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Cycling (Ladder) - Inlet ports 3, 4, 5, 6 - Outlet port 2 - 4 steps - 84 cycles - 10 mins-cycle - Qdraw 100 pulses-sec Qpump 10-2 pulses-sec - Period 7 cycles - 3 Inj-step.txt
4696 lines (4696 loc) · 147 KB
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Cycling (Ladder) - Inlet ports 3, 4, 5, 6 - Outlet port 2 - 4 steps - 84 cycles - 10 mins-cycle - Qdraw 100 pulses-sec Qpump 10-2 pulses-sec - Period 7 cycles - 3 Inj-step.txt
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#-------------------------------------------------------
# Ladder cycling script
#
# Version: 0.4
# Author: Dimitrios Simatos
# Last updated: 2022-11-16
# Changes: Updated the duration of script with the measured duration of script.
#-------------------------------------------------------
# Parameters
#
# Inlet port sequence: 3, 4, 5, 6
# Outlet port sequence: 2
# Number of steps (step: an integer number of cycles during which a specific liquid is injected): 4
# Number of cycles: 84
# Cycles per step: 21
# Cycle time: 10 minutes
# Period (number of cycles between pumping cycles - even of the same liquid): 7
# Liquid injections per step (cycles per step/period): 3
# Duration of script: Theoretical: 14 hours, Measured: 17 hours
#
# Syringe size: 1 ml
# Step resolution: N = 0.01 mm
# Drawing flow (Qdraw): V = 100 pulses/second (2000 ul/min)
# Pumping flow (Qpump): V = 2 pulses/second (40 ul/min)
# - NOTE: The first cycle has a pumping flow of 10 pulses/second (200 ul/min). This is done to increase the pressure inside the flow cell, and ensure that there are no air pockets during the initial filling.
# - Time to empty syringe: Syringe size/Qpump = 25 minutes
#-------------------------------------------------------
# Description
#
# This script is designed to perform a cycling experiment between four liquids.
# If sensing proteins, perform two additional steps:
# - Saturate the tubes for 1-2 hours with a highly concentrated protein solution.
# - Measure consecutive transfer curves for 4 hours, to allow the device to charge and the baseline to stabilize to its maximum value.
#-------------------------------------------------------
# Important points
#
# Never leave any liquid in the pump to dry after the experiments. If they dry, the residue may block the valve.
# Always run the cleaning script after the experiments.
# Use clockwise rotation when going up in valve port numbers and vice versa.
# Do not tighten the reservoir caps. It may lead to overpressure of air.
#-------------------------------------------------------
# Things to do before running the script
#
# If sensing proteins, saturate the tubes with a highly concentrated protein solution.
# Set time units to minutes.
# Set filenames.
# Replace the tubing, if necessary.
#-------------------------------------------------------
# Port connections
#
# Port 1: Waste
# Port 2: Device
# Port 3: NaP buffer
# Port 4: Amyloid beta 0.01 uM (100% NaP buffer)
# Port 5: Amyloid beta 0.1 uM (100% NaP buffer)
# Port 6: Amyloid beta 1 uM (100% NaP buffer)
#-------------------------------------------------------
# Pumping cycles and execution time
#
# There are 4 steps in total.
# Every step consists of 21 cycles: one pumping cycle, 1 hour of measurements (6 cycles), then another pumping cycle and another 1 hour of measurements (6 cycles),
