  * Different camera angles were tested for optimal viewing and minimal tool shadowing
 * Notes for next time
  * Create calibration folder for the day's experiment
  * use for all trials that day
  * tilt cameras towards operator 
  * move cameras closer together to reduce shadowing effect

=== SMULTIS003-1 mock ===
 donor: CMULTIS003

 '''Goal''':
Full data collection including strain measurement

Notes:
 * although DIC can only measure 4-5cm cut length, make cut full length. DIC will occur on first half, so start cut at beginning of DIC region, continue 5cm after end of DIC
 * do not retract after skin cut with current retractor because it is too large relative to the cut depth (0.6mm)
 * move the forceps wid/eve/clos and suture steps to after the cut through skin fat interface so that more tissue is available. The forceps will essentially be grabbing the skin plus skin/fat interface
 * for retraction, start at midline and continue to retract 1cm after contact
 * subtract ruler thickness from caliper depth measurement

{{attachment:skin.png||width="300"}}

=== SMULTIS004-1 ===
 donor: CMULTIS004
 date: 08-23-18

 '''Goal''':
First non-mock experiment

 '''Protocol Deviations'''
 * Specimen underwent 1 extra freeze thaw cycle due to software malfunction on first attempted experiment
 * To reduce reflection during indentation the polarized VIC3d light filters were first optimized to the undeformed skin, then rotated 90 degrees. This method will be used from now on.
 * A shadow not visible to the naked eye blocked VIC3d strain measurement of the cut trial. A mock cut will be performed from now on.
 * Extra force/moment data was collected at the beginning of each trial. A series of tap tests were conducted to show that the extra data is exactly the length of the difference between the force data time (~13s) and optotrak data time (~10s). The last 10s of each optotrak and force are synchronized by removing that difference. 
 
=== SMULTIS005-1 ===
 donor: CMULTIS005
 date: 09-14-18

 '''Protocol Deviations'''
 * None

=== SMULTIS006-1 ===
 donor: CMULTIS006
 date: 09-21-18

 '''Protocol Deviations'''
 * None

=== SMULTIS007-1 ===
 donor: CMULTIS007
 date: 10-02-18

 '''Protocol Deviations'''
 * White ink used successfully for dark skin

=== SMULTIS008-1 ===
 donor: CMULTIS008
 date: 10-05-18

 '''Protocol Deviations'''
 * White ink used successfully for dark skin

=== SMULTIS009-1 ===
 donor: CMULTIS009
 date: 10-17-18

 '''Protocol Deviations'''
 * SXX_CUT_FAT
  * Just over half the length of the cut penetrated the muscle fascia below
  * SXX_CUT_FMI was therefore not possible and not collected following the SXX_CUT_FAT trial.
  * The remaining fascia and roughly 3mm (depth) of muscle was cut but not recorded to prepare the tissue for the muscle retraction trial. 
 '''Notes'''
 * Possibly best VIC3D yet for each of the three trials

=== SMULTIS010-1 ===
 donor: CMULTIS010
 date: 10-18-18

 '''Notes'''
 * VIC3D results for all three trials comparable to 009.
 * Tissue recovered atypically well during indentation, likely due to excess and relatively young subcutaneous tissue

=== SMULTIS011-1 ===
 donor: CMULTIS011
 date: 10-30-18

 '''Notes'''
 * VIC3D cut terial was not the best. Tissue was not dark or light. Both white and black speckle was attempted
 * This specimen underwent one less freeze-thaw cycle and was kept thawed one day less than others. The Ultrasound and Surgical Tools and CT/MRI were all completed in one day.

=== SMULTIS012-1 ===
 donor: CMULTIS012-1
 date: 11-06-18
 * Very good VIC3D trials. 
 * Missing fat cut trial because of extremely thin fat layer.