mirror of
https://github.com/deepmodeling/Uni-Lab-OS
synced 2026-05-23 03:19:55 +00:00
26155b8343
- Add the Bioyond peptide station package with the station-facing Day2 submission flow inlined into BioyondPeptideStation. - Add LIMS sample Excel upload, Day2/Day3 order creation helpers, scheduler/reset controls, and manual-confirm start/reset actions. - Register peptide material PLR resource classes and default peptide material type mappings for runtime resource synchronization. - Add the Bioyond peptide deck definition and warehouse axis/key-axis metadata needed for peptide layout conversion. - Update shared Bioyond warehouse/resource conversion helpers so peptide deck coordinates round-trip correctly. - Include shared Bioyond raw-call debug logging support used by station actions, with a generic local debug output default. - Register the peptide deck in PLR additional resources for deserialization/import visibility. - Exclude private temp_benyao docs, HAR/API inputs, live diagnostics, and siRNA-only station/material files from this handoff commit.
248 lines
8.9 KiB
Python
248 lines
8.9 KiB
Python
"""Peptide Station Material Resource Definitions."""
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from __future__ import annotations
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from collections import OrderedDict
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try:
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from pylabrobot.resources import Container, Plate, TipRack
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except Exception: # pragma: no cover - 允许无 pylabrobot 的轻量动作测试导入
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class _FallbackResource:
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def __init__(self, *args, **kwargs):
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self.args = args
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self.kwargs = kwargs
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class Container(_FallbackResource): # type: ignore[no-redef]
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pass
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class Plate(_FallbackResource): # type: ignore[no-redef]
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pass
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class TipRack(_FallbackResource): # type: ignore[no-redef]
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pass
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try:
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from unilabos.registry.decorators import resource
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except Exception: # pragma: no cover - 允许无完整 registry 依赖时导入常量
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def resource(*args, **kwargs):
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def decorator(cls):
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return cls
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return decorator
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def _ensure_itemized_ordering(kwargs: dict) -> None:
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if kwargs.get("ordering") is None and kwargs.get("ordered_items") is None:
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kwargs["ordering"] = OrderedDict()
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class _PeptideTipRack(TipRack):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("size_x", 127.76)
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kwargs.setdefault("size_y", 85.48)
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kwargs.setdefault("size_z", 64.0)
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kwargs.setdefault("with_tips", True)
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_ensure_itemized_ordering(kwargs)
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super().__init__(*args, **kwargs)
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class _PeptidePlate(Plate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("size_x", 127.76)
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kwargs.setdefault("size_y", 85.48)
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kwargs.setdefault("size_z", 14.35)
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kwargs.setdefault("plate_type", "skirted")
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_ensure_itemized_ordering(kwargs)
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_1000ul_tip_rack",
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category=["labware", "tip_rack"],
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description="1000uL tip rack for Bioyond peptide station",
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)
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class BioyondPeptide_1000ul_TipRack(_PeptideTipRack):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_1000ul_tip_rack")
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_200ul_tip_rack",
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category=["labware", "tip_rack"],
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description="200uL tip rack for Bioyond peptide station",
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)
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class BioyondPeptide_200ul_TipRack(_PeptideTipRack):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_200ul_tip_rack")
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_50ul_tip_rack",
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category=["labware", "tip_rack"],
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description="50uL tip rack for Bioyond peptide station",
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)
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class BioyondPeptide_50ul_TipRack(_PeptideTipRack):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_50ul_tip_rack")
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_96_well_deep_well_plate",
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category=["labware", "plate"],
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description="96 well deep well plate for Bioyond peptide station",
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)
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class BioyondPeptide_96WellDeepWellPlate(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_96_well_deep_well_plate")
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kwargs.setdefault("size_z", 44.0)
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_96_well_synthesis_plate",
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category=["labware", "plate"],
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description="96 well solid-phase synthesis plate for Bioyond peptide station",
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)
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class BioyondPeptide_96WellSynthesisPlate(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_96_well_synthesis_plate")
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_96_well_synthesis_plate_base",
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category=["labware", "adapter"],
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description="96 well solid-phase synthesis plate base for Bioyond peptide station",
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)
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class BioyondPeptide_96WellSynthesisPlateBase(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_96_well_synthesis_plate_base")
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kwargs.setdefault("size_z", 20.0)
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_96_well_balance_plate",
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category=["labware", "plate"],
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description="96 well balance plate for Bioyond peptide station",
