24880477649

Committed 24 Apr 2026 08:39AM UTC coverage: 18.287% (+0.8%) from 17.496%

Build # 24880477649

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push

github

Committed by

web-flow

Commit Message

Merge pull request #453 from knowledgepixels/add-root-nanopub-placeholder

feat: support RootNanopubPlaceholder in templates

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0.0

src/main/java/com/knowledgepixels/nanodash/component/ReadonlyItem.java

package com.knowledgepixels.nanodash.component;

import com.knowledgepixels.nanodash.LocalUri;
import com.knowledgepixels.nanodash.RestrictedChoice;
import com.knowledgepixels.nanodash.domain.User;
import com.knowledgepixels.nanodash.Utils;
import com.knowledgepixels.nanodash.component.StatementItem.RepetitionGroup;
import com.knowledgepixels.nanodash.domain.IndividualAgent;
import com.knowledgepixels.nanodash.domain.MaintainedResource;
import com.knowledgepixels.nanodash.domain.Space;
import com.knowledgepixels.nanodash.page.ExplorePage;
import com.knowledgepixels.nanodash.repository.MaintainedResourceRepository;
import com.knowledgepixels.nanodash.repository.SpaceRepository;
import com.knowledgepixels.nanodash.template.ContextType;
import com.knowledgepixels.nanodash.template.Template;
import com.knowledgepixels.nanodash.template.UnificationException;
import net.trustyuri.TrustyUriUtils;
import org.apache.commons.codec.Charsets;
import org.apache.wicket.behavior.AttributeAppender;
import org.apache.wicket.markup.html.basic.Label;
import org.apache.wicket.markup.html.link.ExternalLink;
import org.apache.wicket.model.IModel;
import org.apache.wicket.model.Model;
import org.apache.wicket.validation.IValidatable;
import org.apache.wicket.validation.IValidator;
import org.apache.wicket.validation.Validatable;
import org.apache.wicket.validation.ValidationError;
import org.eclipse.rdf4j.common.net.ParsedIRI;
import org.eclipse.rdf4j.model.IRI;
import org.eclipse.rdf4j.model.Literal;
import org.eclipse.rdf4j.model.Value;
import org.eclipse.rdf4j.model.ValueFactory;
import org.eclipse.rdf4j.model.impl.SimpleValueFactory;
import org.eclipse.rdf4j.model.util.Literals;
import org.eclipse.rdf4j.model.vocabulary.XSD;
import org.nanopub.Nanopub;
import org.nanopub.NanopubUtils;
import org.nanopub.SimpleCreatorPattern;
import org.nanopub.vocabulary.NTEMPLATE;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;

import java.net.URISyntaxException;
import java.net.URLEncoder;
import java.util.HashMap;
import java.util.Map;

/**
 * ReadonlyItem is a component that displays a read-only item in the form.
 */
public class ReadonlyItem extends AbstractContextComponent {

    private static final int LONG_LITERAL_LENGTH = 100;
    private static final Logger logger = LoggerFactory.getLogger(ReadonlyItem.class);
    private static final ValueFactory vf = SimpleValueFactory.getInstance();

    private IModel<String> model;
    private String prefix;
    private ExternalLink linkComp;
    private Label extraComp, languageComp, datatypeComp;
    private IModel<String> extraModel, languageModel, datatypeModel;
    private IRI iri;
    private RestrictedChoice restrictedChoice;
    private Label showMoreLabelLiteral, showMoreLabelHTML;
    private final Template template;

    /**
     * Constructor for ReadonlyItem.
     *
     * @param id              the component id
     * @param parentId        the parent id (e.g., "subj", "obj")
     * @param iriP            the IRI of the item
     * @param statementPartId the statement part ID
     * @param rg              the repetition group
     */
    public ReadonlyItem(String id, String parentId, final IRI iriP, IRI statementPartId, final RepetitionGroup rg) {
        super(id, rg.getContext());
        this.iri = iriP;
        template = context.getTemplate();
        model = (IModel<String>) context.getComponentModels().get(iri);
        if (model == null) {
            model = Model.of("");
            context.getComponentModels().put(iri, model);
        }
        String postfix = Utils.getUriPostfix(iri);
        if (context.hasParam(postfix)) {
            model.setObject(context.getParam(postfix));
        }
        if (model.getObject().isEmpty() && template.isRootNanopubPlaceholder(iri) && context.getReferenceNanopub() == null) {
            model.setObject(LocalUri.of("nanopub").stringValue());
        }

        final Map<String, String> foafNameMap;
        if (context.getExistingNanopub() == null) {
            foafNameMap = new HashMap<>();
        } else {
            foafNameMap = Utils.getFoafNameMap(context.getExistingNanopub());
        }

        prefix = template.getPrefix(iri);
        if (prefix == null) prefix = "";
        if (template.isRestrictedChoicePlaceholder(iri)) {
            restrictedChoice = new RestrictedChoice(iri, context);
        }
        add(new Label("prefix", new Model<String>() {

            @Override
            public String getObject() {
                String prefixLabel = template.getPrefixLabel(iri);
                String v = getFullValue();
                if (prefixLabel == null || IndividualAgent.isUser(v) || foafNameMap.containsKey(v)) {
                    return "";
                } else if (prefixLabel.matches("https?://.*")) {
                    // Hide prefix label that leaks through as a raw URL.
                    return "";
                } else {
                    if (!prefixLabel.isEmpty() && parentId.equals("subj")) {
                        // Capitalize first letter of label if at subject position:
                        prefixLabel = prefixLabel.substring(0, 1).toUpperCase() + prefixLabel.substring(1);
                    }
                    return prefixLabel;
                }
            }

