Examples with CanonicalType org.hl7.fhir.r5.model.CanonicalType used on opensource projects

Example 31 with CanonicalType

use of org.hl7.fhir.r5.model.CanonicalType 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, String imagePath, boolean root, boolean mustSupportMode) {
    Cell c = gen.new Cell();
    r.getCells().add(c);
    if (e.hasContentReference()) {
        ElementInStructure ed = getElementByName(profile.getSnapshot().getElement(), e.getContentReference(), profile);
        if (ed == null)
            c.getPieces().add(gen.new Piece(null, translate("sd.table", "Unknown reference to %s", e.getContentReference()), null));
        else {
            if (ed.getSource() == profile) {
                c.getPieces().add(gen.new Piece(null, translate("sd.table", "See ", ed.getElement().getPath()), null));
                c.getPieces().add(gen.new Piece("#" + ed.getElement().getPath(), tail(ed.getElement().getPath()), ed.getElement().getPath()));
            } else {
                c.getPieces().add(gen.new Piece(null, translate("sd.table", "See ", ed.getElement().getPath()), null));
                c.getPieces().add(gen.new Piece(pfx(corePath, ed.getSource().getUserString("path")) + "#" + ed.getElement().getPath(), tail(ed.getElement().getPath()) + " (" + ed.getSource().getType() + ")", ed.getElement().getPath()));
            }
        }
        return c;
    }
    List<TypeRefComponent> types = e.getType();
    if (!e.hasType()) {
        if (root) {
            // we'll use base instead of types then
            StructureDefinition bsd = profile == null ? null : context.fetchResource(StructureDefinition.class, profile.getBaseDefinition());
            if (bsd != null) {
                if (bsd.hasUserData("path")) {
                    c.getPieces().add(gen.new Piece(Utilities.isAbsoluteUrl(bsd.getUserString("path")) ? bsd.getUserString("path") : imagePath + bsd.getUserString("path"), bsd.getName(), null));
                } else {
                    c.getPieces().add(gen.new Piece(null, bsd.getName(), null));
                }
            }
            return c;
        } else 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;
    TypeRefComponent tl = null;
    for (TypeRefComponent t : types) {
        if (!mustSupportMode || allTypesMustSupport(e) || isMustSupport(t)) {
            if (first) {
                first = false;
            } else {
                c.addPiece(checkForNoChange(tl, gen.new Piece(null, ", ", null)));
            }
            tl = t;
            if (t.hasTarget()) {
                c.getPieces().add(gen.new Piece(corePath + "references.html", t.getWorkingCode(), null));
                if (!mustSupportMode && isMustSupportDirect(t) && e.getMustSupport()) {
                    c.addPiece(gen.new Piece(null, " ", null));
                    c.addStyledText(translate("sd.table", "This type must be supported"), "S", "white", "red", null, false);
                }
                c.getPieces().add(gen.new Piece(null, "(", null));
                boolean tfirst = true;
                for (CanonicalType u : t.getTargetProfile()) {
                    if (!mustSupportMode || allProfilesMustSupport(t.getTargetProfile()) || isMustSupport(u)) {
                        if (tfirst)
                            tfirst = false;
                        else
                            c.addPiece(gen.new Piece(null, " | ", null));
                        genTargetLink(gen, profileBaseFileName, corePath, c, t, u.getValue());
                        if (!mustSupportMode && isMustSupport(u) && e.getMustSupport()) {
                            c.addPiece(gen.new Piece(null, " ", null));
                            c.addStyledText(translate("sd.table", "This target must be supported"), "S", "white", "red", null, false);
                        }
                    }
                }
                c.getPieces().add(gen.new Piece(null, ")", null));
                if (t.getAggregation().size() > 0) {
                    c.getPieces().add(gen.new Piece(corePath + "valueset-resource-aggregation-mode.html", " {", null));
                    boolean firstA = true;
                    for (Enumeration<AggregationMode> a : t.getAggregation()) {
                        if (firstA = true)
                            firstA = false;
                        else
                            c.getPieces().add(gen.new Piece(corePath + "valueset-resource-aggregation-mode.html", ", ", null));
                        c.getPieces().add(gen.new Piece(corePath + "valueset-resource-aggregation-mode.html", codeForAggregation(a.getValue()), hintForAggregation(a.getValue())));
                    }
                    c.getPieces().add(gen.new Piece(corePath + "valueset-resource-aggregation-mode.html", "}", null));
                }
            } else if (t.hasProfile() && (!t.getWorkingCode().equals("Extension") || isProfiledType(t.getProfile()))) {
                // a profiled type
                String ref;
                boolean pfirst = true;
                for (CanonicalType p : t.getProfile()) {
                    if (!mustSupportMode || allProfilesMustSupport(t.getProfile()) || isMustSupport(p)) {
                        if (pfirst) {
                            pfirst = false;
                        } else {
                            c.addPiece(checkForNoChange(tl, gen.new Piece(null, ", ", null)));
                        }
                        ref = pkp == null ? null : pkp.getLinkForProfile(profile, p.getValue());
                        if (ref != null) {
                            String[] parts = ref.split("\\|");
                            if (parts[0].startsWith("http:") || parts[0].startsWith("https:")) {
                                // c.addPiece(checkForNoChange(t, gen.new Piece(parts[0], "<" + parts[1] + ">", t.getCode()))); Lloyd
                                c.addPiece(checkForNoChange(t, gen.new Piece(parts[0], parts[1], t.getWorkingCode())));
                            } else {
                                // c.addPiece(checkForNoChange(t, gen.new Piece((t.getProfile().startsWith(corePath)? corePath: "")+parts[0], "<" + parts[1] + ">", t.getCode())));
                                c.addPiece(checkForNoChange(t, gen.new Piece((p.getValue().startsWith(corePath + "StructureDefinition") ? corePath : "") + parts[0], parts[1], t.getWorkingCode())));
                            }
                        } else
                            c.addPiece(checkForNoChange(t, gen.new Piece((p.getValue().startsWith(corePath) ? corePath : "") + ref, t.getWorkingCode(), null)));
                        if (!mustSupportMode && isMustSupport(p) && e.getMustSupport()) {
                            c.addPiece(gen.new Piece(null, " ", null));
                            c.addStyledText(translate("sd.table", "This profile must be supported"), "S", "white", "red", null, false);
                        }
                    }
                }
            } else {
                String tc = t.getWorkingCode();
                if (Utilities.isAbsoluteUrl(tc)) {
                    StructureDefinition sd = context.fetchTypeDefinition(tc);
                    if (sd == null) {
                        c.addPiece(checkForNoChange(t, gen.new Piece(pkp.getLinkFor(corePath, tc), tc, null)));
                    } else {
                        c.addPiece(checkForNoChange(t, gen.new Piece(pkp.getLinkFor(corePath, tc), sd.getType(), null)));
                    }
                } else if (pkp != null && pkp.hasLinkFor(tc)) {
                    c.addPiece(checkForNoChange(t, gen.new Piece(pkp.getLinkFor(corePath, tc), tc, null)));
                } else {
                    c.addPiece(checkForNoChange(t, gen.new Piece(null, tc, null)));
                }
                if (!mustSupportMode && isMustSupportDirect(t) && e.getMustSupport()) {
                    c.addPiece(gen.new Piece(null, " ", null));
                    c.addStyledText(translate("sd.table", "This type must be supported"), "S", "white", "red", null, false);
                }
            }
        }
    }
    return c;
}