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)
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class BioyondPeptide_96WellBalancePlate(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_96_well_balance_plate")
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_384_well_plate",
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category=["labware", "plate"],
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description="384 well plate for Bioyond peptide station",
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)
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class BioyondPeptide_384WellPlate(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_384_well_plate")
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_384_lcms_plate",
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category=["labware", "plate"],
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description="384 well LCMS plate for Bioyond peptide station",
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)
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class BioyondPeptide_384LCMSPlate(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_384_lcms_plate")
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_384_balance_plate",
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category=["labware", "plate"],
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description="384 well balance plate for Bioyond peptide station",
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)
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class BioyondPeptide_384BalancePlate(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_384_balance_plate")
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_cover_plate",
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category=["labware", "cover"],
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description="Cover plate for Bioyond peptide station",
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)
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class BioyondPeptide_CoverPlate(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_cover_plate")
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kwargs.setdefault("size_z", 8.0)
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_sealing_base",
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category=["labware", "adapter"],
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description="Sealing base for Bioyond peptide station",
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)
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class BioyondPeptide_SealingBase(_PeptidePlate):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("model", "bioyond_peptide_sealing_base")
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kwargs.setdefault("size_z", 20.0)
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super().__init__(*args, **kwargs)
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@resource(
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id="bioyond_peptide_reagent_trough",
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category=["labware", "trough"],
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description="Reagent trough for Bioyond peptide station",
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)
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class BioyondPeptide_ReagentTrough(Container):
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def __init__(self, *args, **kwargs):
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kwargs.setdefault("size_x", 127.76)
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kwargs.setdefault("size_y", 85.48)
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kwargs.setdefault("size_z", 44.0)
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kwargs.setdefault("max_volume", 300000.0)
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kwargs.setdefault("model", "bioyond_peptide_reagent_trough")
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super().__init__(*args, **kwargs)
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DEFAULT_PEPTIDE_MATERIAL_TYPE_MAPPINGS = {
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"bioyond_peptide_1000ul_tip_rack": ["1000μL枪头盒", "3a1890bb-736e-cfdd-3213-eb314e8a60f9"],
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"bioyond_peptide_200ul_tip_rack": ["200μL枪头盒", "3a1890bb-36d1-964a-18bd-0bf0f2877a7b"],
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"bioyond_peptide_50ul_tip_rack": ["50μL枪头盒", "3a1890bc-5fae-361c-cc09-e6f2f6dcd71d"],
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"bioyond_peptide_96_well_deep_well_plate": ["96孔深孔板", "3a1890bc-1fa8-fe39-9faa-12279ed4569b"],
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"bioyond_peptide_96_well_synthesis_plate": ["96孔固相合成板", "3a1871cb-99f3-f01d-23e2-08dbbd0045b5"],
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"bioyond_peptide_96_well_synthesis_plate_base": ["96孔固相合成板底座", "3a1b997e-241b-64f0-80d1-47bca08799d1"],
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"bioyond_peptide_96_well_balance_plate": ["96孔配平板", "3a187661-2378-1e20-fa5c-a27d49fdc15d"],
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"bioyond_peptide_384_well_plate": ["384孔酶标板", "3a1890bf-2148-ed20-92bd-d85869947d9a"],
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"bioyond_peptide_384_lcms_plate": ["384孔LCMS板", "3a1e6a8b-cb61-74da-a089-8e6f197f80f0"],
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"bioyond_peptide_384_balance_plate": ["384孔配平板", "3a18be7e-47cc-888c-fc68-055753286826"],
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"bioyond_peptide_cover_plate": ["防挥发盖板", "3a19d5a6-b0e2-b486-e5eb-bcabc632f4de"],
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"bioyond_peptide_sealing_base": ["封膜底座", "3a1d1d7b-e33b-6975-165d-c56cba5ed345"],
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"bioyond_peptide_reagent_trough": ["12道试剂槽", "3a18b431-ac58-ca2e-9680-2a4f5880ea45"],
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}
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MATERIAL_TYPE_CODE_TO_CLASS = {
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"0001": BioyondPeptide_96WellSynthesisPlate,
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"0002": BioyondPeptide_96WellBalancePlate,
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"0008": BioyondPeptide_200ul_TipRack,
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"0009": BioyondPeptide_1000ul_TipRack,
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"0011": BioyondPeptide_96WellDeepWellPlate,
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"0012": BioyondPeptide_50ul_TipRack,
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"0016": BioyondPeptide_384WellPlate,
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"0018": BioyondPeptide_384WellPlate,
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"0024": BioyondPeptide_ReagentTrough,
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"0026": BioyondPeptide_384BalancePlate,
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"0035": BioyondPeptide_CoverPlate,
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"0039": BioyondPeptide_96WellSynthesisPlateBase,
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"0041": BioyondPeptide_SealingBase,
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"0049": BioyondPeptide_384LCMSPlate,
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}
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def get_material_class_by_type_code(type_code: str):
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"""Return a peptide material class by Bioyond material type code."""
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return MATERIAL_TYPE_CODE_TO_CLASS.get(type_code)
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