Experiment
Experiment[UnitOperations]⟹Script
creates a Script object that will perform the experiments specified in UnitOperations.
Experiment takes in primitives and perform them manually and/or on the liquid handler. Experiment will group primitives into groups of manual and liquid handler subprotocols, creating a script to run the multiple primitive groups as necessary. Liquid samples with volumes 1 µL - 50mL can be manipulated on a robotic liquid handler. Liquids and solids can be manipulated using standard lab techniques at scales up to 20L or 50 kg.
Instrumentation
Hamilton STARlet
Figure 2.1.1: An overview of the robotic workcell. It is capable of processing plate operations including incubation, shaking, and magnetic bead separation on-deck and filtration and absorbance/fluorescence/luminescence measurement off-deck, with a robot arm facilitating the plate movements.
Super STAR
Figure 2.2.1: An overview of the robotic workcell. It is capable of processing plate operations including incubation, shaking, and magnetic bead separation on-deck and centrifugation, filtration, and absorbance/fluorescence/luminescence measurement off-deck, with a robot arm facilitating the plate movements.
Transfer
Options
General
Source
Pattern Description: Existing Container with Well Position or New Container with Index or Sample or Container or Null.
Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container], Model[Sample]}] | _String) | {GreaterEqualP[1, 1], ObjectP[{Model[Container]}]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}
Destination
Pattern Description: Existing Container with Well Position or New Container with Index or Sample or Container or Waste or Null.
Programmatic Pattern: (ObjectP[{Object[Sample], Object[Item], Object[Container], Model[Container]}] | _String) | {GreaterEqualP[1, 1], ObjectP[{Model[Container]}]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String} | Waste
Amount
Programmatic Pattern: RangeP[0.1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0., 1.] | All
SourceLabel
A user defined word or phrase used to identify the source sample from which the transfer occurs, for use in downstream unit operations.
SourceContainerLabel
A user defined word or phrase used to identify the container of the source sample from which the transfer occurs, for use in downstream unit operations.
DestinationLabel
A user defined word or phrase used to identify the destination sample from which the source sample is transferred into, for use in downstream unit operations.
DestinationContainerLabel
A user defined word or phrase used to identify the container of the destination sample from which the source sample is transferred into, for use in downstream unit operations.
SourceWell
Default Calculation: Automatically set to the first non-empty well if an Object[Container] or {_Integer, Model[Container]} is given. Otherwise, is set to the position of the given Object[Sample].
RestrictSource
Indicates whether the source should be restricted from automatic use is any of your team's experiments that request the sample's models. (Restricted samples can only be used in experiments when specifically provided as input to the experiment functions by a team member.)
Default Calculation: If this sample is being reused as a source/destination elsewhere in your Transfer and the RestrictSource/RestrictDestination option are specified for that sample, the same value will be used.
RestrictDestination
Indicates whether the destination should be restricted from automatic use is any of your team's experiments that request the sample's models. (Restricted samples can only be used in experiments when specifically provided as input to the experiment functions by a team member.)
Default Calculation: If this sample is being reused as a source/destination elsewhere in your Transfer and the RestrictSource/RestrictDestination option are specified for that sample, the same value will be used.
IntermediateDecantRecoup
Indicates if any residual sample transferred into the intermediate container should be transferred back to the source sample. This option can only be set to True for Object[Sample] source.
BalanceCleaningMethod
Indicates the type of cleaning performed on the balance right before a weighing instance if the operator indicates presence of stray material. Dry indicates the balance pan surface and the balance floor outside of the balance pan are cleared of any stray material using soft and lint-free non-woven wipes. Wet indicates the balance pan surface and the balance floor outside of the balance pan is first cleaned with Dry method, followed by wiping with DI-water moistened wipes, IPA-moistened wipes, and a final dry wipe. None indicates no cleaning is performed prior to initial setup.
Default Calculation: Automatically set to the same value as BalancePreCleaningMethod if BalancePreCleaningMethod is either Wet or Dry. If BalancePreCleaningMethod is None, set to Wet.
DestinationWell
Default Calculation: Automatically set to the position of the given Object[Sample]. Otherwise, is set to the first empty well of the container. Otherwise, is set to "A1".
MultichannelTransfer
Indicates if this transfer will occur simultaneously with the other transfer that occur before/after it, up to the number of channels that are available in the pipette chosen via the Instrument option.
Default Calculation: Automatically set to True if (1) the samples are in a plate, (2) the samples to be transferred before/after this sample are in the same row or well of the plate, (3) the volume of the samples to be transferred is the same, and (4) the spacing of the wells in the plate are compatible with the spacing between the channels in the pipette (HorizontalPitch/VerticalPitch/ChannelOffset).
SachetIntermediateContainer
The weigh boat item that the filler is emptied into after cutting open the source sachet in order to transfer to the destination, if not transferring gravimetrically using a weigh boat already.
Default Calculation: Automatically set to a compatible weigh boat model if Sachet -> True and WeighingContainer is Null.
Pattern Description: An object of type or subtype Model[Item, WeighBoat] or Object[Item, WeighBoat] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, WeighBoat], Object[Item, WeighBoat]}]) | Automatic) | Null
BalancePreCleaningMethod
Indicates the type of cleaning performed on the balance prior to its initial setup for use. Dry indicates the balance pan surface and the balance floor outside of the balance pan is cleared of any stray material using a cleaning brush and lint-free non-woven wipes. Wet indicates the balance pan surface and the balance floor outside of the balance pan is first cleaned with Dry method, followed by wiping with DI-water moistened wipes, IPA-moistened wipes, and a final dry wipe. None indicates no cleaning is performed prior to initial setup.
Preparation
Indicates if this unit operation is carried out primarily robotically or manually. Manual unit operations are executed by a laboratory operator and robotic unit operations are executed by a liquid handling work cell.
WorkCell
The automated workstation with a collection of integrated instruments on which this unit operation will be will be performed if Preparation -> Robotic.
TemperatureConditions
CoolingTime
Specifies the length of time that should elapse after the transfer before the sample is removed from the TransferEnvironment. This is a lower bound, which will govern the final transfer, and so any given sample in a batch may cool for longer than the CoolingTime.
SolidificationTime
In a media transfer, the duration of time after transferring the liquid media into incubation plates that they are held at ambient temperature for the media containing gelling agents to solidify before allowing them to be used for experiments.
Pattern Description: Greater than or equal to 0 minutes and less than or equal to 1 day or None or Null.
Temperature Conditions
SourceTemperature
Indicates the temperature at which the source sample will be at during the transfer. When samples are transferred off of the operator cart and into the TransferEnvironment, they are placed in a portable heater/cooler to get the sample to temperature right before the transfer occurs. Note that this is different than the TransportCondition of the sample. Samples transferred in a biosafety cabinet can have SourceTemperature specified as Cold (approximately 4 Celsius), Ambient, or a specific temperature above 25 Celsius.
Default Calculation: Automatically set to the TransferTemperature or TransportTemperature (whichever is first filled out) of the source sample. Otherwise, is transferred at Ambient temperature.
Pattern Description: Ambient or Cold or greater than or equal to -20 degrees Celsius and less than or equal to 90 degrees Celsius or Null.
Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, 90*Celsius] | Ambient | Cold)) | Automatic) | Null
SourceEquilibrationTime
MaxSourceEquilibrationTime
The maximum duration of time for which the samples will be heated/cooled to the target SourceTemperature, if they do not reach the SourceTemperature after SourceEquilibrationTime. MaxSourceEquilibrationTime will only be used if SourceEquilibrationCheck is set, in order to extend the equilibration time past the initial SourceEquilibrationTime if SourceTemperature has not been reached. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.
SourceEquilibrationCheck
The method by which to verify the temperature of the source before the transfer is performed. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.
DestinationTemperature
Indicates the temperature at which the destination will be at during the transfer. When samples are transferred off of the operator cart and into the TransferEnvironment, they are placed in a portable heater/cooler to get the sample to temperature right before the transfer occurs. Note that this is different than the TransportCondition of the sample. Samples transferred in a biosafety cabinet can have DestinationTemperature specified as Cold (approximately 4 Celsius), Ambient, or a specific temperature above 25 Celsius.
Default Calculation: Automatically set to the TransferTemperature or TransportTemperature (whichever is first filled out) of the destination sample. Otherwise, is transferred at Ambient temperature.
Pattern Description: Ambient or Cold or greater than or equal to -20 degrees Celsius and less than or equal to 90 degrees Celsius or Null.
Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, 90*Celsius] | Ambient | Cold)) | Automatic) | Null
DestinationEquilibrationTime
The duration of time for which the samples will be heated/cooled to the target DestinationTemperature.
MaxDestinationEquilibrationTime
The maximum duration of time for which the samples will be heated/cooled to the target DestinationTemperature, if they do not reach the DestinationTemperature after DestinationEquilibrationTime. MaxDestinationEquilibrationTime will only be used if DestinationEquilibrationCheck is set, in order to extend the equilibration time past the initial DestinationEquilibrationTime if DestinationTemperature has not been reached. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.
DestinationEquilibrationCheck
The method by which to verify the temperature of the destination before the transfer is performed. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.
Instrument Specifications
Instrument
The standalone instrument used to transfer the sample from the source container (or from the intermediate container if IntermediateDecant->True) to the destination container. If this option is set to Null, it indicates that pouring will be done to perform the transfer when Preparation->Manual.
Figure 3.1: Primitives can be conducted both by a liquid handler or manually with a proper instrument. For some primitives (e.g., Transfer, Aliquot, and Consolidation), specific options (e.g., DispenseRate and OverAspirationVolume) can only be achieved by a liquid handler.
Default Calculation: Automatically set to an instrument that can move the amount being transferred and the source and destination containers of the transfer. For more information, please refer to the function TransferDevices[].
Pattern Description: An object of type or subtype Model[Container, Syringe], Model[Container, GraduatedCylinder], Model[Instrument, Pipette], Model[Instrument, Aspirator], Model[Item, Spatula], Model[Item, Tweezer], Model[Item, TransferTube], Model[Item, ChippingHammer], Model[Item, Scissors], Object[Container, Syringe], Object[Container, GraduatedCylinder], Object[Instrument, Pipette], Object[Instrument, Aspirator], Object[Item, Spatula], Object[Item, Tweezer], Object[Item, TransferTube], Object[Item, ChippingHammer], or Object[Item, Scissors] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container, Syringe], Model[Container, GraduatedCylinder], Model[Instrument, Pipette], Model[Instrument, Aspirator], Model[Item, Spatula], Model[Item, Tweezer], Model[Item, TransferTube], Model[Item, ChippingHammer], Model[Item, Scissors], Object[Container, Syringe], Object[Container, GraduatedCylinder], Object[Instrument, Pipette], Object[Instrument, Aspirator], Object[Item, Spatula], Object[Item, Tweezer], Object[Item, TransferTube], Object[Item, ChippingHammer], Object[Item, Scissors]}] | _String)) | Automatic) | Null
TransferEnvironment
The environment in which the transfer will be performed (Biosafety Cabinet, Fume Hood, Glove Box, or Benchtop Handling Station). Containers involved in the transfer will first be moved into the TransferEnvironment (with covers on), uncovered inside of the TransferEnvironment, then covered after the Transfer has finished -- before they're moved back onto the operator cart. Consult the SterileTechnique/RNaseFreeTechnique option when using a BSC. This option cannot be set when Preparation->Robotic.
Default Calculation: Automatically set to an instrument that can handle the any safety requirements of the samples being transferred.
Pattern Description: An object of type or subtype Model[Instrument, BiosafetyCabinet], Model[Instrument, FumeHood], Model[Instrument, GloveBox], Model[Container, Bench], Model[Container, Enclosure], Model[Instrument, HandlingStation], Object[Instrument, BiosafetyCabinet], Object[Instrument, FumeHood], Object[Instrument, GloveBox], Object[Container, Bench], Object[Container, Enclosure], or Object[Instrument, HandlingStation] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, BiosafetyCabinet], Model[Instrument, FumeHood], Model[Instrument, GloveBox], Model[Container, Bench], Model[Container, Enclosure], Model[Instrument, HandlingStation], Object[Instrument, BiosafetyCabinet], Object[Instrument, FumeHood], Object[Instrument, GloveBox], Object[Container, Bench], Object[Container, Enclosure], Object[Instrument, HandlingStation]}]) | Automatic) | Null
Balance
Default Calculation: Automatically set to a balance whose MinWeight and MaxWeight is compatible with the transfer amount to be measured, if the transfer is occurring gravimetrically (MassP).
Pattern Description: An object of type or subtype Model[Instrument, Balance] or Object[Instrument, Balance] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, Balance], Object[Instrument, Balance]}]) | Automatic) | Null
TabletCrusher
The pill crusher that will be used to crush any itemized tablet source samples if they are being transferred by mass and not by count.
Default Calculation: Automatically set to Model[Item, TabletCrusher, "Silent Knight Pill Crusher"] if an Itemized sample with Tablet -> True is being transferred by mass and not count.
Pattern Description: An object of type or subtype Model[Item, TabletCrusher] or Object[Item, TabletCrusher] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, TabletCrusher], Object[Item, TabletCrusher]}]) | Automatic) | Null
IncludeSachetPouch
Indicates if the pouch is also transferred to the destination along with the filler. If IncludeSachetPouch -> False, the pouch is directly discarded after emptied.
Tips
Default Calculation: Automatically set to a tip that does not conflict with the incompatible materials of the sample(s) that the tip will come in contact with, the amount being transferred, and the source and destination containers of the transfer (accessibility). For more information, please refer to the function TransferDevices[].
Pattern Description: An object of type or subtype Model[Item, Tips], Object[Item, Tips], Model[Item, Consumable], or Object[Item, Consumable] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips], Model[Item, Consumable], Object[Item, Consumable]}]) | Automatic) | Null
TipType
Default Calculation: Automatically set to the TipType field of the calculated Tips that will be used to perform the transfer.
TipMaterial
The material of the pipette tips used to aspirate and dispense the requested volume during the transfer.
Default Calculation: Automatically set to the chemistry of the calculated Tips that will be used to perform the transfer.
Pattern Description: {ABS, PLA, Acrylic, AmorphousFluoropolymer, CPVC, CTFE, Cycloolefine, COC, Delrin, ECTFE, EPDM, ETFE, EVA, FEP, FFKM, HDPE, Hypalon, LDPE, NaturalRubber, NBR, Neoprene, Nitrile, Noryl, Nylon, PEEK, PEI, Perlast, PharmaPure, Polycarbonate, Polyester, Polyethylene, Polyisoprene, Polyolefin, Polyoxymethylene, Polypropylene, Polysulfone, Polystyrene, Polyurethane, PVC, PCTFE, PETG, PF, PFA, PPS, PTFE, PVDF, SEBS, Silicone, Styrofoam, SyntheticRubber, TFM, TPE, Tygon, UVPlastic, UVXPO, Viton}, {Aluminum, Alloy, AnodisedAluminum, Brass, Bronze, CarbonSteel, CastIron, Chrome, Copper, Elgiloy, Gold, Hastelloy, Lead, Magnesium, Molybdenum, MP35N, MP35NHPS, Nickel, Niobium, Platinum, Silver, Steel, StainlessSteel, Titanium, Tungsten, Zinc}, {Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, AnoporeAlumina}, {Silica, Alumina, ResinParticlesWithLatexMicroBeads, CrossLinkedDextranBeads, CrossLinkedPolystyrene, AerisCoreShell, KinetexCoreShell, CrossLinkedAgarose, Vydac218MS, JordiGel, Styrene, SilicaCompositeTWIN, BEH, CSH, HSS, CarboPacPA1, CarboPacPA10, BEH}, AluminiumOxide, ZirconiumOxide, Ceramic, Epoxy, EpoxyResin, GlassyCarbon, {BorosilicateGlass, Glass, OpticalGlass}, Graphite, Porcelain, Oxidizer, {Cardboard, Wood}, {Agate, Quartz, UVQuartz, ESQuartz, FusedQuartz, IRQuartz}, Ruby, Sapphire, Silicon, Viton, or {VacuumMeltedStainlessSteel} or Null.
AspirationRate
The speed at which liquid will be drawn up into the pipette tip. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to DispenseRate if it is specified, otherwise set to 100 Microliter/Second if Preparation->Robotic.
Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
DispenseRate
The speed at which liquid will be expelled from the pipette tip. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to AspirationRate if it is specified, otherwise set to 100 Microliter/Second.
Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
OverAspirationVolume
The volume of air drawn into the pipette tip at the end of the aspiration of a liquid. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to OverDispenseVolume if it is specified, otherwise set to 5 Microliter.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 microliters or Null.
OverDispenseVolume
The volume of air blown out at the end of the dispensing of a liquid. This option can only be set if Preparation->Robotic.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 300 microliters or Null.
AspirationWithdrawalRate
The speed at which the pipette is removed from the liquid after an aspiration. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to DispenseWithdrawalRate if it is specified, otherwise set to 2 Millimeter/Second.
Pattern Description: Greater than or equal to 0.3 millimeters per second and less than or equal to 160 millimeters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.3*(Millimeter/Second), 160*(Millimeter/Second)]) | Automatic) | Null
DispenseWithdrawalRate
The speed at which the pipette is removed from the liquid after a dispense. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to AspirationWithdrawalRate if it is specified, otherwise set to 2 Millimeter/Second.
Pattern Description: Greater than or equal to 0.3 millimeters per second and less than or equal to 160 millimeters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.3*(Millimeter/Second), 160*(Millimeter/Second)]) | Automatic) | Null
AspirationEquilibrationTime
The delay length the pipette waits after aspirating before it is removed from the liquid. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to DispenseEquilibrationTime if it is specified, otherwise set to 1 Second.
Pattern Description: Greater than or equal to 0 seconds and less than or equal to 9.9 seconds or Null.
DispenseEquilibrationTime
The delay length the pipette waits after dispensing before it is removed from the liquid. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to AspirationEquilibrationTime if it is specified, otherwise set to 1 Second.
Pattern Description: Greater than or equal to 0 seconds and less than or equal to 9.9 seconds or Null.
AspirationMixRate
The speed at which liquid is aspirated and dispensed in a liquid before it is aspirated. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to DispenseMixRate or AspirationRate if either is specified, otherwise set to 100 Microliter/Second.
Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
DispenseMixRate
The speed at which liquid is aspirated and dispensed in a liquid after a dispense. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to AspirationMixRate or DispenseRate if either is specified, otherwise set to 100 Microliter/Second.
Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
AspirationPosition
The location from which liquid should be aspirated. Top will aspirate AspirationPositionOffset below the Top of the container, Bottom will aspirate AspirationPositionOffset above the Bottom of the container, LiquidLevel will aspirate AspirationPositionOffset below the liquid level of the sample in the container, and TouchOff will touch the bottom of the container before moving the specified AspirationPositionOffset above the bottom of the container to start aspirate the sample.
Default Calculation: Automatically set to the AspirationPosition in the PipettingMethod if it is specified and Preparation->Robotic, otherwise resolves to TouchOff if Preparation->Robotic.
DispensePosition
The location from which liquid should be dispensed. Top will dispense DispensePositionOffset below the Top of the container, Bottom will dispense DispensePositionOffset above the Bottom of the container, LiquidLevel will dispense DispensePositionOffset below the liquid level of the sample in the container, and TouchOff will touch the bottom of the container before moving the specified DispensePositionOffset above the bottom of the container to start dispensing the sample.
Default Calculation: Automatically set to the DispensePosition in the PipettingMethod if it is specified and Preparation->Robotic, resolved to Bottom for MxN MultiProbeHead transfers, otherwise resolves to TouchOff if Preparation->Robotic.
AspirationPositionOffset
The distance from the center of the well that liquid will aspirated. The Z Offset is based on the AspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel), see the AspirationPosition diagram in the help file for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively. When the source container is tilted (via AspirationAngle), the AspirationPositionOffset automatically accounts for the angle of tilt.
Default Calculation: Automatically set to the AspirationPositionOffset field in the pipetting method, if specified. If AspirationAngle is set, automatically set to the left most point in the well since liquid will pool in the direction that the plate is tilted. Otherwise, is set to 2 Millimeter.
Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null
AspirationAngle
The angle that the source container will be tilted during the aspiration of liquid. The container is pivoted on its left edge when tilting occurs. This option can only be provided if Preparation->Robotic.
Default Calculation: Automatically set to 0 AngularDegree if Preparation->Robotic. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.
Programmatic Pattern: ((Null | RangeP[0*AngularDegree, 10*AngularDegree, 1*AngularDegree]) | Automatic) | Null
DispensePositionOffset
The distance from the center of the well that liquid will dispensed. The Z Offset is based on the DispensePosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel), see the DispensePosition diagram in the help file for more information. If an X and Y offset is not specified, the liquid will be dispensed in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively. When the destination container is tilted (via DispenseAngle), the DispensePositionOffset automatically accounts for the angle of tilt.
Default Calculation: Automatically set to the DispensePositionOffset field in the pipetting method, if specified. If DispenseAngle is set, automatically set to the left most point in the well since liquid will pool in the direction that the plate is tilted. Otherwise, is set to 2 Millimeter.
Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null
DispenseAngle
The angle that the destination container will be tilted during the dispensing of liquid. The container is pivoted on its left edge when tilting occurs. This option can only be provided if Preparation->Robotic.
Default Calculation: Automatically set to 0 AngularDegree if Preparation->Robotic. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.
Programmatic Pattern: ((Null | RangeP[0*AngularDegree, 10*AngularDegree, 1*AngularDegree]) | Automatic) | Null
CorrectionCurve
The relationship between a target volume and the corrected volume that needs to be aspirated or dispensed to reach the target volume. The correction curve is derived empirically from the relationship between the target and actual amount of volume transferred when on a specific robotic liquid handler instrument model. It is recommended when building one of these curves to measure the volume of sample transferred gravimetrically to get a more accurate CorrectionCurve. Use the function UploadPipettingMethod to create a new pipetting method for a sample model to have all robotic transfers of this sample model to use the derived CorrectionCurve automatically. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to PipettingMethod if it is specified. Otherwise, is set to Null (no correction curve).
