Examples with TypeRefComponent org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent used on opensource projects

Example 31 with TypeRefComponent

use of org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent in project org.hl7.fhir.core by hapifhir.

the class ProfileUtilities method genTypes.

private Cell genTypes(HierarchicalTableGenerator gen, Row r, ElementDefinition e, String profileBaseFileName, StructureDefinition profile, String corePath) {
    Cell c = gen.new Cell();
    r.getCells().add(c);
    List<TypeRefComponent> types = e.getType();
    if (!e.hasType()) {
        if (e.hasContentReference()) {
            return c;
        } else {
            ElementDefinition d = (ElementDefinition) e.getUserData(DERIVATION_POINTER);
            if (d != null && d.hasType()) {
                types = new ArrayList<ElementDefinition.TypeRefComponent>();
                for (TypeRefComponent tr : d.getType()) {
                    TypeRefComponent tt = tr.copy();
                    tt.setUserData(DERIVATION_EQUALS, true);
                    types.add(tt);
                }
            } else
                return c;
        }
    }
    boolean first = true;
    // either all types are the same, or we don't consider any of them the same
    Element source = types.get(0);
    boolean allReference = ADD_REFERENCE_TO_TABLE && !types.isEmpty();
    for (TypeRefComponent t : types) {
        if (!(t.getCode().equals("Reference") && t.hasProfile()))
            allReference = false;
    }
    if (allReference) {
        c.getPieces().add(gen.new Piece(corePath + "references.html", "Reference", null));
        c.getPieces().add(gen.new Piece(null, "(", null));
    }
    TypeRefComponent tl = null;
    for (TypeRefComponent t : types) {
        if (first)
            first = false;
        else if (allReference)
            c.addPiece(checkForNoChange(tl, gen.new Piece(null, " | ", null)));
        else
            c.addPiece(checkForNoChange(tl, gen.new Piece(null, ", ", null)));
        tl = t;
        if (t.getCode().equals("Reference") || (t.getCode().equals("Resource") && t.hasProfile())) {
            if (ADD_REFERENCE_TO_TABLE && !allReference) {
                c.getPieces().add(gen.new Piece(corePath + "references.html", "Reference", null));
                c.getPieces().add(gen.new Piece(null, "(", null));
            }
            if (t.hasProfile() && t.getProfile().get(0).getValue().startsWith("http://hl7.org/fhir/StructureDefinition/")) {
                StructureDefinition sd = context.fetchResource(StructureDefinition.class, t.getProfile().get(0).getValue());
                if (sd != null) {
                    String disp = sd.hasDisplay() ? sd.getDisplay() : sd.getName();
                    c.addPiece(checkForNoChange(t, gen.new Piece(corePath + sd.getUserString("path"), disp, null)));
                } else {
                    String rn = t.getProfile().get(0).getValue().substring(40);
                    c.addPiece(checkForNoChange(t, gen.new Piece(corePath + pkp.getLinkFor(rn), rn, null)));
                }
            } else if (t.getProfile().size() == 0) {
                c.addPiece(checkForNoChange(t, gen.new Piece(null, t.getCode(), null)));
            } else if (t.getProfile().get(0).getValue().startsWith("#"))
                c.addPiece(checkForNoChange(t, gen.new Piece(corePath + profileBaseFileName + "." + t.getProfile().get(0).getValue().substring(1).toLowerCase() + ".html", t.getProfile().get(0).getValue(), null)));
            else
                c.addPiece(checkForNoChange(t, gen.new Piece(corePath + t.getProfile().get(0).getValue(), t.getProfile().get(0).getValue(), null)));
            if (ADD_REFERENCE_TO_TABLE && !allReference) {
                c.getPieces().add(gen.new Piece(null, ")", null));
            }
        } else if (t.hasProfile()) {
            // a profiled type
            String ref;
            ref = pkp.getLinkForProfile(profile, t.getProfile().get(0).getValue());
            if (ref != null) {
                String[] parts = ref.split("\\|");
                c.addPiece(checkForNoChange(t, gen.new Piece(corePath + parts[0], parts[1], t.getCode())));
            } else
                c.addPiece(checkForNoChange(t, gen.new Piece(corePath + ref, t.getCode(), null)));
        } else if (pkp.hasLinkFor(t.getCode())) {
            c.addPiece(checkForNoChange(t, gen.new Piece(corePath + pkp.getLinkFor(t.getCode()), t.getCode(), null)));
        } else
            c.addPiece(checkForNoChange(t, gen.new Piece(null, t.getCode(), null)));
    }
    if (allReference) {
        c.getPieces().add(gen.new Piece(null, ")", null));
    }
    return c;
}

