@opentrons/shared-data 0.0.1-alpha.19 → 0.0.1-alpha.21

package/python/opentrons_shared_data/protocol/models/protocol_schema_v6.py

@@ -1,145 +0,0 @@
-from pydantic import BaseModel, Field, validator
-from typing import Any, List, Optional, Dict, Union
-from typing_extensions import Literal
-from opentrons_shared_data.labware.labware_definition import LabwareDefinition
-
-from .shared_models import (
-    Liquid,
-    Labware,
-    CommandAnnotation,
-    Location,
-    ProfileStep,
-    WellLocation,
-    OffsetVector,
-    Metadata,
-    Module,
-    Pipette,
-    Robot,
-    DesignerApplication,
-)
-
-
-# TODO (tamar 3/15/22): split apart all the command payloads when we tackle #9583
-class Params(BaseModel):
-    slotName: Optional[str]
-    axes: Optional[List[str]]
-    pipetteId: Optional[str]
-    mount: Optional[str]
-    moduleId: Optional[str]
-    location: Optional[Union[Location, Literal["offDeck"]]]
-    labwareId: Optional[str]
-    displayName: Optional[str]
-    liquidId: Optional[str]
-    volumeByWell: Optional[Dict[str, Any]]
-    wellName: Optional[str]
-    volume: Optional[float]
-    flowRate: Optional[float]
-    wellLocation: Optional[Union[WellLocation]]
-    waitForResume: Optional[Literal[True]]
-    seconds: Optional[float]
-    minimumZHeight: Optional[float]
-    forceDirect: Optional[bool]
-    speed: Optional[float]
-    message: Optional[str]
-    coordinates: Optional[OffsetVector]
-    axis: Optional[str]
-    distance: Optional[float]
-    positionId: Optional[str]
-    temperature: Optional[float]
-    celsius: Optional[float]
-    blockMaxVolumeUl: Optional[float]
-    rpm: Optional[float]
-    height: Optional[float]
-    offset: Optional[OffsetVector]
-    profile: Optional[List[ProfileStep]]
-    radius: Optional[float]
-
-
-class Command(BaseModel):
-    commandType: str
-    params: Params
-    key: Optional[str]
-
-
-class ProtocolSchemaV6(BaseModel):
-    otSharedSchema: Literal["#/protocol/schemas/6"] = Field(
-        ...,
-        alias="$otSharedSchema",
-        description="The path to a valid Opentrons shared schema relative to "
-        "the shared-data directory, without its extension.",
-    )
-    schemaVersion: Literal[6]
-    metadata: Metadata
-    robot: Robot
-    pipettes: Dict[str, Pipette]
-    labware: Dict[str, Labware]
-    modules: Optional[Dict[str, Module]]
-    liquids: Optional[Dict[str, Liquid]]
-    labwareDefinitions: Dict[str, LabwareDefinition]
-    # commands must be after pipettes, labware, etc. for its @validator to work.
-    commands: List[Command]
-    commandAnnotations: Optional[List[CommandAnnotation]]
-    designerApplication: Optional[DesignerApplication]
-
-    class Config:
-        # added for constructing the class with field name instead of alias
-        allow_population_by_field_name = True
-
-    @validator("commands")
-    def _validate_commands(
-        cls,
-        value: List[Command],
-        values: Dict[str, Any],
-    ) -> List[Command]:
-        pipette_ids = set(values["pipettes"].keys()) if "pipettes" in values else set()
-        labware_ids = set(values["labware"].keys()) if "labware" in values else set()
-        module_ids = (
-            set(values["modules"].keys())
-            if "modules" in values and values["modules"]
-            else set()
-        )
-        liquid_ids = (
-            set(values["liquids"].keys())
-            if "liquids" in values and values["liquids"]
-            else set()
-        )
-
-        for index, command in enumerate(value):
-            if (
-                command.params.pipetteId is not None
-                and command.params.pipetteId not in pipette_ids
-            ):
-                raise ValueError(
-                    f"{command.commandType} command at index {index}"
-                    f" references ID {command.params.pipetteId},"
-                    f" which doesn't exist."
-                )
-            if (
-                command.params.labwareId is not None
-                and command.params.labwareId not in labware_ids
-            ):
-                raise ValueError(
-                    f"{command.commandType} command at index {index}"
-                    f" references ID {command.params.labwareId},"
-                    f" which doesn't exist."
-                )
-            if (
-                command.params.moduleId is not None
-                and command.params.moduleId not in module_ids
-            ):
-                raise ValueError(
-                    f"{command.commandType} command at index {index}"
-                    f" references ID {command.params.moduleId},"
-                    f" which doesn't exist."
-                )
-            if (
-                command.params.liquidId is not None
-                and command.params.liquidId not in liquid_ids
-            ):
-                raise ValueError(
-                    f"{command.commandType} command at index {index}"
-                    f" references ID {command.params.liquidId},"
-                    f" which doesn't exist."
-                )
-
-        return value