Example 32 with CanonicalType

use of org.hl7.fhir.r5.model.CanonicalType in project org.hl7.fhir.core by hapifhir.

the class ValueSetCheckerSimple method findValueSetRef.

private ConceptReferenceComponent findValueSetRef(String system, String code) {
    if (valueset == null)
        return null;
    // if it has an expansion
    for (ValueSetExpansionContainsComponent exp : valueset.getExpansion().getContains()) {
        if (system.equals(exp.getSystem()) && code.equals(exp.getCode())) {
            ConceptReferenceComponent cc = new ConceptReferenceComponent();
            cc.setDisplay(exp.getDisplay());
            cc.setDesignation(exp.getDesignation());
            return cc;
        }
    }
    for (ConceptSetComponent inc : valueset.getCompose().getInclude()) {
        if (system.equals(inc.getSystem())) {
            for (ConceptReferenceComponent cc : inc.getConcept()) {
                if (cc.getCode().equals(code)) {
                    return cc;
                }
            }
        }
        for (CanonicalType url : inc.getValueSet()) {
            ConceptReferenceComponent cc = getVs(url.asStringValue()).findValueSetRef(system, code);
            if (cc != null) {
                return cc;
            }
        }
    }
    return null;
}

Example 33 with CanonicalType

use of org.hl7.fhir.r5.model.CanonicalType in project org.hl7.fhir.core by hapifhir.

the class InstanceValidator method sliceMatches.