Example 32 with TypeRefComponent

use of org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent in project org.hl7.fhir.core by hapifhir.

the class ProfileUtilities method updateFromDefinition.

private void updateFromDefinition(ElementDefinition dest, ElementDefinition source, String pn, boolean trimDifferential, String purl) throws DefinitionException, FHIRException {
    // we start with a clone of the base profile ('dest') and we copy from the profile ('source')
    // over the top for anything the source has
    ElementDefinition base = dest;
    ElementDefinition derived = source;
    derived.setUserData(DERIVATION_POINTER, base);
    if (derived != null) {
        boolean isExtension = checkExtensionDoco(base);
        if (derived.hasShortElement()) {
            if (!Base.compareDeep(derived.getShortElement(), base.getShortElement(), false))
                base.setShortElement(derived.getShortElement().copy());
            else if (trimDifferential)
                derived.setShortElement(null);
            else if (derived.hasShortElement())
                derived.getShortElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasDefinitionElement()) {
            if (derived.getDefinition().startsWith("..."))
                base.setDefinition(base.getDefinition() + "\r\n" + derived.getDefinition().substring(3));
            else if (!Base.compareDeep(derived.getDefinitionElement(), base.getDefinitionElement(), false))
                base.setDefinitionElement(derived.getDefinitionElement().copy());
            else if (trimDifferential)
                derived.setDefinitionElement(null);
            else if (derived.hasDefinitionElement())
                derived.getDefinitionElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasCommentsElement()) {
            if (derived.getComments().startsWith("..."))
                base.setComments(base.getComments() + "\r\n" + derived.getComments().substring(3));
            else if (!Base.compareDeep(derived.getCommentsElement(), base.getCommentsElement(), false))
                base.setCommentsElement(derived.getCommentsElement().copy());
            else if (trimDifferential)
                base.setCommentsElement(derived.getCommentsElement().copy());
            else if (derived.hasCommentsElement())
                derived.getCommentsElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasLabelElement()) {
            if (derived.getLabel().startsWith("..."))
                base.setLabel(base.getLabel() + "\r\n" + derived.getLabel().substring(3));
            else if (!Base.compareDeep(derived.getLabelElement(), base.getLabelElement(), false))
                base.setLabelElement(derived.getLabelElement().copy());
            else if (trimDifferential)
                base.setLabelElement(derived.getLabelElement().copy());
            else if (derived.hasLabelElement())
                derived.getLabelElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasRequirementsElement()) {
            if (derived.getRequirements().startsWith("..."))
                base.setRequirements(base.getRequirements() + "\r\n" + derived.getRequirements().substring(3));
            else if (!Base.compareDeep(derived.getRequirementsElement(), base.getRequirementsElement(), false))
                base.setRequirementsElement(derived.getRequirementsElement().copy());
            else if (trimDifferential)
                base.setRequirementsElement(derived.getRequirementsElement().copy());
            else if (derived.hasRequirementsElement())
                derived.getRequirementsElement().setUserData(DERIVATION_EQUALS, true);
        }
        // sdf-9
        if (derived.hasRequirements() && !base.getPath().contains("."))
            derived.setRequirements(null);
        if (base.hasRequirements() && !base.getPath().contains("."))
            base.setRequirements(null);
        if (derived.hasAlias()) {
            if (!Base.compareDeep(derived.getAlias(), base.getAlias(), false))
                for (StringType s : derived.getAlias()) {
                    if (!base.hasAlias(s.getValue()))
                        base.getAlias().add(s.copy());
                }
            else if (trimDifferential)
                derived.getAlias().clear();
            else
                for (StringType t : derived.getAlias()) t.setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasMinElement()) {
            if (!Base.compareDeep(derived.getMinElement(), base.getMinElement(), false)) {
                if (derived.getMin() < base.getMin())
                    messages.add(new ValidationMessage(Source.ProfileValidator, IssueType.BUSINESSRULE, pn + "." + derived.getPath(), "Derived min  (" + Integer.toString(derived.getMin()) + ") cannot be less than base min (" + Integer.toString(base.getMin()) + ")", IssueSeverity.ERROR));
                base.setMinElement(derived.getMinElement().copy());
