Ejemplo n.º 1
0
func (m *ManualDriver) Move(deckposition []string, wellcoords []string, reference []int, offsetX, offsetY, offsetZ []float64, plate_type []string, head int) driver.CommandStatus {
	params := make(map[string]string)
	params["deckposition"] = fmt.Sprintf("%v", deckposition[0])
	params["wellcoords"] = fmt.Sprintf("%v", wellcoords[0])
	params["reference"] = fmt.Sprintf("%v", reference)
	params["offsetX"] = fmt.Sprintf("%v", offsetX)
	params["offsetY"] = fmt.Sprintf("%v", offsetY)
	params["offsetZ"] = fmt.Sprintf("%v", offsetZ)
	params["plate_type"] = fmt.Sprintf("%v", plate_type)
	params["head"] = fmt.Sprintf("%v", head)

	desc := fmt.Sprintf("Deck Postition %v @well %v with reference %v", deckposition, wellcoords, reference)
	ad := *equipment.NewActionDescription(action.LH_MOVE, desc, params)
	m.sendActionToEquipment(ad)
	//	go m.eq.Do(ad)
	//	err := m.eq.Do(ad)
	//	if err != nil {
	//		return driver.CommandStatus{
	//			OK:        false,
	//			Errorcode: 1,
	//			Msg:       err.Error(),
	//		}
	//	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 2
0
func (m *Manual) Message(message string) driver.CommandStatus {
	var act action.Action
	act = action.MESSAGE
	ret := new(driver.CommandStatus)
	var eq *equipment.Equipment
	params := make(map[string]string, 0)
	//	fmt.Println(m.Manager)
	acd := equipment.NewActionDescription(act, message, params)
	//	fmt.Println(*acd)
	eq = m.Manager.GetActionCandidate(*acd)
	if eq == nil {
		ret.Errorcode = driver.ERR
		ret.Msg = fmt.Sprintf("Could not find suitable equipment for action %v : %v.", act, message)
		ret.OK = false
		return *ret
	}
	var actionEq equipment.Equipment
	actionEq = *eq
	err := actionEq.Do(*acd)
	if err != nil {
		ret.Errorcode = driver.ERR
		ret.Msg = err.Error()
		ret.OK = false
		return *ret

	}
	ret.Errorcode = driver.OK
	ret.OK = true
	return *ret
}
Ejemplo n.º 3
0
func (m *ManualDriver) Aspirate(volume []float64, overstroke []bool, head int, multi int, platetype []string, what []string, llf []bool) driver.CommandStatus {
	params := make(map[string]string)
	params["volume"] = fmt.Sprintf("%g", volume[0])
	params["overstroke"] = fmt.Sprintf("%v", overstroke[0])
	params["head"] = fmt.Sprintf("%v", head)
	params["multi"] = fmt.Sprintf("%v", multi)
	params["platetype"] = fmt.Sprintf("%v", platetype[0])
	params["what"] = fmt.Sprintf("%v", what[0])
	//	params["llf"] = fmt.Sprintf("%v", llf[0])

	desc := fmt.Sprintf("Aspirate volumes %v", volume) //TOOD make a meaning of the values
	ad := *equipment.NewActionDescription(action.LH_ASPIRATE, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}

}
Ejemplo n.º 4
0
func (m *ManualDriver) Dispense(volume []float64, blowout []bool, head int, multi int, platetype []string, what []string, llf []bool) driver.CommandStatus {
	params := make(map[string]string)
	params["volume"] = fmt.Sprintf("%g", volume[0])
	params["blowout"] = fmt.Sprintf("%t", blowout[0])
	params["head"] = fmt.Sprintf("%v", head)
	params["multi"] = fmt.Sprintf("%v", multi)
	params["platetype"] = fmt.Sprintf("%v", platetype[0])
	params["what"] = fmt.Sprintf("%s", what[0])
	params["llf"] = fmt.Sprintf("%t", llf)