Programmatic Pattern: ((Null | {{RangeP[0*Microliter, 1000*Microliter], RangeP[0*Microliter, 1250*Microliter]}..}) | Automatic) | Null
PipettingMethod
The pipetting parameters used to manipulate the source sample. This option can only be set if Preparation->Robotic. If other pipetting options are specified, the parameters from the method here are overwritten.
Default Calculation: Automatically set to the PipettingMethod of the model of the sample if available.
DynamicAspiration
Indicates if droplet formation will be prevented during liquid transfer. This will only be used for solvents that have high vapor pressure. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to the DynamicAspiration field in the pipetting method, if available.
DeviceChannel
The channel of the work cell that will be used to perform the transfer (MultiProbeHead | SingleProbe1 | SingleProbe2 | SingleProbe3 | SingleProbe4 | SingleProbe5 | SingleProbe6 | SingleProbe7 | SingleProbe8). This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to SingleProbe1 if MultichannelTransfer->False. Otherwise, set to the appropriate channel to perform the transfer.
Pattern Description: MultiProbeHead, SingleProbe1, SingleProbe2, SingleProbe3, SingleProbe4, SingleProbe5, SingleProbe6, SingleProbe7, or SingleProbe8 or Null.
Needle
Default Calculation: Automatically set to a needle that does not conflict with the incompatible materials of the sample(s) that the tip will come in contact with, the amount being transferred, and the source and destination containers of the transfer (accessibility). For more information, please refer to the function TransferDevices[].
Pattern Description: An object of type or subtype Model[Item, Needle] or Object[Item, Needle] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Needle], Object[Item, Needle]}]) | Automatic) | Null
Funnel
The funnel that is used to guide the source sample into the destination container when pouring or using a graduated cylinder.
Default Calculation: Automatically set to a funnel that can fit into the aperture of the destination container if 1) the transfer Instrument is set to Null (pouring)/GraduatedCylinder or 2) liquid is being transferred from a weighing container to the destination (pouring).
Pattern Description: An object of type or subtype Model[Part, Funnel] or Object[Part, Funnel] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Part, Funnel], Object[Part, Funnel]}]) | Automatic) | Null
WeighingContainer
The container that will be placed on the Balance and used to weigh out the specified amount of the source that will be transferred to the destination.
Default Calculation: Automatically set to a weigh boat (for solids) or container (for liquids) that can hold the Amount of the transfer specified if transferring gravimetrically (MassP). Otherwise, set to Null.
Pattern Description: An object of type or subtype Model[Item, WeighBoat], Object[Item, WeighBoat], Model[Container, Vessel], Object[Container, Vessel], Model[Item, Consumable], Object[Item, Consumable], Model[Container, GraduatedCylinder], or Object[Container, GraduatedCylinder] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Item, WeighBoat], Object[Item, WeighBoat], Model[Container, Vessel], Object[Container, Vessel], Model[Item, Consumable], Object[Item, Consumable], Model[Container, GraduatedCylinder], Object[Container, GraduatedCylinder]}] | _String)) | Automatic) | Null
Tolerance
The allowed tolerance of the weighed source sample from the specified amount requested to be transferred.
Default Calculation: Automatically set to 5X of the ParticleSize (if specified). Otherwise, set to 2X of the Resolution of the balance being used, if the sample being transferred is a solid. If the sample is not being transferred gravimetrically, set to Null.
HandPump
Default Calculation: Automatically set to Model[Part, HandPump, "id:L8kPEjNLDld6"] if the source is in a container with a MaxVolume over 5 Liters and either (1) the transfer instrument used is a graduated cylinder or (2) an intermediate decant is specified.
Pattern Description: An object of type or subtype Model[Part, HandPump] or Object[Part, HandPump] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Part, HandPump], Object[Part, HandPump]}]) | Automatic) | Null
IntermediateFunnel
Default Calculation: Automatically set to a funnel that can fit inside the IntermediateContainer, if an IntermediateDecant is required.
Pattern Description: An object of type or subtype Model[Part, Funnel] or Object[Part, Funnel] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Part, Funnel], Object[Part, Funnel]}]) | Automatic) | Null
Transfer Technique
ReversePipetting
Indicates if additional source sample will be aspirated (past the first stop of the pipette) to reduce the chance of bubble formation when dispensing into the destination position. This option can only be set if Preparation->Manual.
Default Calculation: Automatically set to True if the source or destination sample has the ReversePipetting field set and the transfer is occurring via pipette.
SlurryTransfer
Indicates if the source sample should be mixed via pipette until it becomes homogeneous, up to MaxNumberOfAspirationMixes times.
Default Calculation: Automatically set to True if the SampleHandling of the source sample is set to Slurry.
AspirationMix
Indicates if the source sample will be mixed immediately before it is transferred into the destination sample.
Default Calculation: Automatically set to True if any of the other AspirationMix options are set. Otherwise, set to Null.
DispenseMix
Indicates if the destination sample will be mixed immediately after the source sample is transferred into the destination sample.
Default Calculation: Automatically set to True if any of the other DispenseMix options are set. Otherwise, set to Null.
AspirationMixVolume
The volume that will be repeatedly aspirated and dispensed via pipette from the source sample in order to mix the source sample immediately before the transfer occurs. The same pipette and tips used in the transfer will be used to mix the source sample.
Default Calculation: Automatically set to 1/2 the volume of the source sample or the maximum volume of the pipette being used, depending on which value is smaller.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 milliliters or Null.
NumberOfAspirationMixes
The number of times the source is quickly aspirated and dispensed to mix the source sample immediately before it is transferred into the destination.
Default Calculation: Automatically set to 5 if any of the other AspirationMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 50 in increments of 1 or Null.
MaxNumberOfAspirationMixes
The number of times the source is quickly aspirated and dispensed to mix the source sample immediately before it is transferred into the destination.
Default Calculation: Automatically set to 5 if any of the other AspirationMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 100 in increments of 1 or Null.
DispenseMixVolume
The volume that will be repeatedly aspirated and dispensed via pipette from the destination sample in order to mix the destination sample immediately after the transfer occurs. The same pipette and tips used in the transfer will be used to mix the destination sample.
Default Calculation: Automatically set to 1/2 the volume of the destination sample or the maximum volume of the pipette being used, depending on which value is smaller.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 milliliters or Null.
NumberOfDispenseMixes
The number of times the destination is quickly aspirated and dispensed to mix the destination sample immediately after the source is dispensed.
Default Calculation: Automatically set to 5 if any of the other DispenseMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 50 in increments of 1 or Null.
Supernatant
Indicates that only top most layer of the source sample will be aspirated when performing the transfer.
Default Calculation: Automatically set to True if Magnetization->True. Otherwise, set to False/Null.
AspirationLayer
The layer (counting from the top) of the source sample that will be aspirated from when performing the transfer.
DestinationLayer
The layer (counting from the top) of the destination sample that will be dispensed into when performing the transfer.
Magnetization
Indicates if the source container will be put in a magnetized rack to separate out any magnetic components before the transfer is performed.
MagnetizationTime
The time that the source sample will be left on the magnetic rack until the magnetic components are settled at the side of the container.
MaxMagnetizationTime
The maximum time that the source sample will be left on the magnetic rack until the magnetic components are settled at the side of the container.
MagnetizationRack
The magnetized rack that the source/intermediate container will be placed in before the transfer is performed.
Default Calculation: Automatically set to a magnetized rack that can hold the source/intermediate container, if Magnetization->True is specified.
Pattern Description: An object of type or subtype Model[Container, Rack], Object[Container, Rack], Model[Item, MagnetizationRack], or Object[Item, MagnetizationRack] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Container, Rack], Object[Container, Rack], Model[Item, MagnetizationRack], Object[Item, MagnetizationRack]}]) | Automatic) | Null
CollectionContainer
Specifies the container that is stacked on the bottom of the destination container, before the source sample is transferred into the destination container, in order to collect the sample that flows through from the bottom of the destination container and into the CollectionContainer. This option is only available when Preparation->Robotic.
Default Calculation: Automatically set to Model[Container, Plate, "96-well 2mL Deep Well Plate"] if CollectionTime is specified. Otherwise, set to Null.
Programmatic Pattern: ((Null | ((ObjectP[{Object[Container, Plate], Model[Container, Plate]}] | _String) | ObjectP[{Model[Container, Plate]}] | {GreaterEqualP[1, 1], ObjectP[{Model[Container]}]})) | Automatic) | Null
CollectionTime
The amount of time that the sample that is transferred into the destination container is allowed to flow through the bottom of the destination plate and into the CollectionContainer (that is stacked on the bottom of the destination container). This option is only available when Preparation->Robotic.
Default Calculation: Automatically set to 1 Minute if CollectionContainer is specified, otherwise set to Null.
SterileTechnique
Indicates if sterilized instruments and aseptic transfer environments must be used for the transfer. Aseptic transfer environments include biosafety cabinets as TransferEnvironment, or bioSTAR and microbioSTAR Hamilton enclosures as WorkCell. Please consult the ExperimentTransfer documentation for a full diagram of SterileTechnique that is employed by operators.
Default Calculation: Automatically set to True if the samples being transferred contain tissue culture or microbial components, or require aseptic techniques.
RNaseFreeTechnique
Indicates that RNase free technique will be followed when performing the transfer (spraying RNase away on surfaces, using RNaseFree tips, etc.).
Default Calculation: Automatically set to True if the samples being transferred are RNaseFree->True.
Quantitative Transfers
QuantitativeTransfer
Indicates if additional QuantitativeTransferWashSolution will be used to wash the weigh boat, NumberOfQuantitativeTransferWashes times, to maximize the amount of solid that is transferred from the weigh boat (after measurement) to the destination.
Default Calculation: Automatically set to True if any of the other QuantitativeTransfer options are set. Otherwise, is set to False.
QuantitativeTransferWashSolution
The solution that will be used to wash the weigh boat, NumberOfQuantitativeTransferWashes times, to maximize the amount of solid that is transferred from the weigh boat (after measurement) to the destination.
Default Calculation: Automatically set to Model[Sample, "Milli-Q water"] if any of the other QuantitativeTransfer options are set. Otherwise, is set to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
QuantitativeTransferWashVolume
The volume of the solution that will be used to wash the weigh boat, NumberOfQuantitativeTransferWashes times, to maximize the amount of solid that is transferred from the weigh boat (after measurement) to the destination.
Default Calculation: Automatically set to 1/4 of the MaxVolume of the weigh boat that will be used if any of the other QuantitativeTransfer options are set, up to a maximum of 10 mL. Otherwise, is set to Null.
QuantitativeTransferWashInstrument
The pipette that will be used to transfer the wash solution to wash the weigh boat, NumberOfQuantitativeTransferWashes times, to maximize the amount of solid that is transferred from the weigh boat (after measurement) to the destination.
Default Calculation: Automatically set to a pipette that can transfer the requested QuantitativeTransferWashVolume. Otherwise, is set to Null.
Pattern Description: An object of type or subtype Model[Instrument, Pipette] or Object[Instrument, Pipette] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, Pipette], Object[Instrument, Pipette]}]) | Automatic) | Null
QuantitativeTransferWashTips
The tips that will be used to transfer the wash solution to wash the weigh boat, NumberOfQuantitativeTransferWashes times, to maximize the amount of solid that is transferred from the weigh boat (after measurement) to the destination.
Default Calculation: Automatically set to tips that can transfer the requested QuantitativeTransferWashVolume. Otherwise, is set to Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips]}]) | Automatic) | Null
NumberOfQuantitativeTransferWashes
Indicates the number of washes of the weight boat with QuantitativeTransferWashSolution that will occur, to maximize the amount of solid that is transferred from the weigh boat (after measurement) to the destination.
Default Calculation: Automatically set to 2 if any of the other QuantitativeTransfer options are set. Otherwise, is set to Null.
Hermetic Transfers
BackfillGas
The inert gas that is used equalize the pressure in the source's hermetic container while the transfer out of the source's container occurs.
Default Calculation: Automatically set to Nitrogen if the source's container is hermetic and UnsealHermeticSource->False.
BackfillNeedle
Default Calculation: Automatically set to the same model of Needle that will be used to perform the transfer, if the source's container is hermetic and UnsealHermeticSource->False.
Pattern Description: An object of type or subtype Model[Item, Needle] or Object[Item, Needle] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Needle], Object[Item, Needle]}]) | Automatic) | Null
UnsealHermeticSource
Indicates if the source's hermetic container will be unsealed before sample is transferred out of it.
Default Calculation: Automatically set to True if it is indicated that a syringe/needle will not be used to perform the transfer and the source is in a hermetic container. Otherwise, is set to False.
VentingNeedle
The needle that is used equalize the pressure in the destination's hermetic container while the transfer into the destination's container occurs.
Default Calculation: Automatically set to the same model of Needle that will be used to perform the transfer, if the destination's container is hermetic and UnsealHermeticDestination->False.
Pattern Description: An object of type or subtype Model[Item, Needle] or Object[Item, Needle] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Needle], Object[Item, Needle]}]) | Automatic) | Null
UnsealHermeticDestination
Indicates if the destination's hermetic container will be unsealed before sample is transferred out of it.
Default Calculation: Automatically set to True if it is indicated that a syringe/needle will not be used to perform the transfer and the destination is in a hermetic container. Otherwise, is set to False.
Tip Rinsing
TipRinse
Indicates if the Tips will first be rinsed with a TipRinseSolution before they are used to aspirate from the source sample.
Default Calculation: Automatically set to True if any of the other TipRinse options are set. Otherwise, is set to False.
TipRinseSolution
Default Calculation: Automatically set to Model[Sample, "Milli-Q water"] if any of the other TipRinse options are set. Otherwise, is set to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
TipRinseVolume
The volume of the solution that the Tips will be rinsed before they are used to aspirate from the source sample.
Default Calculation: Automatically set to 125% of the volume to be transferred, or the MaxVolume of the Tips (which ever is smaller) if any of the other TipRinse options are set. Otherwise, is set to Null.
NumberOfTipRinses
The number of times that the Tips will be rinsed before they are used to aspirate from the source sample.
Default Calculation: Automatically set to 1 if any of the other TipRinse options are set. Otherwise, is set to Null.
Mixing
AspirationMixType
The type of mixing that will occur immediately before aspiration from the source container. Swirl has the operator place the container on the surface of the TransferEnvironment and perform NumberOfAspirationMixes clockwise rotations of the container. Pipette performs NumberOfAspirationMixes aspiration/dispense cycle(s) of AspirationMixVolume using a pipette. Tilt changes the angle of the container to (1) 0 AngularDegrees, (2) 10 AngularDegrees, (3) 0 AngularDegrees, a total of NumberOfAspirationMixes times on a Hamilton integrated tilt plate position. Swirl is only available when Preparation->Manual and Tilt is only available when Preparation->Robotic.
Default Calculation: Automatically set to Pipette if any of the other AspirationMix options are set and we're using a pipette to do the transfer. Otherwise, set to Null.
DispenseMixType
The type of mixing that will occur immediately after the sample is dispensed into the destination container. Swirl has the operator place the container on the surface of the TransferEnvironment and perform NumberOfDispenseMixes clockwise rotations of the container. Pipette performs NumberOfDispenseMixes aspiration/dispense cycle(s) of DispenseMixVolume using a pipette. Tilt changes the angle of the container to (1) 0 AngularDegrees, (2) 10 AngularDegrees, (3) 0 AngularDegrees, a total of NumberOfDispenseMixes times on a Hamilton integrated tilt plate position. Swirl is only available when Preparation->Manual and Tilt is only available when Preparation->Robotic.
Default Calculation: Automatically set to Pipette if any of the other DispenseMix options are set and we're using a pipette to do the transfer. Otherwise, set to Null.
Intermediate Decanting
IntermediateDecant
Indicates if the source will need to be decanted into an intermediate container in order for the precise amount requested to be transferred via pipette. Intermediate decants are necessary if the container geometry prevents the Instrument from reaching the liquid level of the sample in the container (plus the delta of volume that is to be transferred). The container geometry is automatically calculated from the inverse of the volume calibration function when the container is parameterized upon receiving. This option will be set to Null if Preparation->Robotic.
Default Calculation: Automatically set to True if the source is in a container that in a container that is pipette-inaccessible and the Instrument set to perform the transfer is a pipette.
IntermediateContainer
The container that the source will be decanted into in order to make the final transfer via pipette into the final destination.
Default Calculation: Automatically set to the PreferredContainer[...] of the volume that is being transferred if IntermediateDecant->True.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container], Object[Container]}] | _String)) | Automatic) | Null
Container Covering
KeepSourceCovered
Indicates if the cover on the source container should be "peaked" off when transferred into/out of instead of taken off completely when performing Manual Transfers in order to reduce chances of contamination or minimize light exposure. When performing robotic manipulations, this indicates that the container should be re-covered after any manipulation that uncovers it is completed.
Default Calculation: Automatically set to True if Preparation->Manual. If Preparation->Robotic, set based on the KeepCovered field in Object[Sample]/Object[Container] for the source sample/container, or True if SterileTechnique is True.
ReplaceSourceCover
Indicates if the cover on the source container will be replaced at the end of the transfer with a new type of cover. If set to False, the previous cover (or a new instance of the previous cover if the previous cover is not reusable) will be used to cover the container after the transfer occurs.
SourceCover
The new cover that will be placed on the source container after the transfer occurs. By default, this option is set to Null which indicates that the previous cover will be used.
Default Calculation: Automatically set to a cover that is compatible with the source container if ReplaceSourceCover->True.
Pattern Description: An object of type or subtype Object[Item, Cap], Object[Item, PlateSeal], Object[Item, Lid], Model[Item, Cap], Model[Item, PlateSeal], or Model[Item, Lid] or Null.
Programmatic Pattern: ((Null | ObjectP[Join[CoverObjectTypes, CoverModelTypes]]) | Automatic) | Null
SourceSeptum
The new septum that will be placed on the source container after the transfer occurs. By default, this option is set to Null which indicates that the previous septum will be used (if there was previously a septum on the container). This option can only be set if a new SourceCover is to be used and that SourceCover is a Model[Item, Cap]/Object[Item, Cap] that has CoverType->Crimp and SeptumRequired->True.
Default Calculation: Automatically set to a septum that is compatible with the source container if ReplaceSourceCover->True.
Pattern Description: An object of type or subtype Model[Item, Septum] or Object[Item, Septum] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Septum], Object[Item, Septum]}]) | Automatic) | Null
SourceStopper
The new stopper that will be placed on the source container after the transfer occurs. By default, this option is set to Null which indicates that the previous stopper will be used (if there was previously a stopper on the container). This option can only be set if a new SourceCover is to be used and that SourceCover is a Model[Item, Cap]/Object[Item, Cap] that has CoverType->Crimp.
Default Calculation: Automatically set to a stopper that is compatible with the source container if ReplaceSourceCover->True.
Pattern Description: An object of type or subtype Model[Item, Stopper] or Object[Item, Stopper] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Stopper], Object[Item, Stopper]}]) | Automatic) | Null
KeepDestinationCovered
Indicates if the cover on the destination container should be "peaked" off when transferred into/out of instead of taken off completely when performing Manual Transfers in order to reduce chances of contamination or minimize light exposure. When performing robotic manipulations, this indicates that the container should be re-covered after any manipulation that uncovers it is completed.
Default Calculation: Automatically set to True if Preparation->Manual. If Preparation->Robotic, set based on the KeepCovered field in Object[Sample]/Object[Container] for the destination sample/container, or True if SterileTechnique is True.
ReplaceDestinationCover
Indicates if the cover on the destination container will be replaced at the end of the transfer with a new type of cover. If set to False, the previous cover (or a new instance of the previous cover if the previous cover is not reusable) will be used to cover the container after the transfer occurs.
Default Calculation: Automatically set to True if any of the DestinationCover options are specified.
DestinationCover
The new cover that will be placed on the destination container after the transfer occurs. By default, this option is set to Null which indicates that the previous cover will be used.
Default Calculation: Automatically set to a cover that is compatible with the destination container if ReplaceDestinationCover->True.
Pattern Description: An object of type or subtype Object[Item, Cap], Object[Item, PlateSeal], Object[Item, Lid], Model[Item, Cap], Model[Item, PlateSeal], or Model[Item, Lid] or Null.
Programmatic Pattern: ((Null | ObjectP[Join[CoverObjectTypes, CoverModelTypes]]) | Automatic) | Null
DestinationSeptum
The new septum that will be placed on the destination container after the transfer occurs. By default, this option is set to Null which indicates that the previous septum will be used (if there was previously a septum on the container). This option can only be set if a new DestinationCover is to be used and that DestinationCover is a Model[Item, Cap]/Object[Item, Cap] that has SeptumRequired->True.
Default Calculation: Automatically set to a septum that is compatible with the destination container if ReplaceDestinationCover->True.
Pattern Description: An object of type or subtype Model[Item, Septum] or Object[Item, Septum] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Septum], Object[Item, Septum]}]) | Automatic) | Null
DestinationStopper
The new stopper that will be placed on the destination container after the transfer occurs. By default, this option is set to Null which indicates that the previous stopper will be used (if there was previously a stopper on the container). This option can only be set if a new DestinationCover is to be used and that DestinationCover is a Model[Item, Cap]/Object[Item, Cap] that has CoverType->Crimp.
Default Calculation: Automatically set to a stopper that is compatible with the destination container if ReplaceDestinationCover->True.
Pattern Description: An object of type or subtype Model[Item, Stopper] or Object[Item, Stopper] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Stopper], Object[Item, Stopper]}]) | Automatic) | Null
Post Experiment
SamplesInStorageCondition
The non-default conditions under which the SamplesIn of this experiment should be stored after the protocol is completed. If left unset, SamplesIn will be stored according to their current StorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
SamplesOutStorageCondition
The non-default conditions under which any new samples generated by this experiment should be stored after the protocol is completed. If left unset, the new samples will be stored according to their Models' DefaultStorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.
ImageSample
Aliquot
Options
General
Source
Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String} | ObjectP[Model[Sample]]
SourceLabel
A user defined word or phrase used to identify the aliquot samples, for use in downstream unit operations.
SourceContainerLabel
A user defined word or phrase used to identify the aliquot sample's containers, for use in downstream unit operations.
