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https://github.com/beak-insights/felicity-lims.git
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89 lines
3.9 KiB
Python
89 lines
3.9 KiB
Python
import logging
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from sqlalchemy import (Boolean, Column, DateTime, ForeignKey, Integer, String,
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Table)
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from sqlalchemy.dialects.postgresql import JSONB
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from sqlalchemy.orm import relationship
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from felicity.apps.abstract import AuditHistory, AuditUser, BaseEntity
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from felicity.apps.analysis.entities import analysis as analysis_entities
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from felicity.apps.analysis.entities import qc as qc_entities
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from felicity.apps.instrument.entities import Instrument
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from felicity.apps.user.entities import User
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logging.basicConfig(level=logging.INFO)
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logger = logging.getLogger(__name__)
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class WSBase(AuditUser):
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__abstract__ = True
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worksheet_type = Column(String)
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reserved = Column(JSONB)
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number_of_samples = Column(Integer)
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rows = Column(Integer)
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cols = Column(Integer)
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row_wise = Column(Boolean(), default=False)
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state = Column(String)
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"""
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Many to Many Link between WorkSheetTemplate and QCLevel
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"""
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worksheet_template_qc_level = Table(
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"worksheet_template_qc_level",
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BaseEntity.metadata,
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Column("ws_template_uid", ForeignKey("worksheet_template.uid"), primary_key=True),
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Column("qc_level_uid", ForeignKey("qc_level.uid"), primary_key=True),
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)
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class WorkSheetTemplate(WSBase):
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"""WorkSheetTemplate
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a template has a single analyses associated in order to avoid
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cases where multi analyses can be assigned to a single ws
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"""
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__tablename__ = "worksheet_template"
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name = Column(String, unique=True, nullable=False)
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description = Column(String)
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analysis_uid = Column(String, ForeignKey("analysis.uid"), nullable=True)
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analysis = relationship(analysis_entities.Analysis, lazy="selectin")
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qc_template_uid = Column(String, ForeignKey("qc_template.uid"), nullable=True)
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qc_template = relationship(qc_entities.QCTemplate, lazy="selectin")
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# to help cater for those created without template we also keep the qc_levels
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qc_levels = relationship(
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qc_entities.QCLevel, secondary=worksheet_template_qc_level, lazy="selectin"
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)
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instrument_uid = Column(String, ForeignKey("instrument.uid"), nullable=True)
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instrument = relationship(Instrument, lazy="selectin")
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sample_type_uid = Column(String, ForeignKey("sample_type.uid"), nullable=False)
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sample_type = relationship(analysis_entities.SampleType, lazy="selectin")
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class WorkSheet(AuditHistory, WSBase):
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__tablename__ = "worksheet"
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template_uid = Column(String, ForeignKey("worksheet_template.uid"), nullable=False)
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template = relationship("WorkSheetTemplate", lazy="selectin")
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analyst_uid = Column(String, ForeignKey("user.uid"), nullable=False)
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analyst = relationship(User, foreign_keys=[analyst_uid], lazy="selectin")
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worksheet_id = Column(String, index=True, unique=True, nullable=False)
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analysis_uid = Column(String, ForeignKey("analysis.uid"), nullable=True)
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analysis = relationship(analysis_entities.Analysis, lazy="selectin")
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instrument_uid = Column(String, ForeignKey("instrument.uid"), nullable=True)
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instrument = relationship(Instrument, backref="worksheets", lazy="selectin")
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sample_type_uid = Column(String, ForeignKey("sample_type.uid"), nullable=False)
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sample_type = relationship(analysis_entities.SampleType, lazy="selectin")
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assigned_count = Column(Integer, nullable=False, default=0)
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analysis_results = relationship(
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"AnalysisResult", back_populates="worksheet", lazy="selectin"
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)
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#
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submitted_by_uid = Column(String, ForeignKey("user.uid"), nullable=True)
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submitted_by = relationship(User, foreign_keys=[submitted_by_uid], lazy="selectin")
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date_submitted = Column(DateTime, nullable=True)
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verified_by_uid = Column(String, ForeignKey("user.uid"), nullable=True)
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verified_by = relationship(User, foreign_keys=[verified_by_uid], lazy="selectin")
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date_verified = Column(DateTime, nullable=True)
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