	desc := fmt.Sprintf("Dispense volumes %v", volume)
	ad := *equipment.NewActionDescription(action.LH_DISPENSE, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 5
0
//NewManualDriver returns a new instance of a manual driver pointing to the right piece of equipment
func NewManualDriver() *ManualDriver {
	ret := new(ManualDriver)
	eqm := *equipmentManager.GetEquipmentManager()
	params := make(map[string]string, 0)
	ret.eq = *eqm.GetActionCandidate(*equipment.NewActionDescription(action.LH_MIX, "", params)) //TODO make this into something more meaningful
	return ret
}
Ejemplo n.º 6
0
//NewManualDriver returns a new instance of a manual driver pointing to the right piece of equipment
func NewManualDriver() *ManualDriver {
	ret := new(ManualDriver)
	ret.ag = *NewAggregator()
	ret.plateLookup = *NewTranslateDictionary("Plate")
	ret.tipboxlookup = *NewTranslateDictionary("Tipbox")
	ret.tipwastelookup = *NewTranslateDictionary("Tipwaste")
	eqm := *equipmentManager.GetEquipmentManager()
	params := make(map[string]string, 0)
	ret.eq = *eqm.GetActionCandidate(*equipment.NewActionDescription(action.LH_MIX, "", params))
	return ret
}
Ejemplo n.º 7
0
func (m *ManualDriver) RemovePlateAt(position string) driver.CommandStatus {
	desc := fmt.Sprintf("Remove Plate at position %s", position) //TODO
	params := make(map[string]string)

	ad := *equipment.NewActionDescription(action.LH_REMOVE_PLATE, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 8
0
func (m *ManualDriver) RemoveAllPlates() driver.CommandStatus {
	desc := fmt.Sprintf("Remove all Plates from the liquid handler") //TODO
	params := make(map[string]string)

	ad := *equipment.NewActionDescription(action.LH_REMOVE_ALL_PLATES, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 9
0
func (m *ManualDriver) Mix(head int, volume []float64, fvolume []float64, platetype []string, cycles []int, multi int, prms map[string]interface{}) driver.CommandStatus {
	params := make(map[string]string)

	desc := fmt.Sprintf("Mix with head num %d", head)
	ad := *equipment.NewActionDescription(action.LH_MIX, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 10
0
func (m *ManualDriver) SetPositionState(position string, state driver.PositionState) driver.CommandStatus {
	desc := fmt.Sprintf("Set position %s to state %v", position, state)
	params := make(map[string]string)

	ad := *equipment.NewActionDescription(action.LH_SET_POSITION_STATE, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 11
0
func (m *ManualDriver) SetPipetteSpeed(head, channel int, rate float64) driver.CommandStatus {
	desc := fmt.Sprintf("Set pippete speed to %v for head num %d, channel num %d", rate, head, channel)
	params := make(map[string]string)

	ad := *equipment.NewActionDescription(action.LH_SET_PIPPETE_SPEED, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 12
0
func (m *ManualDriver) UnloadTips(channels []int, head, multi int, platetype, position, well []string) driver.CommandStatus {
	params := make(map[string]string)

	desc := fmt.Sprintf("Unload tips for channels %v", channels)
	ad := *equipment.NewActionDescription(action.LH_UNLOAD_TIPS, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 13
0
func (m *ManualDriver) MoveRaw(head int, x, y, z float64) driver.CommandStatus {
	desc := fmt.Sprintf("Move to coordinates %v, %v, %v", x, y, z)
	params := make(map[string]string)

	ad := *equipment.NewActionDescription(action.LH_MOVE_RAW, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 14
0
func (m *ManualDriver) MoveExplicit(deckposition []string, wellcoords []string, reference []int, offsetX, offsetY, offsetZ []float64, plate_type []*wtype.LHPlate, head int) driver.CommandStatus {
	params := make(map[string]string)

	desc := fmt.Sprintf("Deck Postition %v @well %v with reference %v", deckposition, wellcoords, reference)
	ad := *equipment.NewActionDescription(action.LH_MOVE_EXPLICIT, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 15
0
func (m *ManualDriver) SetDriveSpeed(drive string, rate float64) driver.CommandStatus {
	desc := fmt.Sprintf("Set drive %s to speed %v", drive, rate)
	params := make(map[string]string)