# then another pumping cycle and another 1 hour of measurements (6 cycles).
# Every 70 minutes (7 cycles) new liquid is flushed inside the flow cell.
# Every cycle is 10 minutes long. The total number of cycles is 84.
#
# Execution time for a single cycle: 10 minutes
# Total (theoretical) execution time: 1 (initialization) + 4 x 21 x 10 = 841 minutes = 14 hours
# Total (measured) execution time: 17 hours
#-------------------------------------------------------
# Volume of liquid needed
#
# Volume of liquid needed per step: 4 ml
# Total volume of liquid needed per script run (volume/step * steps in which the liquid is injected):
# 3 ml x 1 = 3 ml NaP buffer
# 3 ml x 1 = 3 ml Amyloid beta 0.01 uM (100% NaP buffer)
# 3 ml x 1 = 3 ml Amyloid beta 0.1 uM (100% NaP buffer)
# 3 ml x 1 = 3 ml Amyloid beta 1 uM (100% NaP buffer)
#-------------------------------------------------------
# SPA settings
itime l 0.04
gaterangemode l
drainrangemode l
#-------------------------------------------------------
# Pump initialization
pump /1T #hard stop pump
pump /1ZR #initialize pump
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 1: Pumping the liquid of port 3 (10 minutes)
filename step_1_NaP-pH=7,38-20mM_initial_
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1N0R #set step resolution: 0.01 mm
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be at 0)
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait 1000 #wait 1 second
pump /1V100R #choose speed: 100 steps/s (2000 ul/min)
pump /1Q #query pump
wait 1000 #wait 1 second
pump /1I3R #go to port 3, clockwise rotation
pump /1Q #query pump
pump /1?6 #report valve position
wait 1000 #wait 1 second
pump /1A3000R #go to absolute position 3000 (= draw 1 ml)
wait-min 1 #wait 1 minute
pump /1V10R #set speed to 10 steps/s (200 ul/min)
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should have finished moving)
#pump /1?6 #report valve position
pump /1O2R #switch to port 2, counterclockwise rotation
pump /1Q #query pump
pump /1?6 #report valve position
pump /1A100R #go to absolute position 100 (do not fully empty syringe)
#pump /1A0R #go to absolute position 0 (= empty syringe)
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be moving to 0)
#pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be moving to 0)
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 2: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 3: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 4: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 5: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 6: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 7: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 8: Pumping the liquid of port 3 (10 minutes)
#filename step_1_NaP-pH=7,38-20mM_initial_
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1N0R #set step resolution: 0.01 mm
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be at 0)
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait 1000 #wait 1 second
pump /1V100R #choose speed: 100 steps/s (2000 ul/min)
pump /1Q #query pump
wait 1000 #wait 1 second
pump /1I3R #go to port 3, clockwise rotation
pump /1Q #query pump
pump /1?6 #report valve position
wait 1000 #wait 1 second
pump /1A3000R #go to absolute position 3000 (= draw 1 ml)
wait-min 1 #wait 1 minute
pump /1V10R #set speed to 10 steps/s (200 ul/min)
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should have finished moving)
#pump /1?6 #report valve position
pump /1O2R #switch to port 2, counterclockwise rotation
pump /1Q #query pump
pump /1?6 #report valve position
pump /1A100R #go to absolute position 100 (do not fully empty syringe)
#pump /1A0R #go to absolute position 0 (= empty syringe)
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be moving to 0)
#pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be moving to 0)
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 9: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 10: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 11: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 12: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 13: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 14: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 15: Pumping the liquid of port 3 (10 minutes)
#filename step_1_NaP-pH=7,38-20mM_initial_
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1N0R #set step resolution: 0.01 mm
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be at 0)
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait 1000 #wait 1 second
pump /1V100R #choose speed: 100 steps/s (2000 ul/min)
pump /1Q #query pump
wait 1000 #wait 1 second
pump /1I3R #go to port 3, clockwise rotation
pump /1Q #query pump
pump /1?6 #report valve position
wait 1000 #wait 1 second
pump /1A3000R #go to absolute position 3000 (= draw 1 ml)
wait-min 1 #wait 1 minute
pump /1V10R #set speed to 10 steps/s (200 ul/min)
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should have finished moving)
#pump /1?6 #report valve position
pump /1O2R #switch to port 2, counterclockwise rotation
pump /1Q #query pump
pump /1?6 #report valve position
pump /1A100R #go to absolute position 100 (do not fully empty syringe)
#pump /1A0R #go to absolute position 0 (= empty syringe)
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be moving to 0)
#pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position (the plunger should be moving to 0)
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 16: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
#-------------------------------------------------------
# Cycle 17: Measuring for 10 minutes
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0
wait-min 1 #wait 1 minute
pump /1Q #query pump
pump /1? #report absolute plunger position
pump /1?6 #report valve position
transfer d 0 -1 -0.1 -1 -1 0