Amount
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container if a liquid, or the current Mass or Count if a solid or counted item, respectively.
Programmatic Pattern: ((Null | (RangeP[0.1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0*Unit, 1*Unit] | GreaterP[0., 1.] | All)) | Automatic) | Null
TargetConcentration
The desired final concentration of analyte in the aliquot samples after dilution of aliquots of the input samples with the ConcentratedBuffer and BufferDiluent (or AssayBuffer).
TargetConcentrationAnalyte
Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample, or if none exist, the first identity model of any kind in the Composition field.
Pattern Description: An object of type or subtype Model[Molecule], Model[Molecule, cDNA], Model[Molecule, Oligomer], Model[Molecule, Transcript], Model[Molecule, Protein], Model[Molecule, Protein, Antibody], Model[Molecule, Carbohydrate], Model[Molecule, Polymer], Model[Resin], Model[Resin, SolidPhaseSupport], Model[Lysate], Model[ProprietaryFormulation], Model[Virus], Model[Cell], Model[Cell, Mammalian], Model[Cell, Bacteria], Model[Cell, Yeast], Model[Tissue], Model[Material], or Model[Species] or Null.
AssayVolume
Default Calculation: Automatically determined based on Volume, Mass, and TargetConcentration option values.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
ContainerOut
The desired type of container that should be used to prepare and house the aliquot samples, with indices indicating grouping of samples in the same plates, if desired.
Default Calculation: Automatically set as the PreferredContainer for the AssayVolume of the sample. For plates, attempts to fill all wells of a single plate with the same model before aliquoting into the next.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container}
Programmatic Pattern: ((ObjectP[{Model[Container], Object[Container]}] | _String) | {GreaterEqualP[1, 1] | Automatic, (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic
SampleOutLabel
ContainerOutLabel
DestinationWell
Default Calculation: Automatically set to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
Pattern Description: Any well from A1 to H12 for a 96-well plate or from A1 to P24 for a 384-well plate.
ConcentratedBuffer
The concentrated buffer which should be diluted by the BufferDilutionFactor in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the Amount and the total AssayVolume.
Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.
ConcentratedBufferLabel
A user defined word or phrase used to identify the concentrated buffer that is diluted by the BufferDilutionFactor in the final solution, for use in downstream unit operations.
BufferDilutionFactor
The dilution factor by which the concentrated buffer should be diluted in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the Amount and the total AssayVolume.
Default Calculation: If ConcentratedBuffer is specified, automatically set to the ConcentratedBufferDilutionFactor of that sample; otherwise, set to Null.
BufferDiluent
The buffer used to dilute the aliquot sample such that ConcentratedBuffer is diluted by BufferDilutionFactor in the final solution. The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the Amount and the total AssayVolume.
Default Calculation: Automatically set to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is specified; otherwise, set to Null.
Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Automatic) | Null
BufferDiluentLabel
The label of the buffer used to dilute the aliquot sample such that ConcentratedBuffer is diluted by BufferDilutionFactor in the final solution.
AssayBuffer
The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotVolume and the total AssayVolume.
Default Calculation: Automatically set to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified and AssayVolume dictates we require a buffer; otherwise, set to Null.
Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Automatic) | Null
AssayBufferLabel
A user defined word or phrase used to identify the buffer added to the aliquoted sample, for use in downstream unit operations.
ConsolidateAliquots
Indicates if aliquots from the same sample with the same target concentration should be prepared in the same ContainerOut. Aliquots from the same source sample not requiring dilution will also be consolidated.
Preparation
Indicates if this unit operation is carried out primarily robotically or manually. Manual unit operations are executed by a laboratory operator and robotic unit operations are executed by a liquid handling work cell.
WorkCell
The automated workstation with a collection of integrated instruments on which this unit operation will be will be performed if Preparation -> Robotic.
Post Experiment
SamplesOutStorageCondition
The non-default conditions under which any new samples generated by this experiment should be stored after the protocol is completed. If left unset, the new samples will be stored according to their Models' DefaultStorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
SamplesInStorageCondition
The non-default conditions under which the SamplesIn of this experiment should be stored after the protocol is completed. If left unset, SamplesIn will be stored according to their current StorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.
ImageSample
Consolidation
consolidationRules
The list of key/value pairs describing the transfer of specified amounts of multiple sources and their destination.
Pattern: {Sources -> {(NonSelfContainedSampleP | NonSelfContainedSampleModelP | ObjectP[{Model[Container, Vessel], Model[Container, ReactionVessel], Model[Container, Cuvette], Object[Container, Vessel], Object[Container, ReactionVessel], Object[Container, Cuvette]}] | {ObjectP[{Model[Container, Plate], Object[Container, Plate]}], WellP})..}, Amounts -> {GreaterEqualP[0*Milliliter]..} | {GreaterEqualP[0*Gram] | GreaterEqualP[0, 1]..}, Destination -> NonSelfContainedSampleP | ObjectP[{Model[Container, Vessel], Model[Container, ReactionVessel], Model[Container, Cuvette], Object[Container, Vessel], Object[Container, ReactionVessel], Object[Container, Cuvette]}] | {ObjectP[{Model[Container, Plate], Object[Container, Plate]}], WellP}}
Mix
Options
General
Sample
Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String} | ObjectP[Model[Sample]]
SampleLabel
A user defined word or phrase used to identify the samples that are being incubated, for use in downstream unit operations.
SampleContainerLabel
A user defined word or phrase used to identify the containers of the samples that are being incubated, for use in downstream unit operations.
RelativeHumidity
The amount of water vapor present in air that the samples are exposed to during incubation, relative to the amount needed for saturation.
Default Calculation: Automatically set to 70 Percent if using an environmental chamber with relative humidity control.
Pattern Description: Greater than or equal to 0 percent and less than or equal to 100 percent in increments of 1 percent or Null.
LightExposure
The range of wavelengths of light that the incubated samples are exposed to. Only available when incubating the samples in an environmental chamber with UVLight and VisibleLight control.
Default Calculation: Automatically set to UVLight if LightExposureIntensity is in units of Watt/Meter^2, set to VisibleLight if LightExposureIntensity is in units of Lumen/Meter^2, otherwise set to Null.
LightExposureIntensity
The intensity of light that the incubated samples will be exposed to during the course of the incubation. UVLight exposure is measured in Watt/Meter^2 and Visible Light Intensity is measured in Lumen/Meter^2.
Default Calculation: Automatically set to 19 Watt/Meter^2 if LightExposure is set to UVLight and 14500 Lumen/Meter^2 if LightExposure is set to VisibleLight. Otherwise, set to Null.
Programmatic Pattern: ((Null | (RangeP[2*(Watt/Meter^2), 36*(Watt/Meter^2)] | RangeP[2*(Lumen/Meter^2), 29000*(Lumen/Meter^2)])) | Automatic) | Null
TotalLightExposure
The total exposure of light that the incubated samples are exposed to during the course of the incubation. UVLight exposure is measured in Watt*Hour/Meter^2 and Visible Light exposure is measured in Lumen*Hour/Meter^2.
Programmatic Pattern: ((Null | (GreaterP[0*Watt*(Hour/Meter^2)] | GreaterP[0*Lumen*(Hour/Meter^2)])) | Automatic) | Null
LightExposureStandard
During light exposure experiments, a set of samples that are placed in an opaque box to receive identical incubation conditions without exposure to light. This option can only be set if incubating other samples in an environmental stability chamber with light exposure.
Pattern Description: List of one or more an object of type or subtype Object[Sample] or Object[Container] or a prepared sample entries or Null.
WorkCell
The automated workstation with a collection of integrated instruments on which this unit operation will be will be performed if Preparation -> Robotic.
Preparation
Indicates if this unit operation is carried out primarily robotically or manually. Manual unit operations are executed by a laboratory operator and robotic unit operations are executed by a liquid handling work cell.
Protocol
Thaw
Indicates if any SamplesIn are incubated until visibly liquid, before they are mixed and/or incubated.
Default Calculation: Automatically set to True if any corresponding Thaw options are set. Otherwise, set to False.
ThawTime
Default Calculation: If Thaw is set to True, this option is automatically set to the ThawTime field in the Object[Sample], if specified. Otherwise, extra small volume samples (under 10mL) will be thawed for 5 Minutes, small volume samples (under 50mL) will be thawed for 15 Minutes, medium volume samples (under 100mL) will be 30 Minutes, and large volume samples (over 100mL) will be thawed for an hour.
MaxThawTime
ThawTemperature
Pattern Description: Greater than or equal to -20 degrees Celsius and less than or equal to 90 degrees Celsius or Null.
ThawInstrument
Default Calculation: Automatically set to the first instrument in the list of compatible instruments found by IncubateDevices with the given SamplesIn and ThawTemperature, if Thaw->True.
Pattern Description: An object of type or subtype Model[Instrument, HeatBlock] or Object[Instrument, HeatBlock] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, HeatBlock], Object[Instrument, HeatBlock]}]) | Automatic) | Null
Mix
Default Calculation: Automatically set to True if any Mix related options are set. Otherwise, set to False.
MixType
Indicates the style of motion used to mix the sample. Options include Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, Nutate.
Default Calculation: Automatically sets based on the container of the sample and the Mix option. Specifically, if Mix is set to False, the option is set to Null. If MixInstrument is specified, the option is set based on the type of the Model[Instrument] or Object[Instrument] of the specified MixInstrument. If MixRate and Time are Null, when MixVolume is Null or larger than 50ml, the option is set to Invert, otherwise set to Pipette. If Amplitude, MaxTemperature, or DutyCycle is not Null, the option is set to Homogenizer. If MixRate is set, the option is set based on the type of the Model[Instrument] of the first instrument found by MixDevices that is compatible with the SamplesIn, Temperature, and MixRate.
Pattern Description: Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, or Nutate or Null.
MixUntilDissolved
Indicates if the mix should be continued up to the MaxTime or MaxNumberOfMixes (chosen according to the mix Type), in an attempt dissolve any solute.
Instrument
Figure 3.2: Primitives can be conducted both by a liquid handler or manually with a proper instrument. For some primitives (e.g., Transfer, Aliquot, and Consolidation), specific options (e.g., DispenseRate and OverAspirationVolume) can only be achieved by a liquid handler.
Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.
Pattern Description: An object of type or subtype Model[Instrument, Roller], Model[Instrument, OverheadStirrer], Model[Instrument, Vortex], Model[Instrument, Shaker], Model[Instrument, BottleRoller], Model[Instrument, Roller], Model[Instrument, Sonicator], Model[Instrument, HeatBlock], Model[Instrument, Homogenizer], Model[Instrument, Disruptor], Model[Instrument, Nutator], Model[Instrument, Thermocycler], Model[Instrument, EnvironmentalChamber], Model[Instrument, Pipette], Object[Instrument, Roller], Object[Instrument, OverheadStirrer], Object[Instrument, Vortex], Object[Instrument, Shaker], Object[Instrument, BottleRoller], Object[Instrument, Roller], Object[Instrument, Sonicator], Object[Instrument, HeatBlock], Object[Instrument, Homogenizer], Object[Instrument, Disruptor], Object[Instrument, Nutator], Object[Instrument, Thermocycler], Object[Instrument, EnvironmentalChamber], or Object[Instrument, Pipette] or Null.
Programmatic Pattern: ((Null | ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]]) | Automatic) | Null
StirBar
Default Calculation: If MixRate is above 1000 RPM, or if no compatible impeller can be found for the given stirrer, StirBar is automatically set to the largest compatible stir bar found. Here, a compatible impeller means that it can fit in the aperture of the sample's container, can reach the bottom of the sample's container, and is compatible with the stir instrument given; a compatible stir bar means that its width can fit in the aperture of the sample's container and that its length is not greater than the InternalDiameter of the sample's container. Otherwise set to Null.
Pattern Description: An object of type or subtype Model[Part, StirBar] or Object[Part, StirBar] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Part, StirBar], Object[Part, StirBar]}]) | Automatic) | Null
Time
Default Calculation: Automatically set to 5 Minute for robotic preparation. For manual preparation, if Thaw is True, set to 0 Minute; else if MaxTime is specified, Time is automatically set to 1/3 of MaxTime; otherwise set to 15 Minute. As a special case in manual preparation, when LightExposure is not Null, Thaw is True, set to 0 Minute; else if TotalLightExposure is specified and LightExposureIntensity is not Null, Time is automatically set to TotalLightExposure/LightExposureIntensity; otherwise set to 1 Hour.
MaxTime
Maximum duration of time for which the samples are mixed, in an attempt to dissolve any solute, if the MixUntilDissolved option is chosen. Note this option only applies for mix type: Shake, Roll, Vortex or Sonicate.
Default Calculation: Automatically set to 5 Hour if MixUntilDissolved is True, when an applicable MixType is chosen, otherwise set to Null.
PreSonicationTime
Default Calculation: Automatically set to 15 Minute for sonication over 1 hour, 0 Minute for sonication less than 1 hour. For MixType other than Sonicate, set to Null.
DutyCycle
The style how the homogenizer mixes the given sample via pulsation of the sonication horn. This duty cycle is repeated indefinitely until the specified Time/MaxTime has elapsed. This option can only be set when mixing via homogenization.
Default Calculation: Automatically set to {10 Millisecond, 10 Millisecond} if mixing by homogenization.
Programmatic Pattern: ((Null | {RangeP[0*Minute, 60*Hour], RangeP[0*Minute, 60*Hour]}) | Automatic) | Null
MixRate
Default Calculation: Automatically set to 300 RPM for robotic preparation. For manual preparation, MixRate is set to 20% of the MaxRotationRate if MixType is Stir, or otherwise is set to the average of MinRotationRate and MaxRotationRate of the instrument.
Programmatic Pattern: ((Null | (RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration])) | Automatic) | Null
MixRateProfile
The frequency of rotation of the mixing instrument used to mix the samples, over the course of time.
Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration]}..}) | Automatic) | Null
NumberOfMixes
Default Calculation: If MaxNumberOfMixes is specified, automatically set to 1/3 of MaxNumberOfMixes (round to integer); else if MixUntilDissolved->True, automatically set to 25; otherwise set to 15.
Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.
MaxNumberOfMixes
The maximum number of times for which the samples are mixed, in an attempt to dissolve any solute, if the MixUntilDissolved option is chosen. Note this option only applies for mix type: Pipette or Invert.
Default Calculation: When MixUntilDissolved->True, automatically set to 2*NumberOfMixes if it is Numeric (specified or automatically set); if not, set to 50.
Pattern Description: Greater than or equal to 1 and less than or equal to 250 in increments of 1 or Null.
MixVolume
Default Calculation: For robotic preparation, automatically set to 970 Microliter or sample volume informed by the field Volume of the sample, whichever is smaller. For manual preparation, automatically set to 50 Milliliter or half of the sample volume informed by the field Volume of the sample, whichever is smaller.
Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 50 milliliters or Null.
Temperature
The temperature of the device that is used to mix/incubate the sample. If mixing via homogenization, the pulse duty cycle of the sonication horn is automatically adjusted if the measured temperature of the sample exceeds this set temperature.
Default Calculation: Automatically set to 40 Celsius if AnnealingTime is specified, if not, set to Ambient.
Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.
Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Automatic) | Null
TemperatureProfile
Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinTemperatureProfileTemperature, $MaxTemperatureProfileTemperature]}..}) | Automatic) | Null
MaxTemperature
The maximum temperature that the sample is allowed to reach during mixing via homogenization or sonication. If the measured temperature is above this MaxTemperature, the homogenizer/sonicator turns off until the measured temperature is 2C below the MaxTemperature, then it automatically resumes.
Pattern Description: Greater than or equal to 0 degrees Celsius and less than or equal to 100 degrees Celsius or Null.
OscillationAngle
Pattern Description: Greater than or equal to 0 degrees and less than or equal to 15 degrees or Null.
Amplitude
The amplitude of the sonication horn when mixing via homogenization. When using a microtip horn (ex. for 2mL and 15mL tubes), the maximum amplitude is 70 Percent, as specified by the manufacturer, in order not to damage the instrument.
Pattern Description: Greater than or equal to 10 percent and less than or equal to 100 percent or Null.
AnnealingTime
Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the Time has passed.
Default Calculation: Automatically set to 0 Minute (or to Null in cases where the sample is not being incubated).
MixFlowRate
The speed at which liquid is aspirated and dispensed in a liquid before it is aspirated. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to 100 Microliter/Second when mixing by pipetting if Preparation->Robotic.
Pattern Description: MixFlowRate speed at which liquid should be drawn up into the pipette tip or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
MixPosition
The location from which liquid should be mixed by pipetting. This option can only be set if Preparation->Robotic.
MixPositionOffset
The distance from the center of the well that liquid will aspirated/dispensed while mixing the sample. When specifying a Z Offset, the Z Offset is calculated either as the height below the top of the well, the height above the bottom of the well, or the height below the detected liquid level, depending on value of the AspirationPosition option (Top|Bottom|LiquidLevel). When an AspirationAngle is specified, the AspirationPositionOffset is measured in the frame of reference of the tilted labware (so that wells that are further away from the pivot point of the tilt are in the same frame of reference as wells that are close to the pivot point of the tilt). This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to 2 Millimeter if MixType->Pipette and Preparation->Robotic.
Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null
MixTiltAngle
The angle that the sample's container is tilted during the mixing of the sample. The container is pivoted on its left edge when tilting occurs. This option can only be provided if Preparation->Robotic.
Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.
CorrectionCurve
The relationship between a target volume and the corrected volume that needs to be aspirated or dispensed to reach the target volume. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to correction curve set in the PipettingMethod for the Object[Sample] if MixType->Pipette and Preparation->Robotic.
Programmatic Pattern: ((Null | {{RangeP[0*Microliter, 1000*Microliter], RangeP[0*Microliter, 1250*Microliter]}..}) | Automatic) | Null
Tips
Default Calculation: If MixType->Pipette, automatically set to the preferred tips determined by TransferDevices with given MixVolume, as well as TipType and TipMaterial if specified, and it is also checked that the tips can reach the bottom of the container.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips]}]) | Automatic) | Null
TipType
Default Calculation: If Tips is specified, automatically set to the field TipType of the Model[Item, Tips] or the Model of Object[Item,Tips]. Otherwise, set to Null.
TipMaterial
The material of the pipette tips used to aspirate and dispense the requested volume during the transfer.
Default Calculation: If Tips is specified, automatically set to the field Material of the Model[Item, Tips] or the Model of Object[Item,Tips]. Otherwise, set to Null.
Pattern Description: {ABS, PLA, Acrylic, AmorphousFluoropolymer, CPVC, CTFE, Cycloolefine, COC, Delrin, ECTFE, EPDM, ETFE, EVA, FEP, FFKM, HDPE, Hypalon, LDPE, NaturalRubber, NBR, Neoprene, Nitrile, Noryl, Nylon, PEEK, PEI, Perlast, PharmaPure, Polycarbonate, Polyester, Polyethylene, Polyisoprene, Polyolefin, Polyoxymethylene, Polypropylene, Polysulfone, Polystyrene, Polyurethane, PVC, PCTFE, PETG, PF, PFA, PPS, PTFE, PVDF, SEBS, Silicone, Styrofoam, SyntheticRubber, TFM, TPE, Tygon, UVPlastic, UVXPO, Viton}, {Aluminum, Alloy, AnodisedAluminum, Brass, Bronze, CarbonSteel, CastIron, Chrome, Copper, Elgiloy, Gold, Hastelloy, Lead, Magnesium, Molybdenum, MP35N, MP35NHPS, Nickel, Niobium, Platinum, Silver, Steel, StainlessSteel, Titanium, Tungsten, Zinc}, {Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, AnoporeAlumina}, {Silica, Alumina, ResinParticlesWithLatexMicroBeads, CrossLinkedDextranBeads, CrossLinkedPolystyrene, AerisCoreShell, KinetexCoreShell, CrossLinkedAgarose, Vydac218MS, JordiGel, Styrene, SilicaCompositeTWIN, BEH, CSH, HSS, CarboPacPA1, CarboPacPA10, BEH}, AluminiumOxide, ZirconiumOxide, Ceramic, Epoxy, EpoxyResin, GlassyCarbon, {BorosilicateGlass, Glass, OpticalGlass}, Graphite, Porcelain, Oxidizer, {Cardboard, Wood}, {Agate, Quartz, UVQuartz, ESQuartz, FusedQuartz, IRQuartz}, Ruby, Sapphire, Silicon, Viton, or {VacuumMeltedStainlessSteel} or Null.
MultichannelMix
Default Calculation: Automatically set to True if there are multiple samples that are mixed via pipette, if MixType->Pipette.
DeviceChannel
The channel of the work cell that should be used to perform the pipetting mixing. This option can only be set if Preparation->Robotic and MixType->Pipette.
Default Calculation: Automatically set to SingleProbe1 if MultichannelMix->False. Otherwise, set to the appropriate channel to perform the transfer, if Preparation->Robotic and MixType->Pipette.
Pattern Description: MultiProbeHead, SingleProbe1, SingleProbe2, SingleProbe3, SingleProbe4, SingleProbe5, SingleProbe6, SingleProbe7, or SingleProbe8 or Null.
ResidualIncubation
Indicates if the incubation and/or mixing should continue after Time/MaxTime has finished while waiting to progress to the next step in the protocol.
Default Calculation: Automatically set to True if Temperature is non-Ambient and the samples being incubated have non-ambient TransportTemperature.
ResidualTemperature
The temperature at which the sample(s) should remain incubating after Time has elapsed. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to Temperature if ResidualIncubation is True and Preparation->Robotic.
Pattern Description: Ambient or Null or greater than or equal to 0 degrees Celsius and less than or equal to 105 degrees Celsius.
ResidualMix
Indicates that the sample(s) should remain shaking at the ResidualMixRate after Time has elapsed. This option can only be set if Preparation->Robotic.
ResidualMixRate
When mixing by shaking, this is the rate at which the sample(s) remains shaking after Time has elapsed. This option can only be set if Preparation->Robotic.
Pattern Description: Greater than or equal to 30 revolutions per minute and less than or equal to 2500 revolutions per minute or Null.
Preheat
Indicates if the incubation position is brought to Temperature before exposing the Sample to it. This option can only be set if Preparation->Robotic.