	ad := *equipment.NewActionDescription(action.LH_SET_DRIVE_SPEED, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 16
0
func (m *ManualDriver) AddPlateTo(position string, plate interface{}, name string) driver.CommandStatus {
	//plate can be lhplate, lhtipbox or lhtipwaste
	params := make(map[string]string)
	var desc string
	var ad equipment.ActionDescription
	switch w := plate.(type) {
	case *wtype.LHPlate:
		desc = fmt.Sprintf("Get a %s of type %s and label it as %s. We will refer to it by that name", "Plate", w.Type, m.lookupPlateName(w.GetName()))
	case wtype.LHPlate:
		desc = fmt.Sprintf("Get a %s of type %s and label it as %s. We will refer to it by that name", "Plate", w.Type, m.lookupPlateName(w.GetName()))
	case *wtype.LHTipbox:
		desc = fmt.Sprintf("Get a %s of type %s and label it as %s. We will refer to it by that name", "Tipbox", w.Type, m.lookupTipboxName(w.GetName()))
	case wtype.LHTipbox:
		desc = fmt.Sprintf("Get a %s of type %s and label it as %s. We will refer to it by that name", "Tipbox", w.Type, m.lookupTipboxName(w.GetName()))
	case *wtype.LHTipwaste:
		desc = fmt.Sprintf("Get a %s of type %s and label it as %s. We will refer to it by that name", "Tipwaste", w.Type, m.lookupTipwasteName(w.GetName()))
	case wtype.LHTipwaste:
		desc = fmt.Sprintf("Get a %s of type %s and label it as %s. We will refer to it by that name", "Tipwaste", w.Type, m.lookupTipwasteName(w.GetName()))
	default:
		//panic(reflect.TypeOf(plate))
		panic(errors.New("Unknow plate type"))
	}

	ad = *equipment.NewActionDescription(action.LH_ADD_PLATE, desc, params)
	err := m.sendActionToEquipment(ad)
	if err != nil {
		return driver.CommandStatus{
			OK:        false,
			Errorcode: 1,
			Msg:       err.Error(),
		}
	}
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 17
0
func (m *ManualDriver) Incubate(what *wtype.LHSolution, temp wunit.Temperature, time wunit.Time, shaking bool) driver.CommandStatus {
	params := make(map[string]string)
	params["what"] = fmt.Sprintf("%v", what)
	params["temp"] = fmt.Sprintf("%v", temp)
	params["time"] = fmt.Sprintf("%v", time)
	params["shaking"] = fmt.Sprintf("%v", shaking)
	var desc string
	var act action.Action
	if shaking {
		desc = fmt.Sprintf("Incubate shaking %s for %s at a temperature of %s.", params["what"], params["time"], params["temp"])
		act = action.IN_INCUBATE_SHAKE
	} else {
		desc = fmt.Sprintf("Incubate %s for %s at a temperature of %s.", params["what"], params["time"], params["temp"])
		act = action.IN_INCUBATE
	}
	ad := *equipment.NewActionDescription(act, desc, params)
	m.sendActionToEquipment(ad)
	return driver.CommandStatus{
		OK:        true,
		Errorcode: 0,
		Msg:       "OK",
	}
}
Ejemplo n.º 18
0
func TestCapabilities(t *testing.T) {
	anthaManual := NewAnthaManual("")
	expectedBehaviours := [...]equipment.ActionDescription{
		*equipment.NewActionDescription(action.MESSAGE, "", nil),
		*equipment.NewActionDescription(action.LH_SETUP, "", nil),
		*equipment.NewActionDescription(action.LH_MOVE, "", nil),
		*equipment.NewActionDescription(action.LH_MOVE_EXPLICIT, "", nil),
		*equipment.NewActionDescription(action.LH_MOVE_RAW, "", nil),
		*equipment.NewActionDescription(action.LH_ASPIRATE, "", nil),
		*equipment.NewActionDescription(action.LH_DISPENSE, "", nil),
		*equipment.NewActionDescription(action.LH_LOAD_TIPS, "", nil),
		*equipment.NewActionDescription(action.LH_UNLOAD_TIPS, "", nil),
		*equipment.NewActionDescription(action.LH_SET_PIPPETE_SPEED, "", nil),
		*equipment.NewActionDescription(action.LH_SET_DRIVE_SPEED, "", nil),
		*equipment.NewActionDescription(action.LH_STOP, "", nil),
		*equipment.NewActionDescription(action.LH_SET_POSITION_STATE, "", nil),
		*equipment.NewActionDescription(action.LH_RESET_PISTONS, "", nil),
		*equipment.NewActionDescription(action.LH_WAIT, "", nil),
		*equipment.NewActionDescription(action.LH_MIX, "", nil),
		*equipment.NewActionDescription(action.IN_INCUBATE, "", nil),
		*equipment.NewActionDescription(action.IN_INCUBATE_SHAKE, "", nil),
		*equipment.NewActionDescription(action.MLH_CHANGE_TIPS, "", nil),
	}