            } else if (trimDifferential)
                derived.setMinElement(null);
            else
                derived.getMinElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasMaxElement()) {
            if (!Base.compareDeep(derived.getMaxElement(), base.getMaxElement(), false)) {
                if (isLargerMax(derived.getMax(), base.getMax()))
                    messages.add(new ValidationMessage(Source.ProfileValidator, IssueType.BUSINESSRULE, pn + "." + derived.getPath(), "Derived max (" + derived.getMax() + ") cannot be greater than base max (" + base.getMax() + ")", IssueSeverity.ERROR));
                base.setMaxElement(derived.getMaxElement().copy());
            } else if (trimDifferential)
                derived.setMaxElement(null);
            else
                derived.getMaxElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasFixed()) {
            if (!Base.compareDeep(derived.getFixed(), base.getFixed(), true)) {
                base.setFixed(derived.getFixed().copy());
            } else if (trimDifferential)
                derived.setFixed(null);
            else
                derived.getFixed().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasPattern()) {
            if (!Base.compareDeep(derived.getPattern(), base.getPattern(), false)) {
                base.setPattern(derived.getPattern().copy());
            } else if (trimDifferential)
                derived.setPattern(null);
            else
                derived.getPattern().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasExample()) {
            if (!Base.compareDeep(derived.getExample(), base.getExample(), false))
                base.setExample(derived.getExample().copy());
            else if (trimDifferential)
                derived.setExample(null);
            else
                derived.getExample().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasMaxLengthElement()) {
            if (!Base.compareDeep(derived.getMaxLengthElement(), base.getMaxLengthElement(), false))
                base.setMaxLengthElement(derived.getMaxLengthElement().copy());
            else if (trimDifferential)
                derived.setMaxLengthElement(null);
            else
                derived.getMaxLengthElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasMaxValue()) {
            if (!Base.compareDeep(derived.getMaxValue(), base.getMaxValue(), false))
                base.setMaxValue(derived.getMaxValue().copy());
            else if (trimDifferential)
                derived.setMaxValue(null);
            else
                derived.getMaxValue().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasMinValue()) {
            if (!Base.compareDeep(derived.getMinValue(), base.getMinValue(), false))
                base.setMinValue(derived.getMinValue().copy());
            else if (trimDifferential)
                derived.setMinValue(null);
            else
                derived.getMinValue().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasMustSupportElement()) {
            if (!Base.compareDeep(derived.getMustSupportElement(), base.getMustSupportElement(), false))
                base.setMustSupportElement(derived.getMustSupportElement().copy());
            else if (trimDifferential)
                derived.setMustSupportElement(null);
            else
                derived.getMustSupportElement().setUserData(DERIVATION_EQUALS, true);
        }
        // but extensions can change isModifier
        if (isExtension) {
            if (!Base.compareDeep(derived.getIsModifierElement(), base.getIsModifierElement(), false))
                base.setIsModifierElement(derived.getIsModifierElement().copy());
            else if (trimDifferential)
                derived.setIsModifierElement(null);
            else
                derived.getIsModifierElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasBinding()) {
            if (!Base.compareDeep(derived.getBinding(), base.getBinding(), false)) {
                if (base.hasBinding() && base.getBinding().getStrength() == BindingStrength.REQUIRED && derived.getBinding().getStrength() != BindingStrength.REQUIRED)
                    messages.add(new ValidationMessage(Source.ProfileValidator, IssueType.BUSINESSRULE, pn + "." + derived.getPath(), "illegal attempt to change a binding from " + base.getBinding().getStrength().toCode() + " to " + derived.getBinding().getStrength().toCode(), IssueSeverity.ERROR));
                else // throw new DefinitionException("StructureDefinition "+pn+" at "+derived.getPath()+": illegal attempt to change a binding from "+base.getBinding().getStrength().toCode()+" to "+derived.getBinding().getStrength().toCode());
                if (base.hasBinding() && derived.hasBinding() && base.getBinding().getStrength() == BindingStrength.REQUIRED && base.getBinding().hasValueSetReference() && derived.getBinding().hasValueSetReference()) {
