unfinished isth major bleed

phenex/phenotypes/factory/isth_major_bleeding.py

@@ -0,0 +1,81 @@
+from dataclasses import dataclass
+from typing import Optional, Union
+
+from phenex.codelists import Codelist
+from phenex.phenotypes import CodelistPhenotype, DeathPhenotype, LogicPhenotype
+from phenex.filters import (
+    RelativeTimeRangeFilter,
+    GreaterThanOrEqualTo,
+    LessThanOrEqualTo,
+    CategoricalFilter,
+)
+
+@dataclass
+class ISTHBleedComponents:
+    critical_organ_bleed_codelist: Codelist
+    overt_bleed_codelist: Codelist
+    possible_bleed_codelist: Codelist
+    inpatient: CategoricalFilter
+    outpatient: CategoricalFilter
+    primary_diagnosis: CategoricalFilter
+    secondary_diagnosis: CategoricalFilter
+    diagnosis_of: CategoricalFilter = None
+    diagnosis_code_domain: str = 'CONDITION_OCCURRENCE_SOURCE'
+    procedure_code_domain: str = 'PROCEDURE_OCCURRENCE_SOURCE'
+    death_domain: str = 'PERSON'
+    anchor_phenotype: Optional[Union[str, "Phenotype"]] = None
+    when: str = 'after'
+
+    @property
+    def relative_time_range(self):
+        return  RelativeTimeRangeFilter(
+            when = self.when,
+            anchor_phenotype = self.anchor_phenotype
+        )
+
+
+
+
+
+def ISTHMajorBleedingPhenotype(
+        components: ISTHBleedComponents
+) -> LogicPhenotype:
+
+
+    # bleed_verification = BleedVerificationPhenotype()
+    critical_organ_bleed = CriticalOrganBleedPhenotype(components)
+    symptomatic_bleed = SymptomaticBleedPhenotype(components)
+    fatal_bleed = FatalBleedPhenotype(components)
+    return LogicPhenotype(
+        name="isth_major_bleed",
+        expression=critical_organ_bleed | symptomatic_bleed | fatal_bleed,
+        return_date="first",
+    )
+
+
+def CriticalOrganBleedPhenotype(c:ISTHBleedComponents):
+    categorical_filters = c.inpatient & (c.primary_diagnosis | c.secondary_diagnosis)
+    if c.diagnosis_of is not None:
+        categorical_filters = categorical_filters & c.diagnosis_of
+
+    critical_organ_bleed = CodelistPhenotype(
+        name = 'isth_critical_organ_bleed'
+        domain = c.diagnosis_code_domain,
+        codelist = c.critical_organ_bleed_codelist,
+        categorical_filter = categorical_filters,
+        relative_time_range=c.relative_time_range
+    )
+
+
+def SymptomaticBleedPhenotype(components:ISTHBleedComponents):
+    pass
+
+
+def FatalBleedPhenotype(components:ISTHBleedComponents):
+    pass
+
+
+def BleedVerificationPhenotype():
+    transfusion = CodelistPhenotype()
+
+    # hb_drop = LabChangePhenotype()