edc-lab-results 0.3.5

Simple blood result data collection format model classes for clinicedc/edc projects

edc-lab-results

Simple blood result data collection format for django models

In this design

• a specimen requisition for a panel is completed first (SubjectRequisition)

• result is received and entered into a result form

• if a result is admnormal or gradable, an ActionItem is created.

Building the Model

Below we create a model class with BloodResultsModelMixin. On the class we specify the lab_panel and limit the FK the requisitions of this panel using limit_choices_to.

# models.py

from edc_lab.model_mixins import CrfWithRequisitionModelMixin, requisition_fk_options
from edc_lab_panels.panels import chemistry_panel

class BloodResultsFbc(
    CrfWithRequisitionModelMixin,
    BloodResultsModelMixin,
    BaseUuidModel,
):

    lab_panel = fbc_panel

    requisition = models.ForeignKey(
        limit_choices_to={"panel__name": fbc_panel.name}, **requisition_fk_options
    )

    class Meta(CrfWithActionModelMixin.Meta, BaseUuidModel.Meta):
        verbose_name = "Blood Result: FBC"
        verbose_name_plural = "Blood Results: FBC"

The above example has no fields for results, so let’s add some model mixins, one for each result item.

# models.py

class BloodResultsFbc(
    CrfWithRequisitionModelMixin,
    HaemoglobinModelMixin,
    HctModelMixin,
    RbcModelMixin,
    WbcModelMixin,
    PlateletsModelMixin,
    MchModelMixin,
    MchcModelMixin,
    McvModelMixin,
    BloodResultsModelMixin,
    CrfStatusModelMixin,
    BaseUuidModel,
):

    lab_panel = fbc_panel

    requisition = models.ForeignKey(
        limit_choices_to={"panel__name": fbc_panel.name}, **requisition_fk_options
    )

    class Meta(CrfWithActionModelMixin.Meta, BaseUuidModel.Meta):
        verbose_name = "Blood Result: FBC"
        verbose_name_plural = "Blood Results: FBC"

If an ActionItem is to be created because of an abnormal or reportable result item, add the ActionItem.

# models.py

class BloodResultsFbc(
    CrfWithActionModelMixin,
    CrfWithRequisitionModelMixin,
    HaemoglobinModelMixin,
    HctModelMixin,
    RbcModelMixin,
    WbcModelMixin,
    PlateletsModelMixin,
    MchModelMixin,
    MchcModelMixin,
    McvModelMixin,
    BloodResultsModelMixin,
    CrfStatusModelMixin,
    BaseUuidModel,
):
    action_name = BLOOD_RESULTS_FBC_ACTION

    lab_panel = fbc_panel

    requisition = models.ForeignKey(
        limit_choices_to={"panel__name": fbc_panel.name}, **requisition_fk_options
    )

    class Meta(CrfWithActionModelMixin.Meta, BaseUuidModel.Meta):
        verbose_name = "Blood Result: FBC"
        verbose_name_plural = "Blood Results: FBC"

Building the ModeForm class

The ModelForm class just needs the Model class and the panel. In this case BloodResultsFbc and fbc_panel.

# forms.py

class BloodResultsFbcFormValidator(BloodResultsFormValidatorMixin, CrfFormValidator):
    panel = fbc_panel


class BloodResultsFbcForm(ActionItemCrfFormMixin, CrfModelFormMixin, forms.ModelForm):
    form_validator_cls = BloodResultsFbcFormValidator

    class Meta(ActionItemCrfFormMixin.Meta):
        model = BloodResultsFbc
        fields = "__all__"

Building the ModelAdmin class

The ModelAdmin class needs the Model class, ModelForm class and the panel.

# admin.py

@admin.register(BloodResultsFbc, site=intecomm_subject_admin)
class BloodResultsFbcAdmin(BloodResultsModelAdminMixin, CrfModelAdmin):
    form = BloodResultsFbcForm
    fieldsets = BloodResultFieldset(
        BloodResultsFbc.lab_panel,
        model_cls=BloodResultsFbc,
        extra_fieldsets=[(-1, action_fieldset_tuple)],
    ).fieldsets

The SubjectRequistion ModelAdmin class

When using autocomplete for the subject requsition FK on the result form ModelAdmin class, the subject requsition model admin class needs to filter the search results passed to the autocomplete control.

If all result models are prefixed with “bloodresult”, you can filter on the path name like this:

# admin.py

@admin.register(SubjectRequisition, site=intecomm_subject_admin)
class SubjectRequisitionAdmin(RequisitionAdminMixin, CrfModelAdmin):
    form = SubjectRequisitionForm

    # ...

    def get_search_results(self, request, queryset, search_term):
        queryset, use_distinct = super().get_search_results(request, queryset, search_term)
        path = urlsplit(request.META.get("HTTP_REFERER")).path
        query = urlsplit(request.META.get("HTTP_REFERER")).query
        if "bloodresult" in str(path):
            attrs = parse_qs(str(query))
            try:
                subject_visit = attrs.get("subject_visit")[0]
            except (TypeError, IndexError):
                pass
            else:
                queryset = queryset.filter(subject_visit=subject_visit, is_drawn=YES)
        return queryset, use_distinct