                    ValueSetExpansionOutcome expBase = context.expandVS(context.fetchResource(ValueSet.class, base.getBinding().getValueSetReference().getReference()), true);
                    ValueSetExpansionOutcome expDerived = context.expandVS(context.fetchResource(ValueSet.class, derived.getBinding().getValueSetReference().getReference()), true);
                    if (expBase.getValueset() == null)
                        messages.add(new ValidationMessage(Source.ProfileValidator, IssueType.BUSINESSRULE, pn + "." + base.getPath(), "Binding " + base.getBinding().getValueSetReference().getReference() + " could not be expanded", IssueSeverity.WARNING));
                    else if (expDerived.getValueset() == null)
                        messages.add(new ValidationMessage(Source.ProfileValidator, IssueType.BUSINESSRULE, pn + "." + derived.getPath(), "Binding " + derived.getBinding().getValueSetReference().getReference() + " could not be expanded", IssueSeverity.WARNING));
                    else if (!isSubset(expBase.getValueset(), expDerived.getValueset()))
                        messages.add(new ValidationMessage(Source.ProfileValidator, IssueType.BUSINESSRULE, pn + "." + derived.getPath(), "Binding " + derived.getBinding().getValueSetReference().getReference() + " is not a subset of binding " + base.getBinding().getValueSetReference().getReference(), IssueSeverity.ERROR));
                }
                base.setBinding(derived.getBinding().copy());
            } else if (trimDifferential)
                derived.setBinding(null);
            else
                derived.getBinding().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasIsSummaryElement()) {
            if (!Base.compareDeep(derived.getIsSummaryElement(), base.getIsSummaryElement(), false))
                base.setIsSummaryElement(derived.getIsSummaryElement().copy());
            else if (trimDifferential)
                derived.setIsSummaryElement(null);
            else
                derived.getIsSummaryElement().setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasType()) {
            if (!Base.compareDeep(derived.getType(), base.getType(), false)) {
                if (base.hasType()) {
                    for (TypeRefComponent ts : derived.getType()) {
                        boolean ok = false;
                        CommaSeparatedStringBuilder b = new CommaSeparatedStringBuilder();
                        for (TypeRefComponent td : base.getType()) {
                            b.append(td.getCode());
                            if (td.hasCode() && (td.getCode().equals(ts.getCode()) || td.getCode().equals("Extension") || td.getCode().equals("Element") || td.getCode().equals("*") || ((td.getCode().equals("Resource") || (td.getCode().equals("DomainResource")) && pkp.isResource(ts.getCode())))))
                                ok = true;
                        }
                        if (!ok)
                            throw new DefinitionException("StructureDefinition " + pn + " at " + derived.getPath() + ": illegal constrained type " + ts.getCode() + " from " + b.toString());
                    }
                }
                base.getType().clear();
                for (TypeRefComponent t : derived.getType()) {
                    TypeRefComponent tt = t.copy();
                    // tt.setUserData(DERIVATION_EQUALS, true);
                    base.getType().add(tt);
                }
            } else if (trimDifferential)
                derived.getType().clear();
            else
                for (TypeRefComponent t : derived.getType()) t.setUserData(DERIVATION_EQUALS, true);
        }
        if (derived.hasMapping()) {
            // todo: mappings are not cumulative - one replaces another
            if (!Base.compareDeep(derived.getMapping(), base.getMapping(), false)) {
                for (ElementDefinitionMappingComponent s : derived.getMapping()) {
                    boolean found = false;
                    for (ElementDefinitionMappingComponent d : base.getMapping()) {
                        found = found || (d.getIdentity().equals(s.getIdentity()) && d.getMap().equals(s.getMap()));
                    }
                    if (!found)
                        base.getMapping().add(s);
                }
            } else if (trimDifferential)
                derived.getMapping().clear();
            else
                for (ElementDefinitionMappingComponent t : derived.getMapping()) t.setUserData(DERIVATION_EQUALS, true);
        }
        // todo: constraints are cumulative. there is no replacing
        for (ElementDefinitionConstraintComponent s : base.getConstraint()) s.setUserData(IS_DERIVED, true);
        if (derived.hasConstraint()) {
            for (ElementDefinitionConstraintComponent s : derived.getConstraint()) {
                base.getConstraint().add(s.copy());
            }
        }
    }
}