Cell Transformation
Transform
Indicates whether the incubation is intended to heat-shock cells in order to disrupt the cell membrane and allow a plasmid to be taken up and incorporated into the cell.
Default Calculation: Automatically set to True if any Transform-related options are specified. Otherwise, automatically set to Null if there are no cells detected in the input samples.
TransformHeatShockTemperature
The temperature at which the cells should be heat-shocked in order to disrupt the cell membrane and allow the plasmid to be taken up and incorporated into the cell.
Pattern Description: Greater than or equal to 37 degrees Celsius and less than or equal to 47 degrees Celsius or Null.
TransformHeatShockTime
The length of time for which the cells should be heat-shocked in order to disrupt the cell membrane and allow the plasmid to be taken up and incorporated into the cell.
Pattern Description: Greater than or equal to 0 seconds and less than or equal to 120 seconds or Null.
TransformPreHeatCoolingTime
The length of time for which the cells should be cooled prior to heat shocking in order to disrupt the cell membrane and allow the plasmid to be taken up and incorporated into the cell.
Pattern Description: Greater than or equal to 0 minutes and less than or equal to 120 minutes or Null.
TransformPostHeatCoolingTime
The length of time for which the cells should be cooled after heat shocking in order to disrupt the cell membrane and allow the plasmid to be taken up and incorporated into the cell.
Pattern Description: Greater than or equal to 0 minutes and less than or equal to 60 minutes or Null.
Preparatory Centrifugation
Centrifuge
Indicates if the SamplesIn should be centrifuged prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Centrifuge options are set. Otherwise, resolves to False.
CentrifugeInstrument
Pattern Description: An object of type or subtype Model[Instrument, Centrifuge] or Object[Instrument, Centrifuge] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, Centrifuge], Object[Instrument, Centrifuge]}]) | Automatic) | Null
CentrifugeIntensity
The rotational speed or the force that will be applied to the samples by centrifugation prior to starting the experiment.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.
Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null
CentrifugeTime
CentrifugeTemperature
The temperature at which the centrifuge chamber should be held while the samples are being centrifuged prior to starting the experiment.
Pattern Description: Ambient or greater than or equal to -10 degrees Celsius and less than or equal to 40 degrees Celsius or Null.
CentrifugeAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
CentrifugeAliquot
The amount of each sample that should be transferred from the SamplesIn into the CentrifugeAliquotContainer when performing an aliquot before centrifugation.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
Sample Preparation
CentrifugeAliquotContainer
The desired type of container that should be used to prepare and house the centrifuge samples which should be used in lieu of the SamplesIn for the experiment.
FilterAliquotContainer
The desired type of container that should be used to prepare and house the filter samples which should be used in lieu of the SamplesIn for the experiment.
Preparatory Filtering
Filtration
Indicates if the SamplesIn should be filter prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Filter options are set. Otherwise, resolves to False.
FiltrationType
Default Calculation: Will automatically resolve to a filtration type appropriate for the volume of sample being filtered.
FilterInstrument
Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.
Pattern Description: An object of type or subtype Model[Instrument, FilterBlock], Object[Instrument, FilterBlock], Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], or Object[Instrument, SyringePump] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, FilterBlock], Object[Instrument, FilterBlock], Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], Object[Instrument, SyringePump]}]) | Automatic) | Null
Filter
The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.
Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null
FilterMaterial
The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
PrefilterMaterial
The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
FilterPoreSize
The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
PrefilterPoreSize
The pore size of the filter; all particles larger than this should be removed during the filtration.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
FilterSyringe
Default Calculation: Resolves to an syringe appropriate to the volume of sample being filtered, if Filtration is set to True.
Pattern Description: An object of type or subtype Model[Container, Syringe] or Object[Container, Syringe] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container, Syringe], Object[Container, Syringe]}] | _String)) | Automatic) | Null
FilterHousing
The filter housing that should be used to hold the filter membrane when filtration is performed using a standalone filter membrane.
Default Calculation: Resolve to an housing capable of holding the size of the membrane being used, if filter with Membrane FilterType is being used and Filtration is set to True.
Pattern Description: An object of type or subtype Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], or Object[Instrument, FilterBlock] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], Object[Instrument, FilterBlock]}]) | Automatic) | Null
FilterIntensity
Default Calculation: Will automatically resolve to 2000 GravitationalAcceleration if FiltrationType is Centrifuge and Filtration is True.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.
Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null
FilterTime
Default Calculation: Will automatically resolve to 5 Minute if FiltrationType is Centrifuge and Filtration is True.
FilterTemperature
The temperature at which the centrifuge chamber will be held while the samples are being centrifuged during filtration.
Default Calculation: Will automatically resolve to 22 Celsius if FiltrationType is Centrifuge and Filtration is True.
FilterContainerOut
The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.
Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.
Programmatic Pattern: ((Null | ((ObjectP[{Model[Container], Object[Container]}] | _String) | {GreaterEqualP[1, 1] | Automatic, (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
FilterAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
FilterAliquot
The amount of each sample that should be transferred from the SamplesIn into the FilterAliquotContainer when performing an aliquot before filtration.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
FilterSterile
Default Calculation: Resolve to False if Filtration is indicated. If sterile filtration is desired, this option must manually be set to True.
Aliquoting
AliquotSampleLabel
A user defined word or phrase used to identify the samples after they are aliquotted, for use in downstream unit operations.
AliquotAmount
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container if a liquid, or the current Mass or Count if a solid or counted item, respectively.
Programmatic Pattern: ((Null | (RangeP[1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0*Unit, 1*Unit] | GreaterP[0., 1.] | All)) | Automatic) | Null
TargetConcentration
The desired final concentration of analyte in the AliquotSamples after dilution of aliquots of SamplesIn with the ConcentratedBuffer and BufferDiluent which should be used in lieu of the SamplesIn for the experiment.
TargetConcentrationAnalyte
Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample, or if none exist, the first identity model of any kind in the Composition field.
Pattern Description: An object of type or subtype Model[Molecule], Model[Molecule, cDNA], Model[Molecule, Oligomer], Model[Molecule, Transcript], Model[Molecule, Protein], Model[Molecule, Protein, Antibody], Model[Molecule, Carbohydrate], Model[Molecule, Polymer], Model[Resin], Model[Resin, SolidPhaseSupport], Model[Lysate], Model[ProprietaryFormulation], Model[Virus], Model[Cell], Model[Cell, Mammalian], Model[Cell, Bacteria], Model[Cell, Yeast], Model[Tissue], Model[Material], or Model[Species] or Null.
AssayVolume
Default Calculation: Automatically determined based on Volume and TargetConcentration option values.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
ConcentratedBuffer
The concentrated buffer which should be diluted by the BufferDilutionFactor in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
BufferDilutionFactor
The dilution factor by which the concentrated buffer should be diluted in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: If ConcentratedBuffer is specified, automatically set to the ConcentratedBufferDilutionFactor of that sample; otherwise, set to Null.
BufferDiluent
The buffer used to dilute the aliquot sample such that ConcentratedBuffer is diluted by BufferDilutionFactor in the final solution. The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
AssayBuffer
The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
AliquotSampleStorageCondition
The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
Aliquot
Indicates if aliquots should be taken from the SamplesIn and transferred into new AliquotSamples used in lieu of the SamplesIn for the experiment.
DestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.
Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null
AliquotPreparation
Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.
ConsolidateAliquots
AliquotContainer
The desired type of container that should be used to prepare and house the aliquot samples, with indices indicating grouping of samples in the same plates, if desired.
Default Calculation: Automatically set as the PreferredContainer for the AssayVolume of the sample. For plates, attempts to fill all wells of a single plate with the same model before aliquoting into the next.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null or {Index, Container} or list of one or more an object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null entries or list of one or more Automatic or Null or {Index, Container} entries.
Programmatic Pattern: (((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null) | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | {((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null))..} | {({GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | (Automatic | Null))..}) | Automatic) | Null
Post Experiment
SamplesInStorageCondition
The non-default conditions under which the SamplesIn of this experiment should be stored after the protocol is completed. If left unset, SamplesIn will be stored according to their current StorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.
ImageSample
Incubate
Options
General
Sample
Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String} | ObjectP[Model[Sample]]
SampleLabel
A user defined word or phrase used to identify the samples that are being incubated, for use in downstream unit operations.
SampleContainerLabel
A user defined word or phrase used to identify the containers of the samples that are being incubated, for use in downstream unit operations.
RelativeHumidity
The amount of water vapor present in air that the samples are exposed to during incubation, relative to the amount needed for saturation.
Default Calculation: Automatically set to 70 Percent if using an environmental chamber with relative humidity control.
Pattern Description: Greater than or equal to 0 percent and less than or equal to 100 percent in increments of 1 percent or Null.
LightExposure
The range of wavelengths of light that the incubated samples are exposed to. Only available when incubating the samples in an environmental chamber with UVLight and VisibleLight control.
Default Calculation: Automatically set to UVLight if LightExposureIntensity is in units of Watt/Meter^2, set to VisibleLight if LightExposureIntensity is in units of Lumen/Meter^2, otherwise set to Null.
LightExposureIntensity
The intensity of light that the incubated samples will be exposed to during the course of the incubation. UVLight exposure is measured in Watt/Meter^2 and Visible Light Intensity is measured in Lumen/Meter^2.
Default Calculation: Automatically set to 19 Watt/Meter^2 if LightExposure is set to UVLight and 14500 Lumen/Meter^2 if LightExposure is set to VisibleLight. Otherwise, set to Null.
Programmatic Pattern: ((Null | (RangeP[2*(Watt/Meter^2), 36*(Watt/Meter^2)] | RangeP[2*(Lumen/Meter^2), 29000*(Lumen/Meter^2)])) | Automatic) | Null
TotalLightExposure
The total exposure of light that the incubated samples are exposed to during the course of the incubation. UVLight exposure is measured in Watt*Hour/Meter^2 and Visible Light exposure is measured in Lumen*Hour/Meter^2.
Programmatic Pattern: ((Null | (GreaterP[0*Watt*(Hour/Meter^2)] | GreaterP[0*Lumen*(Hour/Meter^2)])) | Automatic) | Null
LightExposureStandard
During light exposure experiments, a set of samples that are placed in an opaque box to receive identical incubation conditions without exposure to light. This option can only be set if incubating other samples in an environmental stability chamber with light exposure.
Pattern Description: List of one or more an object of type or subtype Object[Sample] or Object[Container] or a prepared sample entries or Null.
WorkCell
The automated workstation with a collection of integrated instruments on which this unit operation will be will be performed if Preparation -> Robotic.
Preparation
Indicates if this unit operation is carried out primarily robotically or manually. Manual unit operations are executed by a laboratory operator and robotic unit operations are executed by a liquid handling work cell.
Protocol
Thaw
Indicates if any SamplesIn are incubated until visibly liquid, before they are mixed and/or incubated.
Default Calculation: Automatically set to True if any corresponding Thaw options are set. Otherwise, set to False.
ThawTime
Default Calculation: If Thaw is set to True, this option is automatically set to the ThawTime field in the Object[Sample], if specified. Otherwise, extra small volume samples (under 10mL) will be thawed for 5 Minutes, small volume samples (under 50mL) will be thawed for 15 Minutes, medium volume samples (under 100mL) will be 30 Minutes, and large volume samples (over 100mL) will be thawed for an hour.
MaxThawTime
ThawTemperature
Pattern Description: Greater than or equal to -20 degrees Celsius and less than or equal to 90 degrees Celsius or Null.
ThawInstrument
Default Calculation: Automatically set to the first instrument in the list of compatible instruments found by IncubateDevices with the given SamplesIn and ThawTemperature, if Thaw->True.
Pattern Description: An object of type or subtype Model[Instrument, HeatBlock] or Object[Instrument, HeatBlock] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, HeatBlock], Object[Instrument, HeatBlock]}]) | Automatic) | Null
Mix
Default Calculation: Automatically set to True if any Mix related options are set. Otherwise, set to False.
MixType
Indicates the style of motion used to mix the sample. Options include Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, Nutate.
Default Calculation: Automatically sets based on the container of the sample and the Mix option. Specifically, if Mix is set to False, the option is set to Null. If MixInstrument is specified, the option is set based on the type of the Model[Instrument] or Object[Instrument] of the specified MixInstrument. If MixRate and Time are Null, when MixVolume is Null or larger than 50ml, the option is set to Invert, otherwise set to Pipette. If Amplitude, MaxTemperature, or DutyCycle is not Null, the option is set to Homogenizer. If MixRate is set, the option is set based on the type of the Model[Instrument] of the first instrument found by MixDevices that is compatible with the SamplesIn, Temperature, and MixRate.
Pattern Description: Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, or Nutate or Null.
MixUntilDissolved
Indicates if the mix should be continued up to the MaxTime or MaxNumberOfMixes (chosen according to the mix Type), in an attempt dissolve any solute.
Instrument
Figure 3.3: Primitives can be conducted both by a liquid handler or manually with a proper instrument. For some primitives (e.g., Transfer, Aliquot, and Consolidation), specific options (e.g., DispenseRate and OverAspirationVolume) can only be achieved by a liquid handler.
Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.
Pattern Description: An object of type or subtype Model[Instrument, Roller], Model[Instrument, OverheadStirrer], Model[Instrument, Vortex], Model[Instrument, Shaker], Model[Instrument, BottleRoller], Model[Instrument, Roller], Model[Instrument, Sonicator], Model[Instrument, HeatBlock], Model[Instrument, Homogenizer], Model[Instrument, Disruptor], Model[Instrument, Nutator], Model[Instrument, Thermocycler], Model[Instrument, EnvironmentalChamber], Model[Instrument, Pipette], Object[Instrument, Roller], Object[Instrument, OverheadStirrer], Object[Instrument, Vortex], Object[Instrument, Shaker], Object[Instrument, BottleRoller], Object[Instrument, Roller], Object[Instrument, Sonicator], Object[Instrument, HeatBlock], Object[Instrument, Homogenizer], Object[Instrument, Disruptor], Object[Instrument, Nutator], Object[Instrument, Thermocycler], Object[Instrument, EnvironmentalChamber], or Object[Instrument, Pipette] or Null.
Programmatic Pattern: ((Null | ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]]) | Automatic) | Null
StirBar
Default Calculation: If MixRate is above 1000 RPM, or if no compatible impeller can be found for the given stirrer, StirBar is automatically set to the largest compatible stir bar found. Here, a compatible impeller means that it can fit in the aperture of the sample's container, can reach the bottom of the sample's container, and is compatible with the stir instrument given; a compatible stir bar means that its width can fit in the aperture of the sample's container and that its length is not greater than the InternalDiameter of the sample's container. Otherwise set to Null.
Pattern Description: An object of type or subtype Model[Part, StirBar] or Object[Part, StirBar] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Part, StirBar], Object[Part, StirBar]}]) | Automatic) | Null
Time
Default Calculation: Automatically set to 5 Minute for robotic preparation. For manual preparation, if Thaw is True, set to 0 Minute; else if MaxTime is specified, Time is automatically set to 1/3 of MaxTime; otherwise set to 15 Minute. As a special case in manual preparation, when LightExposure is not Null, Thaw is True, set to 0 Minute; else if TotalLightExposure is specified and LightExposureIntensity is not Null, Time is automatically set to TotalLightExposure/LightExposureIntensity; otherwise set to 1 Hour.
MaxTime
Maximum duration of time for which the samples are mixed, in an attempt to dissolve any solute, if the MixUntilDissolved option is chosen. Note this option only applies for mix type: Shake, Roll, Vortex or Sonicate.
Default Calculation: Automatically set to 5 Hour if MixUntilDissolved is True, when an applicable MixType is chosen, otherwise set to Null.
PreSonicationTime
Default Calculation: Automatically set to 15 Minute for sonication over 1 hour, 0 Minute for sonication less than 1 hour. For MixType other than Sonicate, set to Null.
DutyCycle
The style how the homogenizer mixes the given sample via pulsation of the sonication horn. This duty cycle is repeated indefinitely until the specified Time/MaxTime has elapsed. This option can only be set when mixing via homogenization.
Default Calculation: Automatically set to {10 Millisecond, 10 Millisecond} if mixing by homogenization.
Programmatic Pattern: ((Null | {RangeP[0*Minute, 60*Hour], RangeP[0*Minute, 60*Hour]}) | Automatic) | Null
MixRate
Default Calculation: Automatically set to 300 RPM for robotic preparation. For manual preparation, MixRate is set to 20% of the MaxRotationRate if MixType is Stir, or otherwise is set to the average of MinRotationRate and MaxRotationRate of the instrument.
Programmatic Pattern: ((Null | (RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration])) | Automatic) | Null
MixRateProfile
The frequency of rotation of the mixing instrument used to mix the samples, over the course of time.
Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration]}..}) | Automatic) | Null
NumberOfMixes
Default Calculation: If MaxNumberOfMixes is specified, automatically set to 1/3 of MaxNumberOfMixes (round to integer); else if MixUntilDissolved->True, automatically set to 25; otherwise set to 15.
Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.
MaxNumberOfMixes
The maximum number of times for which the samples are mixed, in an attempt to dissolve any solute, if the MixUntilDissolved option is chosen. Note this option only applies for mix type: Pipette or Invert.
Default Calculation: When MixUntilDissolved->True, automatically set to 2*NumberOfMixes if it is Numeric (specified or automatically set); if not, set to 50.
Pattern Description: Greater than or equal to 1 and less than or equal to 250 in increments of 1 or Null.
MixVolume
Default Calculation: For robotic preparation, automatically set to 970 Microliter or sample volume informed by the field Volume of the sample, whichever is smaller. For manual preparation, automatically set to 50 Milliliter or half of the sample volume informed by the field Volume of the sample, whichever is smaller.
Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 50 milliliters or Null.
Temperature
The temperature of the device that is used to mix/incubate the sample. If mixing via homogenization, the pulse duty cycle of the sonication horn is automatically adjusted if the measured temperature of the sample exceeds this set temperature.
Default Calculation: Automatically set to 40 Celsius if AnnealingTime is specified, if not, set to Ambient.
Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.
Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Automatic) | Null
TemperatureProfile
Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinTemperatureProfileTemperature, $MaxTemperatureProfileTemperature]}..}) | Automatic) | Null
MaxTemperature
The maximum temperature that the sample is allowed to reach during mixing via homogenization or sonication. If the measured temperature is above this MaxTemperature, the homogenizer/sonicator turns off until the measured temperature is 2C below the MaxTemperature, then it automatically resumes.
Pattern Description: Greater than or equal to 0 degrees Celsius and less than or equal to 100 degrees Celsius or Null.
OscillationAngle
Pattern Description: Greater than or equal to 0 degrees and less than or equal to 15 degrees or Null.
Amplitude
The amplitude of the sonication horn when mixing via homogenization. When using a microtip horn (ex. for 2mL and 15mL tubes), the maximum amplitude is 70 Percent, as specified by the manufacturer, in order not to damage the instrument.
Pattern Description: Greater than or equal to 10 percent and less than or equal to 100 percent or Null.
AnnealingTime
Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the Time has passed.
Default Calculation: Automatically set to 0 Minute (or to Null in cases where the sample is not being incubated).
MixFlowRate
The speed at which liquid is aspirated and dispensed in a liquid before it is aspirated. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to 100 Microliter/Second when mixing by pipetting if Preparation->Robotic.
Pattern Description: MixFlowRate speed at which liquid should be drawn up into the pipette tip or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
MixPosition
The location from which liquid should be mixed by pipetting. This option can only be set if Preparation->Robotic.
MixPositionOffset
The distance from the center of the well that liquid will aspirated/dispensed while mixing the sample. When specifying a Z Offset, the Z Offset is calculated either as the height below the top of the well, the height above the bottom of the well, or the height below the detected liquid level, depending on value of the AspirationPosition option (Top|Bottom|LiquidLevel). When an AspirationAngle is specified, the AspirationPositionOffset is measured in the frame of reference of the tilted labware (so that wells that are further away from the pivot point of the tilt are in the same frame of reference as wells that are close to the pivot point of the tilt). This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to 2 Millimeter if MixType->Pipette and Preparation->Robotic.
Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null
MixTiltAngle
The angle that the sample's container is tilted during the mixing of the sample. The container is pivoted on its left edge when tilting occurs. This option can only be provided if Preparation->Robotic.
Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.
CorrectionCurve
The relationship between a target volume and the corrected volume that needs to be aspirated or dispensed to reach the target volume. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to correction curve set in the PipettingMethod for the Object[Sample] if MixType->Pipette and Preparation->Robotic.
Programmatic Pattern: ((Null | {{RangeP[0*Microliter, 1000*Microliter], RangeP[0*Microliter, 1250*Microliter]}..}) | Automatic) | Null
Tips
Default Calculation: If MixType->Pipette, automatically set to the preferred tips determined by TransferDevices with given MixVolume, as well as TipType and TipMaterial if specified, and it is also checked that the tips can reach the bottom of the container.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips]}]) | Automatic) | Null
TipType
Default Calculation: If Tips is specified, automatically set to the field TipType of the Model[Item, Tips] or the Model of Object[Item,Tips]. Otherwise, set to Null.
TipMaterial
The material of the pipette tips used to aspirate and dispense the requested volume during the transfer.
Default Calculation: If Tips is specified, automatically set to the field Material of the Model[Item, Tips] or the Model of Object[Item,Tips]. Otherwise, set to Null.