/**
 * @param element - the candidate that might be in the slice
 * @param path    - for reporting any errors. the XPath for the element
 * @param slicer  - the definition of how slicing is determined
 * @param ed      - the slice for which to test membership
 * @param errors
 * @param stack
 * @param srcProfile
 * @return
 * @throws DefinitionException
 * @throws DefinitionException
 * @throws IOException
 * @throws FHIRException
 */
private boolean sliceMatches(ValidatorHostContext hostContext, Element element, String path, ElementDefinition slicer, ElementDefinition ed, StructureDefinition profile, List<ValidationMessage> errors, List<ValidationMessage> sliceInfo, NodeStack stack, StructureDefinition srcProfile) throws DefinitionException, FHIRException {
    if (!slicer.getSlicing().hasDiscriminator())
        // cannot validate in this case
        return false;
    ExpressionNode n = (ExpressionNode) ed.getUserData("slice.expression.cache");
    if (n == null) {
        long t = System.nanoTime();
        // GG: this approach is flawed because it treats discriminators individually rather than collectively
        StringBuilder expression = new StringBuilder("true");
        boolean anyFound = false;
        Set<String> discriminators = new HashSet<>();
        for (ElementDefinitionSlicingDiscriminatorComponent s : slicer.getSlicing().getDiscriminator()) {
            String discriminator = s.getPath();
            discriminators.add(discriminator);
            List<ElementDefinition> criteriaElements = getCriteriaForDiscriminator(path, ed, discriminator, profile, s.getType() == DiscriminatorType.PROFILE, srcProfile);
            boolean found = false;
            for (ElementDefinition criteriaElement : criteriaElements) {
                found = true;
                if (s.getType() == DiscriminatorType.TYPE) {
                    String type = null;
                    if (!criteriaElement.getPath().contains("[") && discriminator.contains("[")) {
                        discriminator = discriminator.substring(0, discriminator.indexOf('['));
                        String lastNode = tail(discriminator);
                        type = tail(criteriaElement.getPath()).substring(lastNode.length());
                        type = type.substring(0, 1).toLowerCase() + type.substring(1);
                    } else if (!criteriaElement.hasType() || criteriaElement.getType().size() == 1) {
                        if (discriminator.contains("["))
                            discriminator = discriminator.substring(0, discriminator.indexOf('['));
                        if (criteriaElement.hasType()) {
                            type = criteriaElement.getType().get(0).getWorkingCode();
                        } else if (!criteriaElement.getPath().contains(".")) {
                            type = criteriaElement.getPath();
                        } else {
                            throw new DefinitionException(context.formatMessage(I18nConstants.DISCRIMINATOR__IS_BASED_ON_TYPE_BUT_SLICE__IN__HAS_NO_TYPES, discriminator, ed.getId(), profile.getUrl()));
                        }
                    } else if (criteriaElement.getType().size() > 1) {
                        throw new DefinitionException(context.formatMessage(I18nConstants.DISCRIMINATOR__IS_BASED_ON_TYPE_BUT_SLICE__IN__HAS_MULTIPLE_TYPES_, discriminator, ed.getId(), profile.getUrl(), criteriaElement.typeSummary()));
                    } else
                        throw new DefinitionException(context.formatMessage(I18nConstants.DISCRIMINATOR__IS_BASED_ON_TYPE_BUT_SLICE__IN__HAS_NO_TYPES, discriminator, ed.getId(), profile.getUrl()));
                    if (discriminator.isEmpty())
                        expression.append(" and $this is " + type);
                    else
                        expression.append(" and " + discriminator + " is " + type);
                } else if (s.getType() == DiscriminatorType.PROFILE) {
                    if (criteriaElement.getType().size() == 0) {
                        throw new DefinitionException(context.formatMessage(I18nConstants.PROFILE_BASED_DISCRIMINATORS_MUST_HAVE_A_TYPE__IN_PROFILE_, criteriaElement.getId(), profile.getUrl()));
                    }
                    if (criteriaElement.getType().size() != 1) {
                        throw new DefinitionException(context.formatMessage(I18nConstants.PROFILE_BASED_DISCRIMINATORS_MUST_HAVE_ONLY_ONE_TYPE__IN_PROFILE_, criteriaElement.getId(), profile.getUrl()));
                    }