	for _, b := range expectedBehaviours {
		if anthaManual.Can(b) == false {
			t.Fatal("anthaManual expected behaviour %s not fulfilled", b)
		}
	}
}
Ejemplo n.º 19
0
//aggregate tries to merge and return actions.
func (a *Aggregator) aggregate() (ret []equipment.ActionDescription) {
	out := "initial values "
	for k, v := range a.Calls {
		out = out + fmt.Sprintf("%d - %s, ", k, v.Action)
	}
	if len(a.Calls) > 3 {
		panic(errors.New("Unexpected Behaviour"))
	}
	if len(a.Calls) == 0 {
		return nil
	} else if len(a.Calls) == 1 {
		if !actionIsMove(a.Calls[0].Action) && a.Calls[0].Action != action.LH_DISPENSE && !actionIsSetup(a.Calls[0].Action) && !actionIsHandleTips(a.Calls[0].Action) {
			//return the action immediately
			ret = append(ret, a.Calls[0])
			a.Calls = make([]equipment.ActionDescription, 0)
			return
		}
	} else if len(a.Calls) == 2 { //more than 1 action, we check for aggregates, we should not have more than 2 actually
		first := a.Calls[0]
		second := a.Calls[1]
		//cases are
		// move + move = move (preserve last)
		// move + asp = asp with pos
		// move + disp = disp with pos
		// move = disp(blowout) = nothing
		// disp + move = disp + move
		// disp + anything = disp out + check anything
		// move + other = return other, clean queue
		if actionIsMove(first.Action) && actionIsMove(second.Action) {
			a.Calls = a.Calls[1:]
			return nil // to be aggregated
		} else if actionIsMove(first.Action) && second.Action == action.LH_ASPIRATE {
			data := fmt.Sprintf("Aspirate from %s well %s, %sul. of %s.", first.Params["deckposition"], first.Params["wellcoords"], second.Params["volume"], second.Params["what"])
			newAc := equipment.ActionDescription{
				Action:     action.LH_ASPIRATE,
				ActionData: data,
				Params:     second.Params,
			}
			a.Calls = make([]equipment.ActionDescription, 0) //clean the queue
			ret = append(ret, newAc)
			return
		} else if actionIsMove(first.Action) && second.Action == action.LH_DISPENSE && second.Params["blowout"] == "true" {
			a.Calls = make([]equipment.ActionDescription, 0) //clean the queue
			return nil                                       //command mean nothing for a human
		} else if actionIsMove(first.Action) && second.Action == action.LH_DISPENSE && second.Params["blowout"] != "true" {
			data := fmt.Sprintf("Dispense in %s well %s, %sul. of %s.", first.Params["deckposition"], first.Params["wellcoords"], second.Params["volume"], second.Params["what"])
			newAc := equipment.ActionDescription{
				Action:     action.LH_DISPENSE,
				ActionData: data,
				Params:     first.Params,
			}
			a.Calls = make([]equipment.ActionDescription, 0) //clean the queue
			a.Calls = append(a.Calls, newAc)
			return nil // we can have moves after the dispense
		} else if first.Action == action.LH_DISPENSE && actionIsMove(second.Action) {
			if second.Params["reference"] == "0" {
				data := fmt.Sprintf("%s. Touch off after dispense", first.ActionData)
				newAc := equipment.ActionDescription{
					Action:     action.LH_DISPENSE,
					ActionData: data,
					Params:     first.Params,
				}
				a.Calls = make([]equipment.ActionDescription, 0) //clean the queue
				ret = append(ret, newAc)
				return
			}
		} else if first.Action == action.LH_DISPENSE { //obviously second action is not a move
			ret = append(ret, first)