Pattern Description: {ABS, PLA, Acrylic, AmorphousFluoropolymer, CPVC, CTFE, Cycloolefine, COC, Delrin, ECTFE, EPDM, ETFE, EVA, FEP, FFKM, HDPE, Hypalon, LDPE, NaturalRubber, NBR, Neoprene, Nitrile, Noryl, Nylon, PEEK, PEI, Perlast, PharmaPure, Polycarbonate, Polyester, Polyethylene, Polyisoprene, Polyolefin, Polyoxymethylene, Polypropylene, Polysulfone, Polystyrene, Polyurethane, PVC, PCTFE, PETG, PF, PFA, PPS, PTFE, PVDF, SEBS, Silicone, Styrofoam, SyntheticRubber, TFM, TPE, Tygon, UVPlastic, UVXPO, Viton}, {Aluminum, Alloy, AnodisedAluminum, Brass, Bronze, CarbonSteel, CastIron, Chrome, Copper, Elgiloy, Gold, Hastelloy, Lead, Magnesium, Molybdenum, MP35N, MP35NHPS, Nickel, Niobium, Platinum, Silver, Steel, StainlessSteel, Titanium, Tungsten, Zinc}, {Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, AnoporeAlumina}, {Silica, Alumina, ResinParticlesWithLatexMicroBeads, CrossLinkedDextranBeads, CrossLinkedPolystyrene, AerisCoreShell, KinetexCoreShell, CrossLinkedAgarose, Vydac218MS, JordiGel, Styrene, SilicaCompositeTWIN, BEH, CSH, HSS, CarboPacPA1, CarboPacPA10, BEH}, AluminiumOxide, ZirconiumOxide, Ceramic, Epoxy, EpoxyResin, GlassyCarbon, {BorosilicateGlass, Glass, OpticalGlass}, Graphite, Porcelain, Oxidizer, {Cardboard, Wood}, {Agate, Quartz, UVQuartz, ESQuartz, FusedQuartz, IRQuartz}, Ruby, Sapphire, Silicon, Viton, or {VacuumMeltedStainlessSteel} or Null.
MultichannelMix
Default Calculation: Automatically set to True if there are multiple samples that are mixed via pipette, if MixType->Pipette.
DeviceChannel
The channel of the work cell that should be used to perform the pipetting mixing. This option can only be set if Preparation->Robotic and MixType->Pipette.
Default Calculation: Automatically set to SingleProbe1 if MultichannelMix->False. Otherwise, set to the appropriate channel to perform the transfer, if Preparation->Robotic and MixType->Pipette.
Pattern Description: MultiProbeHead, SingleProbe1, SingleProbe2, SingleProbe3, SingleProbe4, SingleProbe5, SingleProbe6, SingleProbe7, or SingleProbe8 or Null.
ResidualIncubation
Indicates if the incubation and/or mixing should continue after Time/MaxTime has finished while waiting to progress to the next step in the protocol.
Default Calculation: Automatically set to True if Temperature is non-Ambient and the samples being incubated have non-ambient TransportTemperature.
ResidualTemperature
The temperature at which the sample(s) should remain incubating after Time has elapsed. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to Temperature if ResidualIncubation is True and Preparation->Robotic.
Pattern Description: Ambient or Null or greater than or equal to 0 degrees Celsius and less than or equal to 105 degrees Celsius.
ResidualMix
Indicates that the sample(s) should remain shaking at the ResidualMixRate after Time has elapsed. This option can only be set if Preparation->Robotic.
ResidualMixRate
When mixing by shaking, this is the rate at which the sample(s) remains shaking after Time has elapsed. This option can only be set if Preparation->Robotic.
Pattern Description: Greater than or equal to 30 revolutions per minute and less than or equal to 2500 revolutions per minute or Null.
Preheat
Indicates if the incubation position is brought to Temperature before exposing the Sample to it. This option can only be set if Preparation->Robotic.
Cell Transformation
Transform
Indicates whether the incubation is intended to heat-shock cells in order to disrupt the cell membrane and allow a plasmid to be taken up and incorporated into the cell.
Default Calculation: Automatically set to True if any Transform-related options are specified. Otherwise, automatically set to Null if there are no cells detected in the input samples.
TransformHeatShockTemperature
The temperature at which the cells should be heat-shocked in order to disrupt the cell membrane and allow the plasmid to be taken up and incorporated into the cell.
Pattern Description: Greater than or equal to 37 degrees Celsius and less than or equal to 47 degrees Celsius or Null.
TransformHeatShockTime
The length of time for which the cells should be heat-shocked in order to disrupt the cell membrane and allow the plasmid to be taken up and incorporated into the cell.
Pattern Description: Greater than or equal to 0 seconds and less than or equal to 120 seconds or Null.
TransformPreHeatCoolingTime
The length of time for which the cells should be cooled prior to heat shocking in order to disrupt the cell membrane and allow the plasmid to be taken up and incorporated into the cell.
Pattern Description: Greater than or equal to 0 minutes and less than or equal to 120 minutes or Null.
TransformPostHeatCoolingTime
The length of time for which the cells should be cooled after heat shocking in order to disrupt the cell membrane and allow the plasmid to be taken up and incorporated into the cell.
Pattern Description: Greater than or equal to 0 minutes and less than or equal to 60 minutes or Null.
Preparatory Centrifugation
Centrifuge
Indicates if the SamplesIn should be centrifuged prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Centrifuge options are set. Otherwise, resolves to False.
CentrifugeInstrument
Pattern Description: An object of type or subtype Model[Instrument, Centrifuge] or Object[Instrument, Centrifuge] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, Centrifuge], Object[Instrument, Centrifuge]}]) | Automatic) | Null
CentrifugeIntensity
The rotational speed or the force that will be applied to the samples by centrifugation prior to starting the experiment.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.
Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null
CentrifugeTime
CentrifugeTemperature
The temperature at which the centrifuge chamber should be held while the samples are being centrifuged prior to starting the experiment.
Pattern Description: Ambient or greater than or equal to -10 degrees Celsius and less than or equal to 40 degrees Celsius or Null.
CentrifugeAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
CentrifugeAliquot
The amount of each sample that should be transferred from the SamplesIn into the CentrifugeAliquotContainer when performing an aliquot before centrifugation.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
Sample Preparation
CentrifugeAliquotContainer
The desired type of container that should be used to prepare and house the centrifuge samples which should be used in lieu of the SamplesIn for the experiment.
FilterAliquotContainer
The desired type of container that should be used to prepare and house the filter samples which should be used in lieu of the SamplesIn for the experiment.
Preparatory Filtering
Filtration
Indicates if the SamplesIn should be filter prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Filter options are set. Otherwise, resolves to False.
FiltrationType
Default Calculation: Will automatically resolve to a filtration type appropriate for the volume of sample being filtered.
FilterInstrument
Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.
Pattern Description: An object of type or subtype Model[Instrument, FilterBlock], Object[Instrument, FilterBlock], Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], or Object[Instrument, SyringePump] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, FilterBlock], Object[Instrument, FilterBlock], Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], Object[Instrument, SyringePump]}]) | Automatic) | Null
Filter
The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.
Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null
FilterMaterial
The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
PrefilterMaterial
The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
FilterPoreSize
The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
PrefilterPoreSize
The pore size of the filter; all particles larger than this should be removed during the filtration.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
FilterSyringe
Default Calculation: Resolves to an syringe appropriate to the volume of sample being filtered, if Filtration is set to True.
Pattern Description: An object of type or subtype Model[Container, Syringe] or Object[Container, Syringe] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container, Syringe], Object[Container, Syringe]}] | _String)) | Automatic) | Null
FilterHousing
The filter housing that should be used to hold the filter membrane when filtration is performed using a standalone filter membrane.
Default Calculation: Resolve to an housing capable of holding the size of the membrane being used, if filter with Membrane FilterType is being used and Filtration is set to True.
Pattern Description: An object of type or subtype Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], or Object[Instrument, FilterBlock] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], Object[Instrument, FilterBlock]}]) | Automatic) | Null
FilterIntensity
Default Calculation: Will automatically resolve to 2000 GravitationalAcceleration if FiltrationType is Centrifuge and Filtration is True.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.
Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null
FilterTime
Default Calculation: Will automatically resolve to 5 Minute if FiltrationType is Centrifuge and Filtration is True.
FilterTemperature
The temperature at which the centrifuge chamber will be held while the samples are being centrifuged during filtration.
Default Calculation: Will automatically resolve to 22 Celsius if FiltrationType is Centrifuge and Filtration is True.
FilterContainerOut
The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.
Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.
Programmatic Pattern: ((Null | ((ObjectP[{Model[Container], Object[Container]}] | _String) | {GreaterEqualP[1, 1] | Automatic, (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
FilterAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
FilterAliquot
The amount of each sample that should be transferred from the SamplesIn into the FilterAliquotContainer when performing an aliquot before filtration.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
FilterSterile
Default Calculation: Resolve to False if Filtration is indicated. If sterile filtration is desired, this option must manually be set to True.
Aliquoting
AliquotSampleLabel
A user defined word or phrase used to identify the samples after they are aliquotted, for use in downstream unit operations.
AliquotAmount
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container if a liquid, or the current Mass or Count if a solid or counted item, respectively.
Programmatic Pattern: ((Null | (RangeP[1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0*Unit, 1*Unit] | GreaterP[0., 1.] | All)) | Automatic) | Null
TargetConcentration
The desired final concentration of analyte in the AliquotSamples after dilution of aliquots of SamplesIn with the ConcentratedBuffer and BufferDiluent which should be used in lieu of the SamplesIn for the experiment.
TargetConcentrationAnalyte
Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample, or if none exist, the first identity model of any kind in the Composition field.
Pattern Description: An object of type or subtype Model[Molecule], Model[Molecule, cDNA], Model[Molecule, Oligomer], Model[Molecule, Transcript], Model[Molecule, Protein], Model[Molecule, Protein, Antibody], Model[Molecule, Carbohydrate], Model[Molecule, Polymer], Model[Resin], Model[Resin, SolidPhaseSupport], Model[Lysate], Model[ProprietaryFormulation], Model[Virus], Model[Cell], Model[Cell, Mammalian], Model[Cell, Bacteria], Model[Cell, Yeast], Model[Tissue], Model[Material], or Model[Species] or Null.
AssayVolume
Default Calculation: Automatically determined based on Volume and TargetConcentration option values.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
ConcentratedBuffer
The concentrated buffer which should be diluted by the BufferDilutionFactor in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
BufferDilutionFactor
The dilution factor by which the concentrated buffer should be diluted in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: If ConcentratedBuffer is specified, automatically set to the ConcentratedBufferDilutionFactor of that sample; otherwise, set to Null.
BufferDiluent
The buffer used to dilute the aliquot sample such that ConcentratedBuffer is diluted by BufferDilutionFactor in the final solution. The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
AssayBuffer
The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
AliquotSampleStorageCondition
The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
Aliquot
Indicates if aliquots should be taken from the SamplesIn and transferred into new AliquotSamples used in lieu of the SamplesIn for the experiment.
DestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.
Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null
AliquotPreparation
Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.
ConsolidateAliquots
AliquotContainer
The desired type of container that should be used to prepare and house the aliquot samples, with indices indicating grouping of samples in the same plates, if desired.
Default Calculation: Automatically set as the PreferredContainer for the AssayVolume of the sample. For plates, attempts to fill all wells of a single plate with the same model before aliquoting into the next.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null or {Index, Container} or list of one or more an object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null entries or list of one or more Automatic or Null or {Index, Container} entries.
Programmatic Pattern: (((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null) | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | {((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null))..} | {({GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | (Automatic | Null))..}) | Automatic) | Null
Post Experiment
SamplesInStorageCondition
The non-default conditions under which the SamplesIn of this experiment should be stored after the protocol is completed. If left unset, SamplesIn will be stored according to their current StorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.
ImageSample
Filter
Options
General
Sample
Programmatic Pattern: ((ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String} | ObjectP[Model[Sample]]) | Null
SampleLabel
A user defined word or phrase used to identify the sample that goes into the filter, for use in downstream unit operations.
SampleContainerLabel
A user defined word or phrase used to identify the sample's container that goes into the filter, for use in downstream unit operations.
FiltrateLabel
A user defined word or phrase used to identify the sample that has gone through the filter, for use in downstream unit operations.
FiltrateContainerLabel
A user defined word or phrase used to identify the container of the sample that has gone through the filter, for use in downstream unit operations.
RetentateLabel
A user defined word or phrase used to identify the sample that was retained on the filter and subsequently collected, for use in downstream unit operations.
RetentateContainerLabel
A user defined word or phrase used to identify the container of the sample that was retained on the filter and subsequently collected, for use in downstream unit operations.
SampleOutLabel
A user defined word or phrase used to identify the sample collected at the end of the filtration (either the Filtrate or Retentate), for use in downstream unit operations.
Default Calculation: Automatically set to the value of RetentateLabel if Target -> Retentate, or FiltrateLabel if Target -> Filtrate.
ContainerOutLabel
A user defined word or phrase used to identify the container of the sample collected at the end of the filtration (either the Filtrate or Retentate), for use in downstream unit operations.
Default Calculation: Automatically set to the value of RetentateContainerLabel if Target -> Retentate, or FiltrateContainerLabel if Target -> Filtrate.
FilterLabel
A user defined word or phrase used to identify the filter through which the sample is forced, for use in downstream unit operations.
CollectionContainerLabel
A user defined word or phrase used to identify the label of the container that will be used to accumulate the filtrate when filtering by Centrifuge or Vacuum and Buchner funnel (if applicable), for use in downstream unit operations.
ResuspensionBufferLabel
A user defined word or phrase used to identify the sample in which the retentate is resuspended prior to being transferred to RetentateDestinationWell of RetentateContainerOut, for use in downstream unit operations
ResuspensionBufferContainerLabel
A user defined word or phrase used to identify the sample in which the retentate is resuspended prior to being transferred to RetentateDestinationWell of RetentateContainerOut.
RetentateWashBufferLabel
A user defined word or phrase used to identify the sample that is run through the retentate and filter after initial filtration prior to retentate collection. This value can contain one or multiple different buffers per input sample.
RetentateWashBufferContainerLabel
A user defined word or phrase used to identify the container holding the sample that is run through the retentate and filter after initial filtration prior to retentate collection. This value can contain one or multiple different buffers per input sample.
CollectionContainer
The container that will be used to accumulate the filtrate when filtering by Centrifuge or Vacuum and Buchner funnel (if applicable).
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container], Object[Container]}] | _String)) | Automatic) | Null
Volume
The amount of sample to be transferred into the filter (if it is not already there) prior to its filtration. This option can only be set if Preparation->Robotic.
OccludingRetentateContainerLabel
A user defined word or phrase used to identify the container of the sample that clogged a filter and was subsequently collected, for use in downstream unit operations.
WashFlowThroughLabel
The label of the sample that is run through the retentate and filter after initial filtration prior to retentate collection. This value can contain one or multiple different labels for flow through samples per input sample.
WashFlowThroughContainerLabel
The label of the container holding sample that is run through the retentate and filter after initial filtration prior to retentate collection. This value can contain one or multiple different labels for containers of flow through samples per input sample.
WashFlowThroughContainer
The container holding sample that is run through the retentate and filter after initial filtration prior to retentate collection. This value can contain one or multiple different containers of flow through samples per input sample.
Default Calculation: Automatically set to the same value as FiltrateContainerOut if WashRetentate -> True, or Null otherwise.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or list of one or more an object of type or subtype Model[Container] or Object[Container] or a prepared sample or Null or Automatic entries or Null.
Programmatic Pattern: ((Null | ((ObjectP[{Model[Container], Object[Container]}] | _String) | {((ObjectP[{Model[Container], Object[Container]}] | _String) | (Null | Automatic))..})) | Automatic) | Null
WashFlowThroughDestinationWell
The position in the container holding sample that is run through the retentate and filter after initial filtration prior to retentate collection.
Default Calculation: Automatically set to the same value as FiltrateContainerOut if WashRetentate -> True, or Null otherwise.
Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or Null or Automatic entries or Null.
Programmatic Pattern: ((Null | (WellPositionP | {(WellPositionP | (Null | Automatic))..})) | Automatic) | Null
WorkCell
The automated workstation with a collection of integrated instruments on which this unit operation will be will be performed if Preparation -> Robotic.
Preparation
Indicates if this unit operation is carried out primarily robotically or manually. Manual unit operations are executed by a laboratory operator and robotic unit operations are executed by a liquid handling work cell.
Method
FiltrationType
The type of dead-end filtration method that should be used to perform the filtration. This option can only be set to AirPressure if Preparation->Robotic.
Default Calculation: Will be automatically set to a filtration type appropriate for the volume of sample being filtered.
Time
Default Calculation: For Syringe filtration, automatically set to the MaxVolume of the syringe divided by the desired flow rate. This option may be overwritten if both FlowRate and Time options are provided. For other filtration types, automatically set to 5 minutes, or the value of MaxTime, whichever is shorter.
FilterUntilDrained
Indicates if the filtration should be continued until the sample has all been filtered, or up to the MaxTime, in an attempt to filter the entire sample.
Default Calculation: Automatically set to True if MaxTime is specified, or if Type is set to PeristalticPump or Vacuum. Automatically set to False otherwise.
MaxTime
Maximum duration of time for which the samples will be filtered, if the FilterUntilDrained option is chosen. Note this option only applies for filtration types: PeristalticPump or Vacuum.
Default Calculation: Automatically set to 3 * Time if Type is PeristalticPump or Vacuum, or Null otherwise.
Instrument
The instrument that should be used to perform the filtration. This option can only be set to pressure filter if Preparation->Robotic.
Figure 3.4: Primitives can be conducted both by a liquid handler or manually with a proper instrument. For some primitives (e.g., Transfer, Aliquot, and Consolidation), specific options (e.g., DispenseRate and OverAspirationVolume) can only be achieved by a liquid handler.
Default Calculation: Will be automatically set to an instrument appropriate for the filtration type.
Pattern Description: An object of type or subtype Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], Object[Instrument, SyringePump], Model[Instrument, PressureManifold], or Object[Instrument, PressureManifold]
Programmatic Pattern: ObjectP[{Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], Object[Instrument, SyringePump], Model[Instrument, PressureManifold], Object[Instrument, PressureManifold]}] | Automatic
Syringe
Default Calculation: Automatically set to an syringe appropriate to the volume of sample being filtered.
Pattern Description: An object of type or subtype Model[Container, Syringe] or Object[Container, Syringe] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container, Syringe], Object[Container, Syringe]}] | _String)) | Automatic) | Null
FlowRate
Pattern Description: Greater than or equal to 0.1 milliliters per minute and less than or equal to 20 milliliters per minute or Null.
Programmatic Pattern: ((Null | RangeP[0.1*(Milliliter/Minute), 20*(Milliliter/Minute)]) | Automatic) | Null
Sterile
Default Calculation: Automatically set to True if WorkCell is set to bioSTAR, or if Instrument is set to Model[Instrument, Centrifuge, "HiG4"].
FilterHousing
The filter housing that should be used to hold the filter membrane when filtration is performed using a standalone filter membrane on peristaltic pump.
Default Calculation: Automatically set to a housing capable of holding the size of the membrane being used, if filter with Membrane FilterType is being used.
Pattern Description: An object of type or subtype Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], or Object[Instrument, FilterBlock] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], Object[Instrument, FilterBlock]}]) | Automatic) | Null
Temperature
The temperature at which the centrifuge chamber will be held while the samples are being centrifuged during filtration.
Default Calculation: Will be automatically set to $AmbientTemperature if filtering type is Centrifuge.
Pressure
Counterweight
Default Calculation: Automatically set to the appropriate model for the weight of the samples if FiltrationType -> Centrifuge, or Null otherwise.
Pattern Description: An object of type or subtype Model[Item, Counterweight] or Object[Item, Counterweight] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Item, Counterweight], Object[Item, Counterweight]}] | _String)) | Automatic) | Null
Protocol
Intensity
Default Calculation: Will be automatically set to 2000 GravitationalAcceleration if filtering type is Centrifuge.
Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null
Target
Indicates if the filtrate samples or retentate samples should populate SamplesOut. Note that if set to Retentate, Filtrate will still be collected as well, just not populated in SamplesOut.
PrewetFilterCentrifugeIntensity
The rotational speed or force at which the PrewetFilterBuffer will be centrifuged prior to filtration.
Default Calculation: Will be automatically set to the value of Intensity of centrifuging, or Null otherwise.
Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null
FiltrateContainerOut
The desired container generated samples should be produced in or transferred into by the end of the experiment, with indices indicating grouping of samples in the same plates.
Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container}
Programmatic Pattern: ((ObjectP[{Model[Container], Object[Container]}] | _String) | {GreaterEqualP[1, 1] | Automatic, (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic
FiltrateDestinationWell
The desired position in the corresponding FiltrateContainerOut in which the filtrate samples will be placed.
Default Calculation: Automatically set to A1 in containers with only one position. For plates, automatically set to the corresponding value of the FilterPosition option if the CollectionContainer and FiltrateContainerOut are the same. Otherwise, fills wells in the order provided by the function AllWells.
Filter Properties
Filter
Default Calculation: Will be automatically set to a filter appropriate for the filtration type and instrument. If the sample is already in a filter, it will not be moved to a new one unless explicitly specified.
Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Object[Container, Plate, Filter], Model[Container, Vessel, Filter], Object[Container, Vessel, Filter], Model[Item, Filter], Object[Item, Filter], Model[Item, ExtractionCartridge], or Object[Item, ExtractionCartridge] or a prepared sample.
Programmatic Pattern: (ObjectP[{Model[Container, Plate, Filter], Object[Container, Plate, Filter], Model[Container, Vessel, Filter], Object[Container, Vessel, Filter], Model[Item, Filter], Object[Item, Filter], Model[Item, ExtractionCartridge], Object[Item, ExtractionCartridge]}] | _String) | Automatic
FilterPosition
Default Calculation: If the input sample is already in a filter, automatically set to the current position. Otherwise, selects the first empty position in the Filter according to the order indicated in Flatten[AllWells[]] if using container filters, or Null otherwise.
MembraneMaterial
Default Calculation: Will be automatically set to PES or to the MembraneMaterial of Filter if it is specified.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina.
PrefilterMembraneMaterial
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
PoreSize
The pore size of the filter; all particles larger than this should be removed during the filtration.
Default Calculation: Will be automatically set to .22 Micron or to the PoreSize of Filter if it is specified. Will be automatically set to Null if MolecularWeightCutoff is specified.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
MolecularWeightCutoff
The molecular weight cutoff of the filter; all particles larger than this should be removed during the filtration.
Default Calculation: Will be automatically set to Null or to the MolecularWeightCutoff of Filter if it is specified.