package/python/opentrons_shared_data/protocol/models/protocol_schema_v7.py

@@ -1,95 +0,0 @@
-from pydantic import BaseModel, Field
-from typing import Any, List, Optional, Dict, Union
-from typing_extensions import Literal
-
-from opentrons_shared_data.labware.labware_definition import LabwareDefinition
-
-from .shared_models import (
-    Liquid,
-    CommandAnnotation,
-    Location,
-    ProfileStep,
-    WellLocation,
-    OffsetVector,
-    Metadata,
-    Robot,
-    DesignerApplication,
-)
-
-
-# TODO (tamar 3/15/22): split apart all the command payloads when we tackle #9583
-class Params(BaseModel):
-    slotName: Optional[str]
-    axes: Optional[List[str]]
-    pipetteId: Optional[str]
-    mount: Optional[str]
-    moduleId: Optional[str]
-    location: Optional[Union[Location, Literal["offDeck"]]]
-    labwareId: Optional[str]
-    displayName: Optional[str]
-    liquidId: Optional[str]
-    volumeByWell: Optional[Dict[str, Any]]
-    wellName: Optional[str]
-    volume: Optional[float]
-    flowRate: Optional[float]
-    wellLocation: Optional[WellLocation]
-    waitForResume: Optional[Literal[True]]
-    seconds: Optional[float]
-    minimumZHeight: Optional[float]
-    forceDirect: Optional[bool]
-    speed: Optional[float]
-    message: Optional[str]
-    coordinates: Optional[OffsetVector]
-    axis: Optional[str]
-    distance: Optional[float]
-    positionId: Optional[str]
-    temperature: Optional[float]
-    celsius: Optional[float]
-    blockMaxVolumeUl: Optional[float]
-    rpm: Optional[float]
-    height: Optional[float]
-    offset: Optional[OffsetVector]
-    profile: Optional[List[ProfileStep]]
-    radius: Optional[float]
-    # schema v7 add-ons
-    newLocation: Optional[Union[Location, Literal["offDeck"]]]
-    strategy: Optional[str]
-    pickUpOffset: Optional[OffsetVector]
-    dropOffset: Optional[OffsetVector]
-    homeAfter: Optional[bool]
-    alternateDropLocation: Optional[bool]
-    holdTimeSeconds: Optional[float]
-    maintenancePosition: Optional[str]
-    pipetteName: Optional[str]
-    model: Optional[str]
-    loadName: Optional[str]
-    namespace: Optional[str]
-    version: Optional[int]
-    pushOut: Optional[float]
-
-
-class Command(BaseModel):
-    commandType: str
-    params: Params
-    key: Optional[str]
-
-
-class ProtocolSchemaV7(BaseModel):
-    otSharedSchema: Literal["#/protocol/schemas/7"] = Field(
-        ...,
-        alias="$otSharedSchema",
-        description="The path to a valid Opentrons shared schema relative to "
-        "the shared-data directory, without its extension.",
-    )
-    schemaVersion: Literal[7]
-    metadata: Metadata
-    robot: Robot
-    liquids: Optional[Dict[str, Liquid]]
-    labwareDefinitions: Dict[str, LabwareDefinition]
-    commands: List[Command]
-    commandAnnotations: Optional[List[CommandAnnotation]]
-    designerApplication: Optional[DesignerApplication]
-
-    class Config:
-        # added for constructing the class with field name instead of alias
-        allow_population_by_field_name = True