			a.Calls = a.Calls[1:]
			ret = append(ret, a.aggregate()...)
			return
		} else if actionIsMove(first.Action) { //Move + unknown, ignore move
			a.Calls = a.Calls[1:]
			return a.aggregate()
		} else if actionIsSetup(first.Action) && (actionIsSetup(second.Action) || actionIsHandleTips(second.Action)) {
			newDesc := fmt.Sprintf("%s\n%s", first.ActionData, second.ActionData)
			newAc := equipment.NewActionDescription(action.LH_SETUP, newDesc, first.Params)
			a.Calls = make([]equipment.ActionDescription, 0)
			a.Calls = append(a.Calls, *newAc)
			return
		} else if actionIsSetup(first.Action) && actionIsMove(second.Action) {
			return
		} else if actionIsSetup(first.Action) && !actionIsSetup(second.Action) { //second is not handle tips
			ret = append(ret, first)
			a.Calls = a.Calls[1:]
			return
		} else if actionIsHandleTips(first.Action) && actionIsHandleTips(second.Action) {
			//unload and then load
			newDesc := fmt.Sprintf("Change tips with new tip of type %s", second.Params["platetype"])
			newAc := equipment.NewActionDescription(action.MLH_CHANGE_TIPS, newDesc, first.Params)
			a.Calls = make([]equipment.ActionDescription, 0)
			ret = append(ret, *newAc)
			return
		} else if actionIsHandleTips(first.Action) && actionIsMove(second.Action) {
			return
		} else if actionIsHandleTips(first.Action) && !actionIsHandleTips(second.Action) {
			ret = append(ret, first)
			a.Calls = a.Calls[1:]
			ret = append(ret, a.aggregate()...)
			return
		}
	} else {
		//cases to get here are
		// disp + move + move = disp + move (merge the two moves and ignore the disp until a ref 0 is found
		// disp + move + otherthing = output disp, deal with the others
		// setup + move + tips = setup + tips
		// tips + move + tips = tips + tips
		// setup + move + otherthing = output tips + recursive
		first := a.Calls[0]
		second := a.Calls[1]
		third := a.Calls[2]
		if first.Action == action.LH_DISPENSE && !actionIsMove(third.Action) { //spit the dispense and merge the other two
			ret = append(ret, first)
			a.Calls = a.Calls[1:]
			ret = append(ret, a.aggregate()...)
			return
		} else if first.Action == action.LH_DISPENSE && actionIsMove(second.Action) && actionIsMove(third.Action) { //disp + two moves
			if third.Params["reference"] == "0" {
				//take away the man in the middle // we are basically ignoring the first move, and calling recursively
				a.Calls = append(a.Calls[0:1], third)
				ret = a.aggregate()
				return
			} else { //normal two move merge, ignore the second
				a.Calls = append(a.Calls[0:1], third)
				return
			}
		} else if actionIsSetup(first.Action) && actionIsMove(second.Action) && actionIsHandleTips(third.Action) {
			a.Calls = append(a.Calls[0:1], a.Calls[2])
			return a.aggregate()
		} else if actionIsSetup(first.Action) && actionIsMove(second.Action) { //third is anything
			ret = append(ret, first)
			a.Calls = a.Calls[1:]
			ret = append(ret, a.aggregate()...)
			return
		} else if actionIsHandleTips(first.Action) && actionIsMove(second.Action) && actionIsHandleTips(third.Action) {
			a.Calls = append(a.Calls[0:1], a.Calls[2])
			return a.aggregate()
		}
		actionStack := fmt.Sprintf("first %s, second %s, third %s", first.Action, second.Action, third.Action)
		panic(errors.New("Unhandled situation" + actionStack))
	}
	return
}