Example 33 with TypeRefComponent

use of org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent in project org.hl7.fhir.core by hapifhir.

the class QuestionnaireBuilder method makeTypeList.

private ValueSet makeTypeList(StructureDefinition profile, List<TypeRefComponent> types, String path) {
    ValueSet vs = new ValueSet();
    vs.setName("Type options for " + path);
    vs.setDescription(vs.getName());
    vs.setStatus(ConformanceResourceStatus.ACTIVE);
    vs.setExpansion(new ValueSetExpansionComponent());
    vs.getExpansion().setIdentifier(Factory.createUUID());
    vs.getExpansion().setTimestampElement(DateTimeType.now());
    for (TypeRefComponent t : types) {
        ValueSetExpansionContainsComponent cc = vs.getExpansion().addContains();
        if (t.getCode().equals("Reference") && (t.hasProfile() && t.getProfile().get(0).getValue().startsWith("http://hl7.org/fhir/StructureDefinition/"))) {
            cc.setCode(t.getProfile().get(0).getValue().substring(40));
            cc.setSystem("http://hl7.org/fhir/resource-types");
            cc.setDisplay(cc.getCode());
        } else {
            ProfileUtilities pu = new ProfileUtilities(context, null, null);
            StructureDefinition ps = null;
            if (t.hasProfile())
                ps = pu.getProfile(profile, t.getProfile().get(0).getValue());
            if (ps != null) {
                cc.setCode(t.getProfile().get(0).getValue());
                cc.setDisplay(ps.getSnapshot().getElement().get(0).getType().get(0).getCode());
                cc.setSystem("http://hl7.org/fhir/resource-types");
            } else {
                cc.setCode(t.getCode());
                cc.setDisplay(t.getCode());
                cc.setSystem("http://hl7.org/fhir/data-types");
            }
        }
        t.setUserData("text", cc.getCode());
    }
    return vs;
}

Example 34 with TypeRefComponent

use of org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent in project org.hl7.fhir.core by hapifhir.

the class QuestionnaireBuilder method buildQuestion.