package/python/opentrons_shared_data/protocol/models/protocol_schema_v8.py

@@ -1,110 +0,0 @@
-from pydantic import BaseModel, Field, Extra
-from typing import Any, List, Optional, Dict, Union
-from typing_extensions import Literal
-
-from opentrons_shared_data.labware.labware_definition import LabwareDefinition
-
-from .shared_models import (
-    Liquid,
-    Location,
-    ProfileStep,
-    WellLocation,
-    OffsetVector,
-    Metadata,
-    DesignerApplication,
-    Robot,
-    NozzleConfigurationParams,
-)
-
-
-# TODO (tamar 3/15/22): split apart all the command payloads when we tackle #9583
-class Params(BaseModel):
-    slotName: Optional[str]
-    axes: Optional[List[str]]
-    pipetteId: Optional[str]
-    mount: Optional[str]
-    moduleId: Optional[str]
-    location: Optional[Union[Location, Literal["offDeck"]]]
-    labwareId: Optional[str]
-    displayName: Optional[str]
-    liquidId: Optional[str]
-    volumeByWell: Optional[Dict[str, Any]]
-    wellName: Optional[str]
-    volume: Optional[float]
-    flowRate: Optional[float]
-    wellLocation: Optional[WellLocation]
-    waitForResume: Optional[Literal[True]]
-    seconds: Optional[float]
-    minimumZHeight: Optional[float]
-    forceDirect: Optional[bool]
-    speed: Optional[float]
-    message: Optional[str]
-    coordinates: Optional[OffsetVector]
-    axis: Optional[str]
-    distance: Optional[float]
-    positionId: Optional[str]
-    temperature: Optional[float]
-    celsius: Optional[float]
-    blockMaxVolumeUl: Optional[float]
-    rpm: Optional[float]
-    height: Optional[float]
-    offset: Optional[OffsetVector]
-    profile: Optional[List[ProfileStep]]
-    radius: Optional[float]
-    newLocation: Optional[Union[Location, Literal["offDeck"]]]
-    strategy: Optional[str]
-    # schema v7 add-ons
-    homeAfter: Optional[bool]
-    alternateDropLocation: Optional[bool]
-    holdTimeSeconds: Optional[float]
-    maintenancePosition: Optional[str]
-    pipetteName: Optional[str]
-    model: Optional[str]
-    loadName: Optional[str]
-    namespace: Optional[str]
-    version: Optional[int]
-    pushOut: Optional[float]
-    pickUpOffset: Optional[OffsetVector]
-    dropOffset: Optional[OffsetVector]
-    # schema v8 add-ons
-    addressableAreaName: Optional[str]
-    configurationParams: Optional[NozzleConfigurationParams]
-
-
-class Command(BaseModel):
-    commandType: str
-    params: Params
-    key: Optional[str]
-
-
-class CommandAnnotation(BaseModel):
-    commandKeys: List[str]
-    annotationType: str
-
-    class Config:
-        extra = Extra.allow
-
-
-class ProtocolSchemaV8(BaseModel):
-    otSharedSchema: Literal["#/protocol/schemas/8"] = Field(
-        ...,
-        alias="$otSharedSchema",
-        description="The path to a valid Opentrons shared schema relative to "
-        "the shared-data directory, without its extension.",
-    )
-    schemaVersion: Literal[8]
-    metadata: Metadata
-    robot: Robot
-    liquidSchemaId: Literal["opentronsLiquidSchemaV1"]
-    liquids: Dict[str, Liquid]
-    labwareDefinitionSchemaId: Literal["opentronsLabwareSchemaV2"]
-    labwareDefinitions: Dict[str, LabwareDefinition]
-    commandSchemaId: Literal["opentronsCommandSchemaV8"]
-    commands: List[Command]
-    commandAnnotationSchemaId: Literal["opentronsCommandAnnotationSchemaV1"]
-    commandAnnotations: List[CommandAnnotation]
-    designerApplication: Optional[DesignerApplication]
-
-    class Config:
-        # added for constructing the class with field name instead of alias
-        allow_population_by_field_name = True