Pattern Description: 3 kilograms per mole, 3. kilograms per mole, 10 kilograms per mole, 10. kilograms per mole, 30 kilograms per mole, 30. kilograms per mole, 40 kilograms per mole, 40. kilograms per mole, 50 kilograms per mole, 50. kilograms per mole, 100 kilograms per mole, 100. kilograms per mole, 300 kilograms per mole, 300. kilograms per mole, 7 kilograms per mole, 7. kilograms per mole, 40 kilograms per mole, 40. kilograms per mole, or 30.8328 kilograms per mole or Null.
PrefilterPoreSize
The pore size of the prefilter; all particles larger than this should be removed during the filtration.
Default Calculation: Will be automatically set to .45 Micron if a prefilter membrane material is specified.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
FilterStorageCondition
The conditions under which any filters used by this experiment should be stored after the protocol is completed.
Programmatic Pattern: (Null | ((SampleStorageTypeP | Disposal) | ObjectP[Model[StorageCondition]])) | Null
WashFlowThroughStorageCondition
The conditions under which any retentate wash flow through generated by this experiment should be stored after the protocol is completed.
Default Calculation: Automatically set to the same value as SamplesOutStorageCondition if WashRetentate -> True, or Null otherwise.
Programmatic Pattern: ((Null | (((SampleStorageTypeP | Disposal) | {((SampleStorageTypeP | Disposal) | (Null | Automatic))..}) | (ObjectP[Model[StorageCondition]] | {(ObjectP[Model[StorageCondition]] | (Null | Automatic))..}))) | Automatic) | Null
Retentate Collection
CollectRetentate
Indicates if the retentate captured by the filter should be retrieved by direct transfer or resuspension in a new buffer. Note that the Filtrate will always be collected as well, and whether the Filtrate or Retentate are the SamplesOut is dictated by the Target option.
Default Calculation: Automatically set to True if RetentateContainerOut, RetentateDestinationWell, ResuspensionVolume, ResuspensionBuffer, RetentateCollectionMethod, ResuspensionCentrifugeIntensity, or ResuspensionCentrifugeTime are specified, or False otherwise.
RetentateCollectionMethod
Default Calculation: Automatically set to Centrifuge if CollectRetentate -> True and using centrifuge filters that can be inverted inside a new tube and centrifuged again in order to collect retentate. In all other cases, if CollectRetentate is True then set to Resuspend, or Null otherwise.
RetentateContainerOut
The desired container retentate samples should be transferred into after filtering, with indices indicating grouping of samples in the same plates.
Default Calculation: Automatically set as the PreferredContainer for the ResuspensionVolume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one. If not collecting the retentate, automatically set to Null.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.
Programmatic Pattern: ((Null | ((ObjectP[{Model[Container], Object[Container]}] | _String) | {GreaterEqualP[1, 1] | Automatic, (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
RetentateDestinationWell
The desired position in the corresponding RetentateContainerOut in which the retentate samples will be placed.
Default Calculation: Automatically set to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells. If not collecting the retentate, automatically set to Null.
CollectOccludingRetentate
Indicates that if the filter becomes occluded or clogged during the course of filtration, all retentate that cannot be passed through the filter should be collected into the OccludingRetentateContainer. Note that this is currently only done during syringe filtering; for all other filtration types, use the CollectRetentate boolean directly.
Default Calculation: Automatically set to True if FiltrationType is set to Syringe or if OccludingRetentateContainer or OccludingRetentateContainerLabel are specified, and False otherwise.
OccludingRetentateContainer
Indicates the container into which the retentate should be transferred if the filter becomes clogged.
Default Calculation: Automatically set to Null if CollectOccludingRetentate is False, and set to the PreferredContainer of the input sample volume if CollectOccludingRetentate is True
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container], Object[Container]}] | _String)) | Automatic) | Null
OccludingRetentateDestinationWell
The desired position in the corresponding OccludingRetentateContainer in which the occluding retentate samples will be placed.
Default Calculation: Automatically set to Null if CollectOccludingRetentate is False. Automatically set to A1 in containers with only one positionFor plates, fills wells in the order provided by the function AllWells. If not collecting the retentate, automatically set to Null.
ResuspensionVolume
The volume of ResuspensionBuffer to be added to the retentate. This amount will subsequently be resuspended and transferred to RetentateDestinationWell of RetentateContainerOut.
Default Calculation: Automatically set to smaller of the MaxVolume of the RetentateContainerOut and the initial volume of the sample. If not collecting the retentate, automatically set to Null.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
ResuspensionBuffer
The desired sample in which the retentate is resuspended prior to being transferred to RetentateDestinationWell of RetentateContainerOut.
Default Calculation: Automatically set to Model[Sample, "Milli-Q water"] if collecting retentate, or Null if not.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
NumberOfResuspensionMixes
Default Calculation: Automatically set to 10 if RetentateCollectionMethod -> Transfer, or Null otherwise.
Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.
Retentate Washing
WashRetentate
Indicates if the retentate captured by the filter should be washed with a buffer prior to collection.
Default Calculation: Automatically set to True if RetentateWashBuffer, RetentateWashVolume, NumberOfRetentateWashes, RetentateWashTime, or RetentateWashCentrifugeIntensity is specified, or False otherwise.
RetentateWashBuffer
The sample that is run through the retentate and filter after initial filtration prior to retentate collection. This value can contain one or multiple different buffers per input sample.
Default Calculation: Automatically set to Model[Sample, "Milli-Q water"] if collecting retentate, or Null if not.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or list of one or more an object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null or Automatic entries or Null.
Programmatic Pattern: ((Null | ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | {((ObjectP[{Model[Sample], Object[Sample]}] | _String) | (Null | Automatic))..})) | Automatic) | Null
RetentateWashVolume
The amount of RetentateWashBuffer that is run through the retentate and filter after initial filtration prior to retentate collection.
Default Calculation: Automatically set to the initial volume of the input sample if WashRetentate -> True, or Null otherwise.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or list of one or more greater than or equal to 1 microliter and less than or equal to 20 liters or Null or Automatic entries or Null.
Programmatic Pattern: ((Null | (RangeP[1*Microliter, 20*Liter] | {(RangeP[1*Microliter, 20*Liter] | (Null | Automatic))..})) | Automatic) | Null
NumberOfRetentateWashes
The number of times to run RetentateWashBuffer through the retentate and filter after initial filtration prior to retentate collection. Note that if this number is greater than 1, all those washes will go into the same WashFlowThroughContainer.
Pattern Description: Greater than or equal to 1 in increments of 1 or list of one or more greater than or equal to 1 in increments of 1 entries or list of one or more Null or Automatic entries or Null.
Programmatic Pattern: ((Null | (GreaterEqualP[1, 1] | {GreaterEqualP[1, 1]..} | {(Null | Automatic)..})) | Automatic) | Null
RetentateWashDrainTime
The amount of time for which the samples will be washed with RetentateWashBuffer after initial filtration and prior to retentate collection.
Default Calculation: Automatically set to the value of the Time option if WashRetentate -> True, or Null otherwise.
Pattern Description: Greater than 0 minutes or list of one or more greater than 0 minutes or Null or Automatic entries or Null.
Programmatic Pattern: ((Null | (GreaterP[0*Minute] | {(GreaterP[0*Minute] | (Null | Automatic))..})) | Automatic) | Null
RetentateWashCentrifugeIntensity
The rotational speed or force at which the retentate that has been washed with RetentateWashBuffer after initial filtration and prior to retentate collection.
Default Calculation: Will be automatically set to CentrifugeIntensity if Method -> Centrifuge and WashRetentate -> True, or Null otherwise.
Programmatic Pattern: ((Null | ((GreaterP[0*RPM] | {(GreaterP[0*RPM] | (Null | Automatic))..}) | (GreaterP[0*GravitationalAcceleration] | {(GreaterP[0*GravitationalAcceleration] | (Null | Automatic))..}))) | Automatic) | Null
RetentateWashMix
Indicates if after RetentateWashBuffer is added to the retentate, the retentate should be mixed prior to filtering wash buffer out.
Pattern Description: List of one or more Null or Automatic or True or False entries or True or False or Null.
Programmatic Pattern: ((Null | (BooleanP | {(BooleanP | (Null | Automatic))..})) | Automatic) | Null
NumberOfRetentateWashMixes
Number of times the retentate should be pipetted if WashRetentate -> True and RetentateWashMix -> True.
Default Calculation: Automatically set to 10 if WashRetentate -> True and RetentateWashMix -> True, or Null otherwise.
Pattern Description: Greater than or equal to 1 in increments of 1 or list of one or more greater than or equal to 1 in increments of 1 or Null or Automatic entries or Null.
Programmatic Pattern: ((Null | (GreaterEqualP[1, 1] | {(GreaterEqualP[1, 1] | (Null | Automatic))..})) | Automatic) | Null
RetentateWashPressure
The target pressure applied to the retentate that has been washed with RetentateWashBuffer after initial filtration and prior to retentate collection. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to the value of the Pressure option if Method -> AirPressure and WashRetentate -> True, or Null otherwise.
Pattern Description: Greater than 0 pounds‐force per inch squared or list of one or more greater than 0 pounds‐force per inch squared or Null or Automatic entries or Null.
Programmatic Pattern: ((Null | (GreaterP[0*PSI] | {(GreaterP[0*PSI] | (Null | Automatic))..})) | Automatic) | Null
Prewetting
PrewetFilter
Indicates if the filter should be pre-wet with PrewetFilterBuffer before the input sample is run through it.
Default Calculation: Automatically set to True if any of the other prewetting options are specified or if the filter has StorageBuffer -> True, or False otherwise.
NumberOfFilterPrewettings
Number of times the filter should be pre-wet with PrewetFilterBuffer before the input sample is run through it. Note that if there is liquid already in the filter, the first iteration will NOT add any buffer.
Default Calculation: Automatically set to 3 if PrewetFilter -> True and the Filter has StorageBuffer -> True, or 1 if PrewetFilter -> True otherwise, or Null if PrewetFilter -> False.
Pattern Description: Greater than or equal to 1 and less than or equal to 5 in increments of 1 or Null.
PrewetFilterTime
Default Calculation: Automatically set to 5 Minute if FiltrationType is set to Centrifuge, or Null otherwise.
PrewetFilterBufferVolume
Indicates the amount of PrewetFilterBuffer to run through the filter prior to running the sample through.
Default Calculation: If the filter has StorageBuffer -> True, automatically set to the filter's StorageBufferVolume. If PrewetFilter -> True otherwise, automatically set to the lesser of 5% of the input sample's volume and the MaxVolume of the filter. Otherwise set to Null.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
PrewetFilterBuffer
Indicates the sample to run through the filter prior to running the input sample through the filter. Note that this is only supported if Preparation -> Manual.
Default Calculation: Automatically set to the Solvent field of the input sample, or the model of the input sample if it exists and UsedAsSolvent is set to True, or Milli-Q water if it is not, or Null if PrewetFilter is False.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
PrewetFilterBufferLabel
The label of the sample run through the fitler prior to running the input sample through the filter.
PrewetFilterContainerOut
Default Calculation: Automatically set to Null if PrewetFilter is set to False. Otherwise, automatically set to the same container model as the CollectionContainer if it is specified, or the same model as the FiltrateContainerOut otherwise.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container], Object[Container]}] | _String)) | Automatic) | Null
PrewetFilterContainerLabel
Instrument Specifications
Tips
Default Calculation: Automatically set to a tip that does not conflict with the incompatible materials of the sample(s) that the tip will come in contact with, the amount being transferred, and the source and destination containers of the transfer (accessibility). For more information, please refer to the function TransferDevices[].
Pattern Description: An object of type or subtype Model[Item, Tips], Object[Item, Tips], Model[Item, Consumable], or Object[Item, Consumable] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips], Model[Item, Consumable], Object[Item, Consumable]}]) | Automatic) | Null
TipType
Default Calculation: Automatically set to the TipType field of the calculated Tips that will be used to perform the transfer.
TipMaterial
The material of the pipette tips used to aspirate and dispense the requested volume during the transfer.
Default Calculation: Automatically set to the chemistry of the calculated Tips that will be used to perform the transfer.
Pattern Description: {ABS, PLA, Acrylic, AmorphousFluoropolymer, CPVC, CTFE, Cycloolefine, COC, Delrin, ECTFE, EPDM, ETFE, EVA, FEP, FFKM, HDPE, Hypalon, LDPE, NaturalRubber, NBR, Neoprene, Nitrile, Noryl, Nylon, PEEK, PEI, Perlast, PharmaPure, Polycarbonate, Polyester, Polyethylene, Polyisoprene, Polyolefin, Polyoxymethylene, Polypropylene, Polysulfone, Polystyrene, Polyurethane, PVC, PCTFE, PETG, PF, PFA, PPS, PTFE, PVDF, SEBS, Silicone, Styrofoam, SyntheticRubber, TFM, TPE, Tygon, UVPlastic, UVXPO, Viton}, {Aluminum, Alloy, AnodisedAluminum, Brass, Bronze, CarbonSteel, CastIron, Chrome, Copper, Elgiloy, Gold, Hastelloy, Lead, Magnesium, Molybdenum, MP35N, MP35NHPS, Nickel, Niobium, Platinum, Silver, Steel, StainlessSteel, Titanium, Tungsten, Zinc}, {Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, AnoporeAlumina}, {Silica, Alumina, ResinParticlesWithLatexMicroBeads, CrossLinkedDextranBeads, CrossLinkedPolystyrene, AerisCoreShell, KinetexCoreShell, CrossLinkedAgarose, Vydac218MS, JordiGel, Styrene, SilicaCompositeTWIN, BEH, CSH, HSS, CarboPacPA1, CarboPacPA10, BEH}, AluminiumOxide, ZirconiumOxide, Ceramic, Epoxy, EpoxyResin, GlassyCarbon, {BorosilicateGlass, Glass, OpticalGlass}, Graphite, Porcelain, Oxidizer, {Cardboard, Wood}, {Agate, Quartz, UVQuartz, ESQuartz, FusedQuartz, IRQuartz}, Ruby, Sapphire, Silicon, Viton, or {VacuumMeltedStainlessSteel} or Null.
AspirationRate
The speed at which liquid will be drawn up into the pipette tip. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to DispenseRate if it is specified, otherwise set to 100 Microliter/Second if Preparation->Robotic.
Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
DispenseRate
The speed at which liquid will be expelled from the pipette tip. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to AspirationRate if it is specified, otherwise set to 100 Microliter/Second.
Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
OverAspirationVolume
The volume of air drawn into the pipette tip at the end of the aspiration of a liquid. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to OverDispenseVolume if it is specified, otherwise set to 5 Microliter.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 microliters or Null.
OverDispenseVolume
The volume of air blown out at the end of the dispensing of a liquid. This option can only be set if Preparation->Robotic.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 300 microliters or Null.
AspirationWithdrawalRate
The speed at which the pipette is removed from the liquid after an aspiration. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to DispenseWithdrawalRate if it is specified, otherwise set to 2 Millimeter/Second.
Pattern Description: Greater than or equal to 0.3 millimeters per second and less than or equal to 160 millimeters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.3*(Millimeter/Second), 160*(Millimeter/Second)]) | Automatic) | Null
DispenseWithdrawalRate
The speed at which the pipette is removed from the liquid after a dispense. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to AspirationWithdrawalRate if it is specified, otherwise set to 2 Millimeter/Second.
Pattern Description: Greater than or equal to 0.3 millimeters per second and less than or equal to 160 millimeters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.3*(Millimeter/Second), 160*(Millimeter/Second)]) | Automatic) | Null
AspirationEquilibrationTime
The delay length the pipette waits after aspirating before it is removed from the liquid. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to DispenseEquilibrationTime if it is specified, otherwise set to 1 Second.
Pattern Description: Greater than or equal to 0 seconds and less than or equal to 9.9 seconds or Null.
DispenseEquilibrationTime
The delay length the pipette waits after dispensing before it is removed from the liquid. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to AspirationEquilibrationTime if it is specified, otherwise set to 1 Second.
Pattern Description: Greater than or equal to 0 seconds and less than or equal to 9.9 seconds or Null.
AspirationMixRate
The speed at which liquid is aspirated and dispensed in a liquid before it is aspirated. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to DispenseMixRate or AspirationRate if either is specified, otherwise set to 100 Microliter/Second.
Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
DispenseMixRate
The speed at which liquid is aspirated and dispensed in a liquid after a dispense. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to AspirationMixRate or DispenseRate if either is specified, otherwise set to 100 Microliter/Second.
Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.
Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null
AspirationPosition
The location from which liquid should be aspirated. Top will aspirate AspirationPositionOffset below the Top of the container, Bottom will aspirate AspirationPositionOffset above the Bottom of the container, LiquidLevel will aspirate AspirationPositionOffset below the liquid level of the sample in the container, and TouchOff will touch the bottom of the container before moving the specified AspirationPositionOffset above the bottom of the container to start aspirate the sample.
Default Calculation: Automatically set to the AspirationPosition in the PipettingMethod if it is specified and Preparation->Robotic, otherwise resolves to TouchOff if Preparation->Robotic.
DispensePosition
The location from which liquid should be dispensed. Top will dispense DispensePositionOffset below the Top of the container, Bottom will dispense DispensePositionOffset above the Bottom of the container, LiquidLevel will dispense DispensePositionOffset below the liquid level of the sample in the container, and TouchOff will touch the bottom of the container before moving the specified DispensePositionOffset above the bottom of the container to start dispensing the sample.
Default Calculation: Automatically set to the DispensePosition in the PipettingMethod if it is specified and Preparation->Robotic, resolved to Bottom for MxN MultiProbeHead transfers, otherwise resolves to TouchOff if Preparation->Robotic.
AspirationPositionOffset
The distance from the center of the well that liquid will aspirated. The Z Offset is based on the AspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel), see the AspirationPosition diagram in the help file for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively. When the source container is tilted (via AspirationAngle), the AspirationPositionOffset automatically accounts for the angle of tilt.
Default Calculation: Automatically set to the AspirationPositionOffset field in the pipetting method, if specified. If AspirationAngle is set, automatically set to the left most point in the well since liquid will pool in the direction that the plate is tilted. Otherwise, is set to 2 Millimeter.
Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null
AspirationAngle
The angle that the source container will be tilted during the aspiration of liquid. The container is pivoted on its left edge when tilting occurs. This option can only be provided if Preparation->Robotic.
Default Calculation: Automatically set to 0 AngularDegree if Preparation->Robotic. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.
Programmatic Pattern: ((Null | RangeP[0*AngularDegree, 10*AngularDegree, 1*AngularDegree]) | Automatic) | Null
DispensePositionOffset
The distance from the center of the well that liquid will dispensed. The Z Offset is based on the DispensePosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel), see the DispensePosition diagram in the help file for more information. If an X and Y offset is not specified, the liquid will be dispensed in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively. When the destination container is tilted (via DispenseAngle), the DispensePositionOffset automatically accounts for the angle of tilt.
Default Calculation: Automatically set to the DispensePositionOffset field in the pipetting method, if specified. If DispenseAngle is set, automatically set to the left most point in the well since liquid will pool in the direction that the plate is tilted. Otherwise, is set to 2 Millimeter.
Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null
DispenseAngle
The angle that the destination container will be tilted during the dispensing of liquid. The container is pivoted on its left edge when tilting occurs. This option can only be provided if Preparation->Robotic.
Default Calculation: Automatically set to 0 AngularDegree if Preparation->Robotic. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.
Programmatic Pattern: ((Null | RangeP[0*AngularDegree, 10*AngularDegree, 1*AngularDegree]) | Automatic) | Null
CorrectionCurve
The relationship between a target volume and the corrected volume that needs to be aspirated or dispensed to reach the target volume. The correction curve is derived empirically from the relationship between the target and actual amount of volume transferred when on a specific robotic liquid handler instrument model. It is recommended when building one of these curves to measure the volume of sample transferred gravimetrically to get a more accurate CorrectionCurve. Use the function UploadPipettingMethod to create a new pipetting method for a sample model to have all robotic transfers of this sample model to use the derived CorrectionCurve automatically. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to PipettingMethod if it is specified. Otherwise, is set to Null (no correction curve).
Programmatic Pattern: ((Null | {{RangeP[0*Microliter, 1000*Microliter], RangeP[0*Microliter, 1250*Microliter]}..}) | Automatic) | Null
PipettingMethod
The pipetting parameters used to manipulate the source sample. This option can only be set if Preparation->Robotic. If other pipetting options are specified, the parameters from the method here are overwritten.
Default Calculation: Automatically set to the PipettingMethod of the model of the sample if available.
DynamicAspiration
Indicates if droplet formation will be prevented during liquid transfer. This will only be used for solvents that have high vapor pressure. This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to the DynamicAspiration field in the pipetting method, if available.
DeviceChannel
The channel of the work cell that will be used to perform the transfer (MultiProbeHead | SingleProbe1 | SingleProbe2 | SingleProbe3 | SingleProbe4 | SingleProbe5 | SingleProbe6 | SingleProbe7 | SingleProbe8). This option can only be set if Preparation->Robotic.
Default Calculation: Automatically set to SingleProbe1 if MultichannelTransfer->False. Otherwise, set to the appropriate channel to perform the transfer.
Pattern Description: MultiProbeHead, SingleProbe1, SingleProbe2, SingleProbe3, SingleProbe4, SingleProbe5, SingleProbe6, SingleProbe7, or SingleProbe8 or Null.
Transfer Technique
ReversePipetting
Indicates if additional source sample will be aspirated (past the first stop of the pipette) to reduce the chance of bubble formation when dispensing into the destination position. This option can only be set if Preparation->Manual.
Default Calculation: Automatically set to True if the source or destination sample has the ReversePipetting field set and the transfer is occurring via pipette.
SlurryTransfer
Indicates if the source sample should be mixed via pipette until it becomes homogeneous, up to MaxNumberOfAspirationMixes times.
Default Calculation: Automatically set to True if the SampleHandling of the source sample is set to Slurry.
AspirationMix
Indicates if the source sample will be mixed immediately before it is transferred into the destination sample.
Default Calculation: Automatically set to True if any of the other AspirationMix options are set. Otherwise, set to Null.
DispenseMix
Indicates if the destination sample will be mixed immediately after the source sample is transferred into the destination sample.
Default Calculation: Automatically set to True if any of the other DispenseMix options are set. Otherwise, set to Null.