private void buildQuestion(QuestionnaireItemComponent group, StructureDefinition profile, ElementDefinition element, String path, List<QuestionnaireResponse.QuestionnaireResponseItemComponent> answerGroups) throws FHIRException {
    group.setLinkId(path);
    // in this context, we don't have any concepts to mark...
    // prefix with name?
    group.setText(element.getShort());
    group.setRequired(element.getMin() > 0);
    if (element.getMin() > 0)
        ToolingExtensions.addMin(group, element.getMin());
    group.setRepeats(!element.getMax().equals('1'));
    if (!element.getMax().equals("*"))
        ToolingExtensions.addMax(group, Integer.parseInt(element.getMax()));
    for (QuestionnaireResponse.QuestionnaireResponseItemComponent ag : answerGroups) {
        ag.setLinkId(group.getLinkId());
        ag.setText(group.getText());
    }
    if (!Utilities.noString(element.getComments()))
        ToolingExtensions.addFlyOver(group, element.getDefinition() + " " + element.getComments());
    else
        ToolingExtensions.addFlyOver(group, element.getDefinition());
    if (element.getType().size() > 1 || element.getType().get(0).getCode().equals("*")) {
        List<TypeRefComponent> types = expandTypeList(element.getType());
        Questionnaire.QuestionnaireItemComponent q = addQuestion(group, QuestionnaireItemType.CHOICE, element.getPath(), "_type", "type", null, makeTypeList(profile, types, element.getPath()));
        for (TypeRefComponent t : types) {
            Questionnaire.QuestionnaireItemComponent sub = q.addItem();
            sub.setType(QuestionnaireItemType.GROUP);
            sub.setLinkId(element.getPath() + "._" + t.getUserData("text"));
            sub.setText((String) t.getUserData("text"));
            // always optional, never repeats
            List<QuestionnaireResponse.QuestionnaireResponseItemComponent> selected = new ArrayList<QuestionnaireResponse.QuestionnaireResponseItemComponent>();
            selectTypes(profile, sub, t, answerGroups, selected);
            processDataType(profile, sub, element, element.getPath() + "._" + t.getUserData("text"), t, selected);
        }
    } else
        // now we have to build the question panel for each different data type
        processDataType(profile, group, element, element.getPath(), element.getType().get(0), answerGroups);
}

Example 35 with TypeRefComponent

use of org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent in project org.hl7.fhir.core by hapifhir.

the class ProfileComparer method intersectTypes.

private Collection<? extends TypeRefComponent> intersectTypes(ElementDefinition ed, ProfileComparison outcome, String path, List<TypeRefComponent> left, List<TypeRefComponent> right) throws DefinitionException, IOException {
    List<TypeRefComponent> result = new ArrayList<TypeRefComponent>();
    for (TypeRefComponent l : left) {
        if (l.getProfile().size() > 1)
            throw new DefinitionException("Multiple profiles not supported: " + path + ": " + listProfiles(l.getProfile()));
        if (l.hasAggregation())
            throw new DefinitionException("Aggregation not supported: " + path);
        boolean found = false;
        TypeRefComponent c = l.copy();
        for (TypeRefComponent r : right) {
            if (r.getProfile().size() > 1)
                throw new DefinitionException("Multiple profiles not supported: " + path + ": " + listProfiles(l.getProfile()));
            if (r.hasAggregation())
                throw new DefinitionException("Aggregation not supported: " + path);
            if (!l.hasProfile() && !r.hasProfile()) {
                found = true;
            } else if (!r.hasProfile()) {
                found = true;
            } else if (!l.hasProfile()) {
                found = true;
                c.getProfile().add(r.getProfile().get(0));
            } else {
                StructureDefinition sdl = resolveProfile(ed, outcome, path, l.getProfile().get(0).getValueAsString(), outcome.leftName());
                StructureDefinition sdr = resolveProfile(ed, outcome, path, r.getProfile().get(0).getValueAsString(), outcome.rightName());
                if (sdl != null && sdr != null) {
                    if (sdl == sdr) {
                        found = true;
                    } else if (derivesFrom(sdl, sdr)) {
                        found = true;
                    } else if (derivesFrom(sdr, sdl)) {
                        c.getProfile().clear();
                        c.getProfile().add(r.getProfile().get(0));
                        found = true;
                    } else if (sdl.hasBaseType() && sdr.hasBaseType() && sdl.getBaseType().equals(sdr.getBaseType())) {
                        ProfileComparison comp = compareProfiles(sdl, sdr);
                        if (comp.getSubset() != null) {
                            found = true;
                            c.addProfile("#" + comp.id);
                        }
                    }
                }
            }
        }
        if (found)
            result.add(c);
    }
    return result;
}