                    List<CanonicalType> list = discriminator.endsWith(".resolve()") || discriminator.equals("resolve()") ? criteriaElement.getType().get(0).getTargetProfile() : criteriaElement.getType().get(0).getProfile();
                    if (list.size() == 0) {
                        throw new DefinitionException(context.formatMessage(I18nConstants.PROFILE_BASED_DISCRIMINATORS_MUST_HAVE_A_TYPE_WITH_A_PROFILE__IN_PROFILE_, criteriaElement.getId(), profile.getUrl()));
                    } else if (list.size() > 1) {
                        CommaSeparatedStringBuilder b = new CommaSeparatedStringBuilder(" or ");
                        for (CanonicalType c : list) {
                            b.append(discriminator + ".conformsTo('" + c.getValue() + "')");
                        }
                        expression.append(" and (" + b + ")");
                    } else {
                        expression.append(" and " + discriminator + ".conformsTo('" + list.get(0).getValue() + "')");
                    }
                } else if (s.getType() == DiscriminatorType.EXISTS) {
                    if (criteriaElement.hasMin() && criteriaElement.getMin() >= 1)
                        expression.append(" and (" + discriminator + ".exists())");
                    else if (criteriaElement.hasMax() && criteriaElement.getMax().equals("0"))
                        expression.append(" and (" + discriminator + ".exists().not())");
                    else
                        throw new FHIRException(context.formatMessage(I18nConstants.DISCRIMINATOR__IS_BASED_ON_ELEMENT_EXISTENCE_BUT_SLICE__NEITHER_SETS_MIN1_OR_MAX0, discriminator, ed.getId()));
                } else if (criteriaElement.hasFixed()) {
                    buildFixedExpression(ed, expression, discriminator, criteriaElement);
                } else if (criteriaElement.hasPattern()) {
                    buildPattternExpression(ed, expression, discriminator, criteriaElement);
                } else if (criteriaElement.hasBinding() && criteriaElement.getBinding().hasStrength() && criteriaElement.getBinding().getStrength().equals(BindingStrength.REQUIRED) && criteriaElement.getBinding().hasValueSet()) {
                    expression.append(" and (" + discriminator + " memberOf '" + criteriaElement.getBinding().getValueSet() + "')");
                } else {
                    found = false;
                }
                if (found)
                    break;
            }
            if (found)
                anyFound = true;
        }
        if (!anyFound) {
            if (slicer.getSlicing().getDiscriminator().size() > 1)
                throw new DefinitionException(context.formatMessage(I18nConstants.COULD_NOT_MATCH_ANY_DISCRIMINATORS__FOR_SLICE__IN_PROFILE___NONE_OF_THE_DISCRIMINATOR__HAVE_FIXED_VALUE_BINDING_OR_EXISTENCE_ASSERTIONS, discriminators, ed.getId(), profile.getUrl(), discriminators));
            else
                throw new DefinitionException(context.formatMessage(I18nConstants.COULD_NOT_MATCH_DISCRIMINATOR__FOR_SLICE__IN_PROFILE___THE_DISCRIMINATOR__DOES_NOT_HAVE_FIXED_VALUE_BINDING_OR_EXISTENCE_ASSERTIONS, discriminators, ed.getId(), profile.getUrl(), discriminators));
        }
        try {
            n = fpe.parse(fixExpr(expression.toString(), null));
        } catch (FHIRLexerException e) {
            if (STACK_TRACE)
                e.printStackTrace();
            throw new FHIRException(context.formatMessage(I18nConstants.PROBLEM_PROCESSING_EXPRESSION__IN_PROFILE__PATH__, expression, profile.getUrl(), path, e.getMessage()));
        }
        timeTracker.fpe(t);
        ed.setUserData("slice.expression.cache", n);
    }
    ValidatorHostContext shc = hostContext.forSlicing();
    boolean pass = evaluateSlicingExpression(shc, element, path, profile, n);
    if (!pass) {
        slicingHint(sliceInfo, IssueType.STRUCTURE, element.line(), element.col(), path, false, isProfile(slicer), (context.formatMessage(I18nConstants.DOES_NOT_MATCH_SLICE_, ed.getSliceName())), "discriminator = " + Utilities.escapeXml(n.toString()), null);
        for (String url : shc.getSliceRecords().keySet()) {
            slicingHint(sliceInfo, IssueType.STRUCTURE, element.line(), element.col(), path, false, isProfile(slicer), context.formatMessage(I18nConstants.DETAILS_FOR__MATCHING_AGAINST_PROFILE_, stack.getLiteralPath(), url), context.formatMessage(I18nConstants.PROFILE__DOES_NOT_MATCH_FOR__BECAUSE_OF_THE_FOLLOWING_PROFILE_ISSUES__, url, stack.getLiteralPath(), errorSummaryForSlicingAsHtml(shc.getSliceRecords().get(url))), errorSummaryForSlicingAsText(shc.getSliceRecords().get(url)));
        }
    }
    return pass;
}