package/python/opentrons_shared_data/protocol/models/shared_models.py

@@ -1,111 +0,0 @@
-from typing import Optional, List, Dict, Any
-from typing_extensions import Literal
-from enum import Enum
-from pydantic import BaseModel
-
-
-class Dimensions(BaseModel):
-    xDimension: float
-    yDimension: float
-    zDimension: float
-
-
-class GroupMetadata(BaseModel):
-    pass
-
-
-class Group(BaseModel):
-    metadata: GroupMetadata
-    wells: List[str]
-
-
-class Shape(Enum):
-    circular = "circular"
-    rectangular = "rectangular"
-
-
-class WellDefinition(BaseModel):
-    depth: float
-    totalLiquidVolume: int
-    shape: Shape
-    x: float
-    y: float
-    z: float
-    diameter: Optional[float]
-    yDimension: Optional[float]
-    xDimension: Optional[float]
-
-
-class Metadata(BaseModel):
-    protocolName: Optional[str]
-    author: Optional[str]
-    description: Optional[str]
-    created: Optional[int]
-    lastModified: Optional[int]
-    category: Optional[str]
-    subcategory: Optional[str]
-    tags: Optional[List[str]]
-
-
-class Module(BaseModel):
-    model: str
-
-
-class Pipette(BaseModel):
-    name: str
-
-
-class Robot(BaseModel):
-    model: Literal["OT-2 Standard", "OT-3 Standard"]
-    deckId: str
-
-
-class DesignerApplication(BaseModel):
-    name: Optional[str]
-    version: Optional[str]
-    data: Optional[Dict[str, Any]]
-
-
-class CommandAnnotation(BaseModel):
-    commandIds: List[str]
-    annotationType: str
-
-
-class OffsetVector(BaseModel):
-    x: Optional[float]
-    y: Optional[float]
-    z: Optional[float]
-
-
-class Location(BaseModel):
-    slotName: Optional[str]
-    moduleId: Optional[str]
-    labwareId: Optional[str]
-    addressableAreaName: Optional[str]
-
-
-class ProfileStep(BaseModel):
-    celsius: float
-    holdSeconds: float
-
-
-class WellLocation(BaseModel):
-    origin: Optional[str]
-    offset: Optional[OffsetVector]
-
-
-class Liquid(BaseModel):
-    displayName: str
-    description: str
-    displayColor: Optional[str]
-
-
-class Labware(BaseModel):
-    displayName: Optional[str]
-    definitionId: str
-
-
-class NozzleConfigurationParams(BaseModel):
-    style: str
-    primaryNozzle: Optional[str]
-    frontRightNozzle: Optional[str]

package/python/opentrons_shared_data/robot/__init__.py

@@ -1,33 +0,0 @@
-"""opentrons_shared_data.robot: Submodule for handling robot definition data."""
-from pathlib import Path
-from typing import cast
-from typing_extensions import Final
-
-import json
-
-from .. import get_shared_data_root
-
-from .dev_types import RobotDefinition, RobotType
-
-DEFAULT_ROBOT_DEFINITION_VERSION: Final = 1
-
-
-def load(
-    robot_type: RobotType, version: int = DEFAULT_ROBOT_DEFINITION_VERSION
-) -> RobotDefinition:
-    """Load the definition for the specified robot id."""
-    for fi in Path(
-        get_shared_data_root() / "robot" / "definitions" / f"{version}"
-    ).iterdir():
-        defn = json.load(fi.open("r"))
-        if defn["robotType"] == robot_type:
-            return cast(RobotDefinition, defn)
-    raise KeyError(robot_type)
-
-
-def user_facing_robot_type(robot_type: RobotType, include_article: bool = False) -> str:
-    """Appropriately formatted robot type string for use in user-facing messages."""
-    if robot_type == "OT-2 Standard":
-        return "an OT-2" if include_article else "OT-2"
-    elif robot_type == "OT-3 Standard":
-        return "a Flex" if include_article else "Flex"

package/python/opentrons_shared_data/robot/dev_types.py

@@ -1,37 +0,0 @@
-"""opentrons_shared_data.robot.dev_types: types for robot def."""
-import enum
-from typing import NewType, List, Dict, Any
-from typing_extensions import Literal, TypedDict
-
-RobotSchemaVersion1 = Literal[1]
-
-RobotSchema = NewType("RobotSchema", Dict[str, Any])
-
-RobotType = Literal["OT-2 Standard", "OT-3 Standard"]
-
-
-class RobotTypeEnum(enum.Enum):
-    """An enum representing the active robot type."""
-
-    # TODO we should switch over to using Enums fully (if possible)
-    # to represent our robot types in code -- rather than having
-    # to string match everywhere.
-    OT2 = enum.auto()
-    FLEX = enum.auto()
-
-    @classmethod
-    def robot_literal_to_enum(cls, robot_type: RobotType) -> "RobotTypeEnum":
-        """Convert Robot Type Literal to Robot Type Enum."""
-        if robot_type == "OT-2 Standard":
-            return cls.OT2
-        elif robot_type == "OT-3 Standard":
-            return cls.FLEX
-        # No final `else` statement, depend on mypy exhaustiveness checking
-
-
-class RobotDefinition(TypedDict):
-    """A python version of the robot definition type."""
-
-    displayName: str
-    robotType: RobotType
-    models: List[str]

package/python/pytest.ini

@@ -1,2 +0,0 @@
-[pytest]
-addopts = --color=yes --strict-markers

package/python/setup.cfg

@@ -1,5 +0,0 @@
-[bdist_wheel]
-universal = 1
-
-[metadata]
-license_files = ../../LICENSE