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openMINDS pipeline
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build triggered by submodule version
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Lines changed: 402 additions & 10 deletions

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‎openminds/latest/specimen_prep/activity/tissue_culture_preparation.py‎

Lines changed: 157 additions & 5 deletions
Original file line numberDiff line numberDiff line change
@@ -4,6 +4,7 @@
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# this file was auto-generated!
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from datetime import datetime, time
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from openminds.base import LinkedMetadata
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from openminds.properties import Property
@@ -36,31 +37,182 @@ class TissueCulturePreparation(LinkedMetadata):
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instructions="Add the cell culture type of the resulting tissue cell culture.",
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),
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Property(
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"input",
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"custom_property_sets",
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"openminds.latest.core.CustomPropertySet",
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"customPropertySet",
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multiple=True,
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unique_items=True,
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min_items=1,
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description="no description available",
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instructions="Add any user-defined parameters grouped in context-specific sets that are not covered in the standardized properties of this activity.",
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),
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Property(
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"description",
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str,
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"description",
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formatting="text/markdown",
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multiline=True,
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description="Longer statement or account giving the characteristics of someone or something.",
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instructions="Enter a description of this activity.",
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),
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Property(
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"end_time",
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[datetime, time],
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"endTime",
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description="no description available",
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instructions="Enter the date and/or time on when this activity ended, formatted as either '2023-02-07T16:00:00+00:00' (date-time) or '16:00:00+00:00' (time).",
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),
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Property(
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"inputs",
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[
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"openminds.latest.core.TissueSampleState",
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"openminds.latest.core.TissueSampleCollectionState",
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"openminds.latest.core.SubjectGroupState",
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"openminds.latest.core.SubjectState",
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],
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"input",
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multiple=True,
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unique_items=True,
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min_items=1,
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required=True,
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description="Something or someone that is put into or participates in a process or machine.",
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instructions="Add the state of the specimen before it was prepared as culture in this activity.",
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),
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Property(
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"output",
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"is_part_of",
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"openminds.latest.core.DatasetVersion",
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"isPartOf",
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required=True,
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description="Reference to the ensemble of multiple things or beings.",
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instructions="Add the dataset version in which this activity was conducted.",
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),
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Property(
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"lookup_label",
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str,
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"lookupLabel",
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formatting="text/plain",
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description="no description available",
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instructions="Enter a lookup label for this activity that may help you to find this instance more easily.",
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),
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Property(
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"outputs",
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"openminds.latest.core.TissueSampleState",
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"output",
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multiple=True,
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unique_items=True,
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min_items=1,
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required=True,
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description="Something or someone that comes out of, is delivered or produced by a process or machine.",
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instructions="Add the state of the prepared tissue sample culture that resulted from this activity.",
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),
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Property(
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"performed_by",
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["openminds.latest.computation.SoftwareAgent", "openminds.latest.core.Person"],
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"performedBy",
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multiple=True,
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unique_items=True,
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min_items=1,
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description="no description available",
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instructions="Add all agents that performed this activity.",
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),
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Property(
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"preparation_design",
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"openminds.latest.controlled_terms.PreparationType",
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"preparationDesign",
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description="no description available",
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instructions="Add the initial preparation type for this activity.",
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),
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Property(
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"protocols",
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"openminds.latest.core.Protocol",
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"protocol",
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multiple=True,
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unique_items=True,
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min_items=1,
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required=True,
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description="Plan that describes the process of a scientific or medical experiment, treatment, or procedure.",
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instructions="Add all protocols used during this activity.",
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),
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Property(
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"start_time",
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[datetime, time],
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"startTime",
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description="no description available",
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instructions="Enter the date and/or time on when this activity started, formatted as either '2023-02-07T16:00:00+00:00' (date-time) or '16:00:00+00:00' (time).",
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),
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Property(
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"study_targets",
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[
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"openminds.latest.controlled_terms.AuditoryStimulusType",
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"openminds.latest.controlled_terms.BiologicalOrder",
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"openminds.latest.controlled_terms.BiologicalSex",
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"openminds.latest.controlled_terms.BreedingType",
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"openminds.latest.controlled_terms.CellCultureType",
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"openminds.latest.controlled_terms.CellType",
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"openminds.latest.controlled_terms.Disease",
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"openminds.latest.controlled_terms.DiseaseModel",
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"openminds.latest.controlled_terms.ElectricalStimulusType",
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"openminds.latest.controlled_terms.GeneticStrainType",
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"openminds.latest.controlled_terms.GustatoryStimulusType",
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"openminds.latest.controlled_terms.Handedness",
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"openminds.latest.controlled_terms.MolecularEntity",
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"openminds.latest.controlled_terms.OlfactoryStimulusType",
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"openminds.latest.controlled_terms.OpticalStimulusType",
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"openminds.latest.controlled_terms.Organ",
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"openminds.latest.controlled_terms.OrganismSubstance",
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"openminds.latest.controlled_terms.OrganismSystem",
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"openminds.latest.controlled_terms.Species",
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"openminds.latest.controlled_terms.SubcellularEntity",
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"openminds.latest.controlled_terms.TactileStimulusType",
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"openminds.latest.controlled_terms.TermSuggestion",
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"openminds.latest.controlled_terms.TissueSampleType",
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"openminds.latest.controlled_terms.UBERONParcellation",
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"openminds.latest.controlled_terms.VisualStimulusType",
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"openminds.latest.sands.CustomAnatomicalEntity",
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"openminds.latest.sands.ParcellationEntity",
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"openminds.latest.sands.ParcellationEntityVersion",
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],
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"studyTarget",
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multiple=True,
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unique_items=True,
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min_items=1,
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description="Structure or function that was targeted within a study.",
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instructions="Add all study targets of this activity.",
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),
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]
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59-
def __init__(self, id=None, culture_medium=None, culture_type=None, input=None, output=None):
184+
def __init__(
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self,
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id=None,
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culture_medium=None,
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culture_type=None,
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custom_property_sets=None,
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description=None,
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end_time=None,
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inputs=None,
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is_part_of=None,
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lookup_label=None,
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outputs=None,
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performed_by=None,
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preparation_design=None,
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protocols=None,
199+
start_time=None,
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study_targets=None,
201+
):
60202
return super().__init__(
61203
id=id,
62204
culture_medium=culture_medium,
63205
culture_type=culture_type,
64-
input=input,
65-
output=output,
206+
custom_property_sets=custom_property_sets,
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description=description,
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end_time=end_time,
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inputs=inputs,
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is_part_of=is_part_of,
211+
lookup_label=lookup_label,
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outputs=outputs,
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performed_by=performed_by,
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preparation_design=preparation_design,
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protocols=protocols,
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start_time=start_time,
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study_targets=study_targets,
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)

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