Example 34 with CanonicalType

use of org.hl7.fhir.r5.model.CanonicalType in project org.hl7.fhir.core by hapifhir.

the class CapabilityStatementComparer method compareProfiles.

private void compareProfiles(String path, StructuralMatch<Element> combined, CanonicalType left, CanonicalType right, CapabilityStatementComparison res, CapabilityStatementRestResourceComponent union, CapabilityStatementRestResourceComponent intersection) {
    if (!left.hasValue() && !right.hasValue()) {
    // nothing in this case
    } else if (!left.hasValue()) {
        // the intersection is anything in right. The union is everything (or nothing, in this case)
        intersection.setProfileElement(right.copy());
        combined.getChildren().add(new StructuralMatch<Element>(vmI(IssueSeverity.WARNING, "Added this profile", path), right).setName("profile"));
    } else if (!right.hasValue()) {
        // the intersection is anything in right. The union is everything (or nothing, in this case)
        intersection.setProfileElement(left.copy());
        combined.getChildren().add(new StructuralMatch<Element>(left, vmI(IssueSeverity.WARNING, "Removed this profile", path)).setName("profile"));
    } else {
        // profiles on both sides...
        StructureDefinition sdLeft = session.getContextLeft().fetchResource(StructureDefinition.class, left.getValue());
        StructureDefinition sdRight = session.getContextRight().fetchResource(StructureDefinition.class, right.getValue());
        if (sdLeft == null && sdRight == null) {
            combined.getChildren().add(new StructuralMatch<Element>(left, right, vmI(IssueSeverity.ERROR, "Cannot compare profiles because neither is known", path)).setName("profile"));
        } else if (sdLeft == null) {
            combined.getChildren().add(new StructuralMatch<Element>(left, right, vmI(IssueSeverity.ERROR, "Cannot compare profiles because '" + left.getValue() + "' is not known", path)).setName("profile"));
        } else if (sdRight == null) {
            combined.getChildren().add(new StructuralMatch<Element>(left, right, vmI(IssueSeverity.ERROR, "Cannot compare profiles because '" + right.getValue() + "' is not known", path)).setName("profile"));
        } else if (sdLeft.getUrl().equals(sdRight.getUrl())) {
            intersection.setProfileElement(left.copy());
            union.setProfileElement(left.copy());
            combined.getChildren().add(new StructuralMatch<Element>(left, right).setName("profile"));
        } else if (profileInherits(sdLeft, sdRight, session.getContextLeft())) {
            // if left inherits from right:
            intersection.setProfileElement(left.copy());
            union.setProfileElement(right.copy());
            combined.getChildren().add(new StructuralMatch<Element>(left, right, vmI(IssueSeverity.WARNING, "Changed this profile to a broader profile", path)).setName("profile"));
        } else if (profileInherits(sdRight, sdLeft, session.getContextRight())) {
            intersection.setProfileElement(right.copy());
            union.setProfileElement(left.copy());
            combined.getChildren().add(new StructuralMatch<Element>(left, right, vmI(IssueSeverity.WARNING, "Changed this profile to a narrower one", path)).setName("profile"));
        } else {
            combined.getChildren().add(new StructuralMatch<Element>(left, right, vmI(IssueSeverity.WARNING, "Different", path)).setName("profile"));
            throw new Error("Not done yet");
        }
    }
}

Example 35 with CanonicalType

use of org.hl7.fhir.r5.model.CanonicalType in project org.hl7.fhir.core by hapifhir.

the class StructureDefinitionSpreadsheetGenerator method canonicalList.

private String canonicalList(List<CanonicalType> list) {
    CommaSeparatedStringBuilder b = new CommaSeparatedStringBuilder("|");
    for (CanonicalType c : list) {
        String v = c.getValue();
        if (v.startsWith("http://hl7.org/fhir/StructureDefinition/"))
            v = v.substring(40);
        b.append(v);
    }
    return b.toString();
}