AspirationMixVolume
The volume that will be repeatedly aspirated and dispensed via pipette from the source sample in order to mix the source sample immediately before the transfer occurs. The same pipette and tips used in the transfer will be used to mix the source sample.
Default Calculation: Automatically set to 1/2 the volume of the source sample or the maximum volume of the pipette being used, depending on which value is smaller.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 milliliters or Null.
NumberOfAspirationMixes
The number of times the source is quickly aspirated and dispensed to mix the source sample immediately before it is transferred into the destination.
Default Calculation: Automatically set to 5 if any of the other AspirationMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 50 in increments of 1 or Null.
MaxNumberOfAspirationMixes
The number of times the source is quickly aspirated and dispensed to mix the source sample immediately before it is transferred into the destination.
Default Calculation: Automatically set to 5 if any of the other AspirationMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 100 in increments of 1 or Null.
DispenseMixVolume
The volume that will be repeatedly aspirated and dispensed via pipette from the destination sample in order to mix the destination sample immediately after the transfer occurs. The same pipette and tips used in the transfer will be used to mix the destination sample.
Default Calculation: Automatically set to 1/2 the volume of the destination sample or the maximum volume of the pipette being used, depending on which value is smaller.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 milliliters or Null.
NumberOfDispenseMixes
The number of times the destination is quickly aspirated and dispensed to mix the destination sample immediately after the source is dispensed.
Default Calculation: Automatically set to 5 if any of the other DispenseMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 50 in increments of 1 or Null.
Preparatory Incubation
Incubate
Indicates if the SamplesIn should be incubated at a fixed temperature prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Incubation options are set. Otherwise, resolves to False.
IncubationTemperature
Temperature at which the SamplesIn should be incubated for the duration of the IncubationTime prior to starting the experiment.
Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.
Programmatic Pattern: ((Null | (Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature])) | Automatic) | Null
IncubationTime
Duration for which SamplesIn should be incubated at the IncubationTemperature, prior to starting the experiment.
Mix
Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.
MixType
Default Calculation: Automatically resolves based on the container of the sample and the Mix option.
Pattern Description: Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, or Nutate or Null.
MixUntilDissolved
Indicates if the mix should be continued up to the MaxIncubationTime or MaxNumberOfMixes (chosen according to the mix Type), in an attempt dissolve any solute. Any mixing/incubation will occur prior to starting the experiment.
Default Calculation: Automatically resolves to True if MaxIncubationTime or MaxNumberOfMixes is set.
MaxIncubationTime
Maximum duration of time for which the samples will be mixed while incubated in an attempt to dissolve any solute, if the MixUntilDissolved option is chosen. This occurs prior to starting the experiment.
Default Calculation: Automatically resolves based on MixType, MixUntilDissolved, and the container of the given sample.
IncubationInstrument
Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.
Pattern Description: An object of type or subtype Model[Instrument, Roller], Model[Instrument, OverheadStirrer], Model[Instrument, Vortex], Model[Instrument, Shaker], Model[Instrument, BottleRoller], Model[Instrument, Roller], Model[Instrument, Sonicator], Model[Instrument, HeatBlock], Model[Instrument, Homogenizer], Model[Instrument, Disruptor], Model[Instrument, Nutator], Model[Instrument, Thermocycler], Model[Instrument, EnvironmentalChamber], Model[Instrument, Pipette], Object[Instrument, Roller], Object[Instrument, OverheadStirrer], Object[Instrument, Vortex], Object[Instrument, Shaker], Object[Instrument, BottleRoller], Object[Instrument, Roller], Object[Instrument, Sonicator], Object[Instrument, HeatBlock], Object[Instrument, Homogenizer], Object[Instrument, Disruptor], Object[Instrument, Nutator], Object[Instrument, Thermocycler], Object[Instrument, EnvironmentalChamber], or Object[Instrument, Pipette] or Null.
Programmatic Pattern: ((Null | ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]]) | Automatic) | Null
AnnealingTime
Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the IncubationTime has passed but prior to starting the experiment.
IncubateAliquotContainer
The desired type of container that should be used to prepare and house the incubation samples which should be used in lieu of the SamplesIn for the experiment.
Programmatic Pattern: ((Null | (ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
IncubateAliquotDestinationWell
The desired position in the corresponding IncubateAliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
IncubateAliquot
The amount of each sample that should be transferred from the SamplesIn into the IncubateAliquotContainer when performing an aliquot before incubation.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
Preparatory Centrifugation
Centrifuge
Indicates if the SamplesIn should be centrifuged prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Centrifuge options are set. Otherwise, resolves to False.
CentrifugeInstrument
Pattern Description: An object of type or subtype Model[Instrument, Centrifuge] or Object[Instrument, Centrifuge] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, Centrifuge], Object[Instrument, Centrifuge]}]) | Automatic) | Null
CentrifugeIntensity
The rotational speed or the force that will be applied to the samples by centrifugation prior to starting the experiment.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.
Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null
CentrifugeTime
CentrifugeTemperature
The temperature at which the centrifuge chamber should be held while the samples are being centrifuged prior to starting the experiment.
Pattern Description: Ambient or greater than or equal to -10 degrees Celsius and less than or equal to 40 degrees Celsius or Null.
CentrifugeAliquotContainer
The desired type of container that should be used to prepare and house the centrifuge samples which should be used in lieu of the SamplesIn for the experiment.
Programmatic Pattern: ((Null | (ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
CentrifugeAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
CentrifugeAliquot
The amount of each sample that should be transferred from the SamplesIn into the CentrifugeAliquotContainer when performing an aliquot before centrifugation.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
Aliquoting
Aliquot
Indicates if aliquots should be taken from the SamplesIn and transferred into new AliquotSamples used in lieu of the SamplesIn for the experiment. Note that if NumberOfReplicates is specified this indicates that the input samples will also be aliquoted that number of times. Note that Aliquoting (if specified) occurs after any Sample Preparation (if specified).
AliquotSampleLabel
A user defined word or phrase used to identify the samples after they are aliquotted, for use in downstream unit operations.
AliquotAmount
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container if a liquid, or the current Mass or Count if a solid or counted item, respectively.
Programmatic Pattern: ((Null | (RangeP[1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0*Unit, 1*Unit] | GreaterP[0., 1.] | All)) | Automatic) | Null
TargetConcentration
The desired final concentration of analyte in the AliquotSamples after dilution of aliquots of SamplesIn with the ConcentratedBuffer and BufferDiluent which should be used in lieu of the SamplesIn for the experiment.
TargetConcentrationAnalyte
Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample, or if none exist, the first identity model of any kind in the Composition field.
Pattern Description: An object of type or subtype Model[Molecule], Model[Molecule, cDNA], Model[Molecule, Oligomer], Model[Molecule, Transcript], Model[Molecule, Protein], Model[Molecule, Protein, Antibody], Model[Molecule, Carbohydrate], Model[Molecule, Polymer], Model[Resin], Model[Resin, SolidPhaseSupport], Model[Lysate], Model[ProprietaryFormulation], Model[Virus], Model[Cell], Model[Cell, Mammalian], Model[Cell, Bacteria], Model[Cell, Yeast], Model[Tissue], Model[Material], or Model[Species] or Null.
AssayVolume
Default Calculation: Automatically determined based on Volume and TargetConcentration option values.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
ConcentratedBuffer
The concentrated buffer which should be diluted by the BufferDilutionFactor in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
BufferDilutionFactor
The dilution factor by which the concentrated buffer should be diluted in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: If ConcentratedBuffer is specified, automatically set to the ConcentratedBufferDilutionFactor of that sample; otherwise, set to Null.
BufferDiluent
The buffer used to dilute the aliquot sample such that ConcentratedBuffer is diluted by BufferDilutionFactor in the final solution. The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
AssayBuffer
The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
AliquotSampleStorageCondition
The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
DestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.
Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null
AliquotContainer
The desired type of container that should be used to prepare and house the aliquot samples, with indices indicating grouping of samples in the same plates, if desired. This option will resolve to be the length of the SamplesIn * NumberOfReplicates.
Default Calculation: Automatically set as the PreferredContainer for the AssayVolume of the sample. For plates, attempts to fill all wells of a single plate with the same model before aliquoting into the next.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null or {Index, Container} or list of one or more an object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null entries or list of one or more Automatic or Null or {Index, Container} entries.
Programmatic Pattern: (((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null) | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | {((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null))..} | {({GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | (Automatic | Null))..}) | Automatic) | Null
AliquotPreparation
Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.
ConsolidateAliquots
Post Experiment
SamplesOutStorageCondition
The non-default conditions under which any new samples generated by this experiment should be stored after the protocol is completed. If left unset, the new samples will be stored according to their Models' DefaultStorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.
ImageSample
MoveToMagnet
Sample
Pattern: NonSelfContainedSampleP | NonSelfContainedSampleModelP | ObjectP[{Model[Container, Vessel], Model[Container, ReactionVessel], Model[Container, Cuvette], Object[Container, Vessel], Object[Container, ReactionVessel], Object[Container, Cuvette]}] | {ObjectP[{Model[Container, Plate], Object[Container, Plate]}], WellP}
RemoveFromMagnet
Sample
Pattern: NonSelfContainedSampleP | NonSelfContainedSampleModelP | ObjectP[{Model[Container, Vessel], Model[Container, ReactionVessel], Model[Container, Cuvette], Object[Container, Vessel], Object[Container, ReactionVessel], Object[Container, Cuvette]}] | {ObjectP[{Model[Container, Plate], Object[Container, Plate]}], WellP}
Centrifuge
Options
General
Sample
Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String} | ObjectP[Model[Sample]]
SampleLabel
A user defined word or phrase used to identify the samples that are being centrifuged, for use in downstream unit operations.
SampleContainerLabel
A user defined word or phrase used to identify the containers of the samples that are being centrifuged, for use in downstream unit operations.
Instrument
Figure 3.5: Primitives can be conducted both by a liquid handler or manually with a proper instrument. For some primitives (e.g., Transfer, Aliquot, and Consolidation), specific options (e.g., DispenseRate and OverAspirationVolume) can only be achieved by a liquid handler.
Default Calculation: Automatically set to a centrifuge that can attain the specified intensity, time, temperature, and sterility and (if possible) that is compatible with the sample in its current container.
Pattern Description: An object of type or subtype Model[Instrument, Centrifuge] or Object[Instrument, Centrifuge]
Programmatic Pattern: ObjectP[{Model[Instrument, Centrifuge], Object[Instrument, Centrifuge]}] | Automatic
RotorGeometry
Indicates if the provided samples will be spun at a fixed angle or freely pivot. Unique when Preparation -> Manual.
Default Calculation: Automatically set to a FixedAngleRotor if more than one rotors are available that fit the intensity and container constraints.
RotorAngle
The angle of the samples in the rotor that will be applied to spin the provided samples if ultracentrifuge instrument is selected. Unique when Preparation -> Manual.
Default Calculation: Automatically set to a rotor that could spin samples at specific angle relative to the axis of rotation.
ChilledRotor
Indicates if the ultracentrifuge rotor is stored in refrigerator between usage thus it is prechilled on loading into the ultracentrifuge. Unique when Preparation -> Manual.
Default Calculation: Automatically set to true if the ultracentrifuge is utilized at cold temperature.
Rotor
The centrifuge rotor that will be used to spin the provided samples if ultracentrifuge instrument is selected. Unique when Preparation -> Manual.
Default Calculation: Automatically set to a rotor that can attain the specified intensity, time, temperature, and sterility and (if possible) fits the sample in its current container.
Pattern Description: An object of type or subtype Model[Container, CentrifugeRotor] or Object[Container, CentrifugeRotor] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container, CentrifugeRotor], Object[Container, CentrifugeRotor]}] | _String)) | Automatic) | Null
Intensity
Default Calculation: Automatically resolves to one fifth of the maximum rotational rate of the centrifuge, rounded to the nearest attainable centrifuge precision.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth.
Time
Temperature
The temperature at which the centrifuge chamber will be held while the samples are being centrifuged.
Pattern Description: Ambient or greater than or equal to -10 degrees Celsius and less than or equal to 40 degrees Celsius.
CollectionContainer
The container that will be stacked on the bottom of the sample's container to collect the filtrate passing through the filter container.
Default Calculation: Automatically set to Model[Container, Plate, "96-well 2mL Deep Well Plate"] if the sample is in a filter plate.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.
Programmatic Pattern: ((Null | ((ObjectP[{Model[Container], Object[Container]}] | _String) | {Alternatives[GreaterEqualP[1, 1]], (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
Preparation
Indicates if this unit operation is carried out primarily robotically or manually. Manual unit operations are executed by a laboratory operator and robotic unit operations are executed by a liquid handling work cell.
WorkCell
The automated workstation with a collection of integrated instruments on which this unit operation will be will be performed if Preparation -> Robotic.
Sterile
Preparatory Incubation
Incubate
Indicates if the SamplesIn should be incubated at a fixed temperature prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Incubation options are set. Otherwise, resolves to False.
IncubationTemperature
Temperature at which the SamplesIn should be incubated for the duration of the IncubationTime prior to starting the experiment.
Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.
Programmatic Pattern: ((Null | (Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature])) | Automatic) | Null
IncubationTime
Duration for which SamplesIn should be incubated at the IncubationTemperature, prior to starting the experiment.
Mix
Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.
MixType
Default Calculation: Automatically resolves based on the container of the sample and the Mix option.
Pattern Description: Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, or Nutate or Null.
MixUntilDissolved
Indicates if the mix should be continued up to the MaxIncubationTime or MaxNumberOfMixes (chosen according to the mix Type), in an attempt dissolve any solute. Any mixing/incubation will occur prior to starting the experiment.
Default Calculation: Automatically resolves to True if MaxIncubationTime or MaxNumberOfMixes is set.
MaxIncubationTime
Maximum duration of time for which the samples will be mixed while incubated in an attempt to dissolve any solute, if the MixUntilDissolved option is chosen. This occurs prior to starting the experiment.
Default Calculation: Automatically resolves based on MixType, MixUntilDissolved, and the container of the given sample.
IncubationInstrument
Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.
Pattern Description: An object of type or subtype Model[Instrument, Roller], Model[Instrument, OverheadStirrer], Model[Instrument, Vortex], Model[Instrument, Shaker], Model[Instrument, BottleRoller], Model[Instrument, Roller], Model[Instrument, Sonicator], Model[Instrument, HeatBlock], Model[Instrument, Homogenizer], Model[Instrument, Disruptor], Model[Instrument, Nutator], Model[Instrument, Thermocycler], Model[Instrument, EnvironmentalChamber], Model[Instrument, Pipette], Object[Instrument, Roller], Object[Instrument, OverheadStirrer], Object[Instrument, Vortex], Object[Instrument, Shaker], Object[Instrument, BottleRoller], Object[Instrument, Roller], Object[Instrument, Sonicator], Object[Instrument, HeatBlock], Object[Instrument, Homogenizer], Object[Instrument, Disruptor], Object[Instrument, Nutator], Object[Instrument, Thermocycler], Object[Instrument, EnvironmentalChamber], or Object[Instrument, Pipette] or Null.
Programmatic Pattern: ((Null | ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]]) | Automatic) | Null
AnnealingTime
Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the IncubationTime has passed but prior to starting the experiment.
IncubateAliquotContainer
The desired type of container that should be used to prepare and house the incubation samples which should be used in lieu of the SamplesIn for the experiment.
Programmatic Pattern: ((Null | (ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
IncubateAliquotDestinationWell
The desired position in the corresponding IncubateAliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
IncubateAliquot
The amount of each sample that should be transferred from the SamplesIn into the IncubateAliquotContainer when performing an aliquot before incubation.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
Preparatory Filtering
Filtration
Indicates if the SamplesIn should be filter prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Filter options are set. Otherwise, resolves to False.
FiltrationType
Default Calculation: Will automatically resolve to a filtration type appropriate for the volume of sample being filtered.
FilterInstrument
Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.
Pattern Description: An object of type or subtype Model[Instrument, FilterBlock], Object[Instrument, FilterBlock], Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], or Object[Instrument, SyringePump] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, FilterBlock], Object[Instrument, FilterBlock], Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], Object[Instrument, SyringePump]}]) | Automatic) | Null
Filter
The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.
Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null
FilterMaterial
The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
PrefilterMaterial
The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
FilterPoreSize
The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
PrefilterPoreSize
The pore size of the filter; all particles larger than this should be removed during the filtration.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
FilterSyringe
Default Calculation: Resolves to an syringe appropriate to the volume of sample being filtered, if Filtration is set to True.
Pattern Description: An object of type or subtype Model[Container, Syringe] or Object[Container, Syringe] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container, Syringe], Object[Container, Syringe]}] | _String)) | Automatic) | Null
FilterHousing
The filter housing that should be used to hold the filter membrane when filtration is performed using a standalone filter membrane.
Default Calculation: Resolve to an housing capable of holding the size of the membrane being used, if filter with Membrane FilterType is being used and Filtration is set to True.
Pattern Description: An object of type or subtype Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], or Object[Instrument, FilterBlock] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], Object[Instrument, FilterBlock]}]) | Automatic) | Null
FilterIntensity
Default Calculation: Will automatically resolve to 2000 GravitationalAcceleration if FiltrationType is Centrifuge and Filtration is True.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.
Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null
FilterTime
Default Calculation: Will automatically resolve to 5 Minute if FiltrationType is Centrifuge and Filtration is True.
FilterTemperature
The temperature at which the centrifuge chamber will be held while the samples are being centrifuged during filtration.
Default Calculation: Will automatically resolve to 22 Celsius if FiltrationType is Centrifuge and Filtration is True.
FilterContainerOut
The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.
Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.
Programmatic Pattern: ((Null | ((ObjectP[{Model[Container], Object[Container]}] | _String) | {GreaterEqualP[1, 1] | Automatic, (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
FilterAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
FilterAliquotContainer
The desired type of container that should be used to prepare and house the filter samples which should be used in lieu of the SamplesIn for the experiment.
Programmatic Pattern: ((Null | (ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null
FilterAliquot
The amount of each sample that should be transferred from the SamplesIn into the FilterAliquotContainer when performing an aliquot before filtration.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
FilterSterile
Default Calculation: Resolve to False if Filtration is indicated. If sterile filtration is desired, this option must manually be set to True.
Aliquoting
Aliquot
Indicates if aliquots should be taken from the SamplesIn and transferred into new AliquotSamples used in lieu of the SamplesIn for the experiment. Note that if NumberOfReplicates is specified this indicates that the input samples will also be aliquoted that number of times. Note that Aliquoting (if specified) occurs after any Sample Preparation (if specified).
AliquotSampleLabel
A user defined word or phrase used to identify the samples after they are aliquotted, for use in downstream unit operations.
AliquotAmount
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container if a liquid, or the current Mass or Count if a solid or counted item, respectively.
Programmatic Pattern: ((Null | (RangeP[1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0*Unit, 1*Unit] | GreaterP[0., 1.] | All)) | Automatic) | Null
TargetConcentration
The desired final concentration of analyte in the AliquotSamples after dilution of aliquots of SamplesIn with the ConcentratedBuffer and BufferDiluent which should be used in lieu of the SamplesIn for the experiment.
TargetConcentrationAnalyte
Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample, or if none exist, the first identity model of any kind in the Composition field.
Pattern Description: An object of type or subtype Model[Molecule], Model[Molecule, cDNA], Model[Molecule, Oligomer], Model[Molecule, Transcript], Model[Molecule, Protein], Model[Molecule, Protein, Antibody], Model[Molecule, Carbohydrate], Model[Molecule, Polymer], Model[Resin], Model[Resin, SolidPhaseSupport], Model[Lysate], Model[ProprietaryFormulation], Model[Virus], Model[Cell], Model[Cell, Mammalian], Model[Cell, Bacteria], Model[Cell, Yeast], Model[Tissue], Model[Material], or Model[Species] or Null.
AssayVolume
Default Calculation: Automatically determined based on Volume and TargetConcentration option values.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
ConcentratedBuffer
The concentrated buffer which should be diluted by the BufferDilutionFactor in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
BufferDilutionFactor
The dilution factor by which the concentrated buffer should be diluted in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: If ConcentratedBuffer is specified, automatically set to the ConcentratedBufferDilutionFactor of that sample; otherwise, set to Null.
BufferDiluent
The buffer used to dilute the aliquot sample such that ConcentratedBuffer is diluted by BufferDilutionFactor in the final solution. The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
AssayBuffer
The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
AliquotSampleStorageCondition
The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
DestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.
Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null
AliquotContainer
The desired type of container that should be used to prepare and house the aliquot samples, with indices indicating grouping of samples in the same plates, if desired. This option will resolve to be the length of the SamplesIn * NumberOfReplicates.
Default Calculation: Automatically set as the PreferredContainer for the AssayVolume of the sample. For plates, attempts to fill all wells of a single plate with the same model before aliquoting into the next.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null or {Index, Container} or list of one or more an object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null entries or list of one or more Automatic or Null or {Index, Container} entries.
Programmatic Pattern: (((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null) | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | {((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null))..} | {({GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | (Automatic | Null))..}) | Automatic) | Null
AliquotPreparation
Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.
ConsolidateAliquots
Post Experiment
SamplesInStorageCondition
The non-default conditions under which the SamplesIn of this experiment should be stored after the protocol is completed. If left unset, SamplesIn will be stored according to their current StorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.
ImageSample
Indicates if any samples that are modified in the course of the experiment should be freshly imaged after running the experiment. Please note that public samples are imaged regardless of the value of this option.
Protocol
NumberOfReplicates
ReadPlate
Sample
Pattern: ListableP[NonSelfContainedSampleP | NonSelfContainedSampleModelP | ObjectP[{Model[Container, Vessel], Model[Container, ReactionVessel], Model[Container, Cuvette], Object[Container, Vessel], Object[Container, ReactionVessel], Object[Container, Cuvette]}] | {ObjectP[{Model[Container, Plate], Object[Container, Plate]}], WellP}]
FillToVolume
Options
General
Sample
Input samples for this analytical or preparative experiment which will be filled to a specified volume.
Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String} | ObjectP[Model[Sample]]
TotalVolume
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
Solvent
Programmatic Pattern: (Alternatives[ObjectP[{Object[Sample], Object[Container, Vessel], Model[Sample]}] | _String]) | Automatic
SampleLabel
A user defined word or phrase used to identify the samples that are used for the fill to volume, for use in downstream unit operations.
SampleContainerLabel
A user defined word or phrase used to identify the containers of the samples that are used for the fill to volume, for use in downstream unit operations.
Method
Default Calculation: Automatically set to Volumetric if in a volumetric flask, or Null and throws an error if in an UltrasonicIncompatible container or using an UltrasonicIncompatible solvent, or Ultrasonic otherwise.
SolventLabel
A user defined word or phrase used to identify the solvent that is used for the fill to volume, for use in downstream unit operations.
SolventContainer
Default Calculation: Automatically set to the Object[Container, Vessel] if an Object[Sample] is specified in the Solvent option. Otherwise, automatically set to a Model[Container, Vessel] on any existing samples that can be used to fulfill the Model[Sample] request or based on the container that the default product for the Model[Sample] comes in.
Programmatic Pattern: ((Null | ((ObjectP[Object[Container, Vessel]] | _String) | ObjectP[Model[Container, Vessel]])) | Automatic) | Null
SolventContainerLabel
A user defined word or phrase used to identify the solvent's container that is used for the fill to volume, for use in downstream unit operations.
DestinationWell
Default Calculation: Automatically set to the position of the given Object[Sample]. Otherwise, is set to the first empty well of the container. Otherwise, is set to "A1".
MaxNumberOfOverfillingRepreparations
The maximum number of times the FillToVolume protocol can be repeated in the event of target volume overfilling. When a repreparation is triggered, the same inputs and options are used, and the value of MaxNumberOfOverfillingRepreparations is decreased by 1. If this value is set to Null, the protocol will complete normally, even if the final sample volume exceeds the target.
Default Calculation: For a new FillToVolume protocol, automatically set to 3 if all experiment inputs are of type Model[Sample]. When a repeat protocol is enqueued, the value is decremented by 1 from the current MaxNumberOfOverfillingRepreparations. For all other cases, set to Null.
Instrument Specifications
Tolerance
The allowed tolerance of the final volume. If the sample's volume reaches the specified volume +/- this value then no more Solvent will be added. If the sample's volume is below the specified volume +/- this value then more Solvent will be added. If the sample's volume is above the specified volume +/-, no further Solvent will be added and TargetVolumeToleranceAchieved in the protocol object will be set to False.
Default Calculation: Automatically set to the Precision field of the sample's container if Method -> Volumetric, or calculated from the VolumeCalibrations field of the sample's container model at the specified volume.
Programmatic Pattern: ((Null | (GreaterP[0*Milliliter] | RangeP[0*Percent, 100*Percent])) | Automatic) | Null
Instrument
The standalone instrument used to transfer the sample from the source container (or from the intermediate container if IntermediateDecant->True) to the destination container. If this option is set to Null, it indicates that pouring will be done to perform the transfer when Preparation->Manual.
Figure 3.6: Primitives can be conducted both by a liquid handler or manually with a proper instrument. For some primitives (e.g., Transfer, Aliquot, and Consolidation), specific options (e.g., DispenseRate and OverAspirationVolume) can only be achieved by a liquid handler.
Default Calculation: Automatically set to an instrument that can move the amount being transferred and the source and destination containers of the transfer. For more information, please refer to the function TransferDevices[].
Pattern Description: An object of type or subtype Model[Container, Syringe], Model[Container, GraduatedCylinder], Model[Instrument, Pipette], Model[Instrument, Aspirator], Model[Item, Spatula], Model[Item, Tweezer], Model[Item, TransferTube], Model[Item, ChippingHammer], Model[Item, Scissors], Object[Container, Syringe], Object[Container, GraduatedCylinder], Object[Instrument, Pipette], Object[Instrument, Aspirator], Object[Item, Spatula], Object[Item, Tweezer], Object[Item, TransferTube], Object[Item, ChippingHammer], or Object[Item, Scissors] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container, Syringe], Model[Container, GraduatedCylinder], Model[Instrument, Pipette], Model[Instrument, Aspirator], Model[Item, Spatula], Model[Item, Tweezer], Model[Item, TransferTube], Model[Item, ChippingHammer], Model[Item, Scissors], Object[Container, Syringe], Object[Container, GraduatedCylinder], Object[Instrument, Pipette], Object[Instrument, Aspirator], Object[Item, Spatula], Object[Item, Tweezer], Object[Item, TransferTube], Object[Item, ChippingHammer], Object[Item, Scissors]}] | _String)) | Automatic) | Null
TransferEnvironment
The environment in which the transfer will be performed (Biosafety Cabinet, Fume Hood, Glove Box, or Benchtop Handling Station). Containers involved in the transfer will first be moved into the TransferEnvironment (with covers on), uncovered inside of the TransferEnvironment, then covered after the Transfer has finished -- before they're moved back onto the operator cart. Consult the SterileTechnique/RNaseFreeTechnique option when using a BSC. This option cannot be set when Preparation->Robotic.
Default Calculation: Automatically set to an instrument that can handle the any safety requirements of the samples being transferred.
Pattern Description: An object of type or subtype Model[Instrument, BiosafetyCabinet], Model[Instrument, FumeHood], Model[Instrument, GloveBox], Model[Container, Bench], Model[Container, Enclosure], Model[Instrument, HandlingStation], Object[Instrument, BiosafetyCabinet], Object[Instrument, FumeHood], Object[Instrument, GloveBox], Object[Container, Bench], Object[Container, Enclosure], or Object[Instrument, HandlingStation] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, BiosafetyCabinet], Model[Instrument, FumeHood], Model[Instrument, GloveBox], Model[Container, Bench], Model[Container, Enclosure], Model[Instrument, HandlingStation], Object[Instrument, BiosafetyCabinet], Object[Instrument, FumeHood], Object[Instrument, GloveBox], Object[Container, Bench], Object[Container, Enclosure], Object[Instrument, HandlingStation]}]) | Automatic) | Null
Tips
Default Calculation: Automatically set to a tip that does not conflict with the incompatible materials of the sample(s) that the tip will come in contact with, the amount being transferred, and the source and destination containers of the transfer (accessibility). For more information, please refer to the function TransferDevices[].
Pattern Description: An object of type or subtype Model[Item, Tips], Object[Item, Tips], Model[Item, Consumable], or Object[Item, Consumable] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips], Model[Item, Consumable], Object[Item, Consumable]}]) | Automatic) | Null
TipType
Default Calculation: Automatically set to the TipType field of the calculated Tips that will be used to perform the transfer.
TipMaterial
The material of the pipette tips used to aspirate and dispense the requested volume during the transfer.
Default Calculation: Automatically set to the chemistry of the calculated Tips that will be used to perform the transfer.
Pattern Description: {ABS, PLA, Acrylic, AmorphousFluoropolymer, CPVC, CTFE, Cycloolefine, COC, Delrin, ECTFE, EPDM, ETFE, EVA, FEP, FFKM, HDPE, Hypalon, LDPE, NaturalRubber, NBR, Neoprene, Nitrile, Noryl, Nylon, PEEK, PEI, Perlast, PharmaPure, Polycarbonate, Polyester, Polyethylene, Polyisoprene, Polyolefin, Polyoxymethylene, Polypropylene, Polysulfone, Polystyrene, Polyurethane, PVC, PCTFE, PETG, PF, PFA, PPS, PTFE, PVDF, SEBS, Silicone, Styrofoam, SyntheticRubber, TFM, TPE, Tygon, UVPlastic, UVXPO, Viton}, {Aluminum, Alloy, AnodisedAluminum, Brass, Bronze, CarbonSteel, CastIron, Chrome, Copper, Elgiloy, Gold, Hastelloy, Lead, Magnesium, Molybdenum, MP35N, MP35NHPS, Nickel, Niobium, Platinum, Silver, Steel, StainlessSteel, Titanium, Tungsten, Zinc}, {Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, AnoporeAlumina}, {Silica, Alumina, ResinParticlesWithLatexMicroBeads, CrossLinkedDextranBeads, CrossLinkedPolystyrene, AerisCoreShell, KinetexCoreShell, CrossLinkedAgarose, Vydac218MS, JordiGel, Styrene, SilicaCompositeTWIN, BEH, CSH, HSS, CarboPacPA1, CarboPacPA10, BEH}, AluminiumOxide, ZirconiumOxide, Ceramic, Epoxy, EpoxyResin, GlassyCarbon, {BorosilicateGlass, Glass, OpticalGlass}, Graphite, Porcelain, Oxidizer, {Cardboard, Wood}, {Agate, Quartz, UVQuartz, ESQuartz, FusedQuartz, IRQuartz}, Ruby, Sapphire, Silicon, Viton, or {VacuumMeltedStainlessSteel} or Null.
Needle
Default Calculation: Automatically set to a needle that does not conflict with the incompatible materials of the sample(s) that the tip will come in contact with, the amount being transferred, and the source and destination containers of the transfer (accessibility). For more information, please refer to the function TransferDevices[].
Pattern Description: An object of type or subtype Model[Item, Needle] or Object[Item, Needle] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Needle], Object[Item, Needle]}]) | Automatic) | Null
Funnel
The funnel that is used to guide the source sample into the destination container when pouring or using a graduated cylinder.
Default Calculation: Automatically set to a funnel that can fit into the aperture of the destination container if 1) the transfer Instrument is set to Null (pouring)/GraduatedCylinder or 2) liquid is being transferred from a weighing container to the destination (pouring).
Pattern Description: An object of type or subtype Model[Part, Funnel] or Object[Part, Funnel] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Part, Funnel], Object[Part, Funnel]}]) | Automatic) | Null
HandPump
Default Calculation: Automatically set to Model[Part, HandPump, "id:L8kPEjNLDld6"] if the source is in a container with a MaxVolume over 5 Liters and either (1) the transfer instrument used is a graduated cylinder or (2) an intermediate decant is specified.
Pattern Description: An object of type or subtype Model[Part, HandPump] or Object[Part, HandPump] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Part, HandPump], Object[Part, HandPump]}]) | Automatic) | Null
IntermediateFunnel
Default Calculation: Automatically set to a funnel that can fit inside the IntermediateContainer, if an IntermediateDecant is required.
Pattern Description: An object of type or subtype Model[Part, Funnel] or Object[Part, Funnel] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Part, Funnel], Object[Part, Funnel]}]) | Automatic) | Null
Post Experiment
SolventStorageCondition
The non-default conditions under which the specified Solvent used by this experiment should be stored after the protocol is completed. If left unset, the solvents will be stored according to their Models' DefaultStorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
SamplesOutStorageCondition
The non-default conditions under which any new samples generated by this experiment should be stored after the protocol is completed. If left unset, the new samples will be stored according to their Models' DefaultStorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.
ImageSample
Indicates if any samples that are modified in the course of the experiment should be freshly imaged after running the experiment. Please note that public samples are imaged regardless of the value of this option.
Transfer Technique
ReversePipetting
Indicates if additional source sample will be aspirated (past the first stop of the pipette) to reduce the chance of bubble formation when dispensing into the destination position. This option can only be set if Preparation->Manual.
Default Calculation: Automatically set to True if the source or destination sample has the ReversePipetting field set and the transfer is occurring via pipette.
SlurryTransfer
Indicates if the source sample should be mixed via pipette until it becomes homogeneous, up to MaxNumberOfAspirationMixes times.
Default Calculation: Automatically set to True if the SampleHandling of the source sample is set to Slurry.
AspirationMix
Indicates if the source sample will be mixed immediately before it is transferred into the destination sample.
Default Calculation: Automatically set to True if any of the other AspirationMix options are set. Otherwise, set to Null.
DispenseMix
Indicates if the destination sample will be mixed immediately after the source sample is transferred into the destination sample.
Default Calculation: Automatically set to True if any of the other DispenseMix options are set. Otherwise, set to Null.
AspirationMixVolume
The volume that will be repeatedly aspirated and dispensed via pipette from the source sample in order to mix the source sample immediately before the transfer occurs. The same pipette and tips used in the transfer will be used to mix the source sample.
Default Calculation: Automatically set to 1/2 the volume of the source sample or the maximum volume of the pipette being used, depending on which value is smaller.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 milliliters or Null.
NumberOfAspirationMixes
The number of times the source is quickly aspirated and dispensed to mix the source sample immediately before it is transferred into the destination.
Default Calculation: Automatically set to 5 if any of the other AspirationMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 50 in increments of 1 or Null.
MaxNumberOfAspirationMixes
The number of times the source is quickly aspirated and dispensed to mix the source sample immediately before it is transferred into the destination.
Default Calculation: Automatically set to 5 if any of the other AspirationMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 100 in increments of 1 or Null.
DispenseMixVolume
The volume that will be repeatedly aspirated and dispensed via pipette from the destination sample in order to mix the destination sample immediately after the transfer occurs. The same pipette and tips used in the transfer will be used to mix the destination sample.
Default Calculation: Automatically set to 1/2 the volume of the destination sample or the maximum volume of the pipette being used, depending on which value is smaller.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 milliliters or Null.
NumberOfDispenseMixes
The number of times the destination is quickly aspirated and dispensed to mix the destination sample immediately after the source is dispensed.
Default Calculation: Automatically set to 5 if any of the other DispenseMix options are set. Otherwise, set to Null.
Pattern Description: Greater than or equal to 0 and less than or equal to 50 in increments of 1 or Null.
SterileTechnique
Indicates if sterilized instruments and aseptic transfer environments must be used for the transfer. Aseptic transfer environments include biosafety cabinets as TransferEnvironment, or bioSTAR and microbioSTAR Hamilton enclosures as WorkCell. Please consult the ExperimentTransfer documentation for a full diagram of SterileTechnique that is employed by operators.
Default Calculation: Automatically set to True if the samples being transferred contain tissue culture or microbial components, or require aseptic techniques.
RNaseFreeTechnique
Indicates that RNase free technique will be followed when performing the transfer (spraying RNase away on surfaces, using RNaseFree tips, etc.).
Default Calculation: Automatically set to True if the samples being transferred are RNaseFree->True.
Hermetic Transfers
BackfillGas
The inert gas that is used equalize the pressure in the source's hermetic container while the transfer out of the source's container occurs.
Default Calculation: Automatically set to Nitrogen if the source's container is hermetic and UnsealHermeticSource->False.
BackfillNeedle
Default Calculation: Automatically set to the same model of Needle that will be used to perform the transfer, if the source's container is hermetic and UnsealHermeticSource->False.
Pattern Description: An object of type or subtype Model[Item, Needle] or Object[Item, Needle] or Null.
Programmatic Pattern: ((Null | ObjectP[{Model[Item, Needle], Object[Item, Needle]}]) | Automatic) | Null
UnsealHermeticSource
Indicates if the source's hermetic container will be unsealed before sample is transferred out of it.
Default Calculation: Automatically set to True if it is indicated that a syringe/needle will not be used to perform the transfer and the source is in a hermetic container. Otherwise, is set to False.
Tip Rinsing
TipRinse
Indicates if the Tips will first be rinsed with a TipRinseSolution before they are used to aspirate from the source sample.
Default Calculation: Automatically set to True if any of the other TipRinse options are set. Otherwise, is set to False.
TipRinseSolution
Default Calculation: Automatically set to Model[Sample, "Milli-Q water"] if any of the other TipRinse options are set. Otherwise, is set to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
TipRinseVolume
The volume of the solution that the Tips will be rinsed before they are used to aspirate from the source sample.
Default Calculation: Automatically set to 125% of the volume to be transferred, or the MaxVolume of the Tips (which ever is smaller) if any of the other TipRinse options are set. Otherwise, is set to Null.
NumberOfTipRinses
The number of times that the Tips will be rinsed before they are used to aspirate from the source sample.
Default Calculation: Automatically set to 1 if any of the other TipRinse options are set. Otherwise, is set to Null.
Mixing
AspirationMixType
The type of mixing that will occur immediately before aspiration from the source container. Swirl has the operator place the container on the surface of the TransferEnvironment and perform NumberOfAspirationMixes clockwise rotations of the container. Pipette performs NumberOfAspirationMixes aspiration/dispense cycle(s) of AspirationMixVolume using a pipette. Tilt changes the angle of the container to (1) 0 AngularDegrees, (2) 10 AngularDegrees, (3) 0 AngularDegrees, a total of NumberOfAspirationMixes times on a Hamilton integrated tilt plate position. Swirl is only available when Preparation->Manual and Tilt is only available when Preparation->Robotic.
Default Calculation: Automatically set to Pipette if any of the other AspirationMix options are set and we're using a pipette to do the transfer. Otherwise, set to Null.
DispenseMixType
The type of mixing that will occur immediately after the sample is dispensed into the destination container. Swirl has the operator place the container on the surface of the TransferEnvironment and perform NumberOfDispenseMixes clockwise rotations of the container. Pipette performs NumberOfDispenseMixes aspiration/dispense cycle(s) of DispenseMixVolume using a pipette. Tilt changes the angle of the container to (1) 0 AngularDegrees, (2) 10 AngularDegrees, (3) 0 AngularDegrees, a total of NumberOfDispenseMixes times on a Hamilton integrated tilt plate position. Swirl is only available when Preparation->Manual and Tilt is only available when Preparation->Robotic.
Default Calculation: Automatically set to Pipette if any of the other DispenseMix options are set and we're using a pipette to do the transfer. Otherwise, set to Null.
Intermediate Decanting
IntermediateDecant
Indicates if the source will need to be decanted into an intermediate container in order for the precise amount requested to be transferred via pipette. Intermediate decants are necessary if the container geometry prevents the Instrument from reaching the liquid level of the sample in the container (plus the delta of volume that is to be transferred). The container geometry is automatically calculated from the inverse of the volume calibration function when the container is parameterized upon receiving. This option will be set to Null if Preparation->Robotic.
Default Calculation: Automatically set to True if the source is in a container that in a container that is pipette-inaccessible and the Instrument set to perform the transfer is a pipette.
IntermediateContainer
The container that the source will be decanted into in order to make the final transfer via pipette into the final destination.
Default Calculation: Automatically set to the PreferredContainer[...] of the volume that is being transferred if IntermediateDecant->True.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Null.
Programmatic Pattern: ((Null | (ObjectP[{Model[Container], Object[Container]}] | _String)) | Automatic) | Null
Temperature Conditions
SourceTemperature
Indicates the temperature at which the source sample will be at during the transfer. When samples are transferred off of the operator cart and into the TransferEnvironment, they are placed in a portable heater/cooler to get the sample to temperature right before the transfer occurs. Note that this is different than the TransportCondition of the sample.
Default Calculation: Automatically set to the TransferTemperature or TransportTemperature (whichever is first filled out) of the source sample. Otherwise, is transferred at Ambient temperature.
Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 90 degrees Celsius or Null.
Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, 90*Celsius] | Ambient)) | Automatic) | Null
SourceEquilibrationTime
MaxSourceEquilibrationTime
The maximum duration of time for which the samples will be heated/cooled to the target SourceTemperature, if they do not reach the SourceTemperature after SourceEquilibrationTime. MaxSourceEquilibrationTime will only be used if SourceEquilibrationCheck is set, in order to extend the equilibration time past the initial SourceEquilibrationTime if SourceTemperature has not been reached. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.
SourceEquilibrationCheck
The method by which to verify the temperature of the source before the transfer is performed. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.
DestinationTemperature
Indicates the temperature at which the destination will be at during the transfer. When samples are transferred off of the operator cart and into the TransferEnvironment, they are placed in a portable heater/cooler to get the sample to temperature right before the transfer occurs. Note that this is different than the TransportCondition of the sample.
Default Calculation: Automatically set to the TransferTemperature or TransportTemperature (whichever is first filled out) of the destination sample. Otherwise, is transferred at Ambient temperature.
Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 90 degrees Celsius or Null.
Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, 90*Celsius] | Ambient)) | Automatic) | Null
DestinationEquilibrationTime
The duration of time for which the samples will be heated/cooled to the target DestinationTemperature.
MaxDestinationEquilibrationTime
The maximum duration of time for which the samples will be heated/cooled to the target DestinationTemperature, if they do not reach the DestinationTemperature after DestinationEquilibrationTime. MaxDestinationEquilibrationTime will only be used if DestinationEquilibrationCheck is set, in order to extend the equilibration time past the initial DestinationEquilibrationTime if DestinationTemperature has not been reached. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.
DestinationEquilibrationCheck
The method by which to verify the temperature of the destination before the transfer is performed. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.
Wait
Experiment Options
General
OptimizeUnitOperations
Indicates if the input list of unit operations should be automatically reordered to optimize the efficiency in which they will be executed in the lab.
CoverAtEnd
Indicates if covers are placed on all plates after a group of robotic unit operations to decrease evaporation, if Preparation -> Robotic and WorkCell -> bioSTAR or STAR. Note the qPix does not have the ability to cover plates so CoverAtEnd cannot be set to True for protocols involving PickColonies, StreakCells, or SpreadCells unit operations.
IgnoreWarnings
Protocol Options
Organizational Information
Template
A template protocol whose methodology should be reproduced in running this experiment. Option values will be inherited from the template protocol, but can be individually overridden by directly specifying values for those options to this Experiment function.
Pattern Description: An object of type or subtype Object[Protocol] or an object of type or subtype of Object[Protocol] with UnresolvedOptions, ResolvedOptions specified or Null.
Programmatic Pattern: (ObjectP[Object[Protocol]] | FieldReferenceP[Object[Protocol], {UnresolvedOptions, ResolvedOptions}]) | Null
Name
A object name which should be used to refer to the output object in lieu of an automatically generated ID number.
Post Experiment
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment.
Default Calculation: Automatically set to False if the experiment involves Living cells and/or Sterile samples.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment.
Default Calculation: Automatically set to False if the experiment involves Living cells and/or Sterile samples.
ImageSample
Indicates if any samples that are modified in the course of the experiment should be freshly imaged after running the experiment.
Warnings and Errors
Messages (8)
InvalidUnitOperationHeads (2)
InvalidUnitOperationMethods (1)
InvalidUnitOperationOptions (2)
InvalidUnitOperationRequiredOptions (2)
Last modified on Tue 2 Sep 2025 18:18:34