        }));

        linkComp = new ExternalLink("link", new Model<String>() {

            @Override
            public String getObject() {
                String obj = getFullValue();
                if (obj == null) return "";
                if (obj.equals(LocalUri.of("nanopub").stringValue())) {
                    if (context.getExistingNanopub() != null) {
                        obj = context.getExistingNanopub().getUri().stringValue();
                        return ExplorePage.MOUNT_PATH + "?id=" + URLEncoder.encode(obj, Charsets.UTF_8);
                    } else {
                        return "";
                    }
                } else if (obj.equals(LocalUri.of("assertion").stringValue())) {
                    if (context.getExistingNanopub() != null) {
                        obj = context.getExistingNanopub().getAssertionUri().stringValue();
                        return ExplorePage.MOUNT_PATH + "?id=" + URLEncoder.encode(obj, Charsets.UTF_8);
                    } else {
                        return "";
                    }
                } else if (obj.matches("https?://.+")) {
                    return NanodashLink.getPageUrl(obj);
                } else {
                    return "";
                }
            }

        }, new Model<String>() {

            @Override
            public String getObject() {
                String obj = getFullValue();
                if (obj != null && obj.equals(LocalUri.of("nanopub").stringValue())) {
                    return "this nanopublication";
                }
                if (obj != null && obj.equals(LocalUri.of("assertion").stringValue())) {
                    return context.getType() == ContextType.ASSERTION ? "this assertion" : "the assertion above";
                }
                if (obj != null && obj.matches("https?://.+")) {
                    IRI objIri = vf.createIRI(obj);
                    if (iri.equals(NTEMPLATE.CREATOR_PLACEHOLDER)) {
                        // TODO We might want to introduce a "(you)" flag here at some point
                        return User.getShortDisplayName(objIri);
                    } else if (isAssertionValue(objIri)) {
                        if (context.getType() == ContextType.ASSERTION) {
                            return "this assertion";
                        } else {
                            return "the assertion above";
                        }
                    } else if (isNanopubValue(objIri)) {
                        return "this nanopublication";
                    } else if (IndividualAgent.isUser(obj)) {
                        return User.getShortDisplayName(objIri);
                    } else if (foafNameMap.containsKey(obj)) {
                        return foafNameMap.get(obj);
                    }
                    Space space = SpaceRepository.get().findById(obj);
                    if (space != null) return space.getLabel();
                    space = SpaceRepository.get().findByAltId(obj);
                    if (space != null) return space.getLabel();
                    MaintainedResource mr = MaintainedResourceRepository.get().findById(obj);
                    if (mr != null) return mr.getLabel();
                    return getLabelString(objIri);
                }
                return obj;
            }

        });
        if (template.isIntroducedResource(iri) || template.isEmbeddedResource(iri)) {
            linkComp.add(AttributeAppender.append("class", "introduced"));
        }
        add(linkComp);
        add(new Label("description", new Model<String>() {

            @Override
            public String getObject() {
                String obj = getFullValue();
                if (obj != null && obj.matches("https?://.+")) {
                    IRI objIri = vf.createIRI(obj);
                    if (isAssertionValue(objIri)) {
                        return "This is the identifier for the assertion of this nanopublication.";
                    } else if (isNanopubValue(objIri)) {
                        return "This is the identifier for this whole nanopublication.";
                    } else if (context.isReadOnly() && obj.startsWith(context.getExistingNanopub().getUri().stringValue())) {
                        return "This is a local identifier minted within the nanopublication.";
                    }
                    String labelString = getLabelString(objIri);
                    String description = "";
                    if (labelString.contains(" - ")) description = labelString.replaceFirst("^.* - ", "");
                    return description;
                } else if (obj != null && obj.startsWith("\"")) {
                    return "(this is a literal)";
                }
                return "";
            }

        }));
        Model<String> uriModel = new Model<String>() {

            @Override
            public String getObject() {
                String obj = getFullValue();
                if (obj != null && obj.startsWith("\"")) return "";
                if (isAssertionValue(obj)) {
                    return getAssertionValue();
                } else if (isNanopubValue(obj)) {
                    return getNanopubValue();
                }
                return obj;
            }

        };
        add(Utils.getUriLink("uri", uriModel));
        extraModel = Model.of("");
        extraComp = new Label("extra", extraModel);
        extraComp.setVisible(false);
        add(extraComp);
        languageModel = Model.of("");
        languageComp = new Label("language", languageModel);
        languageComp.setVisible(false);
        add(languageComp);
        datatypeModel = Model.of("");
        datatypeComp = new Label("datatype", datatypeModel);
        datatypeComp.setVisible(false);
        add(datatypeComp);

        showMoreLabelLiteral = new Label("show-more-literal", "");
        add(showMoreLabelLiteral);
        showMoreLabelLiteral.setVisible(false);

        showMoreLabelHTML = new Label("show-more-html", "");
        add(showMoreLabelHTML);
        showMoreLabelHTML.setVisible(false);
    }

    /**
     * {@inheritDoc}
     */
    @Override
    public void fillFinished() {
        String obj = getFullValue();
        if (obj != null) {
            if (isAssertionValue(obj)) {
                linkComp.add(new AttributeAppender("class", "this-assertion"));
            } else if (isNanopubValue(obj)) {
                linkComp.add(new AttributeAppender("class", "this-nanopub"));
            } else if (context.getExistingNanopub() != null) {
                Nanopub np = context.getExistingNanopub();
                if (NanopubUtils.getIntroducedIriIds(np).contains(obj) || NanopubUtils.getEmbeddedIriIds(np).contains(obj)) {
                    linkComp.add(AttributeAppender.append("class", "introduced"));
                }
            }
        }
    }

    /**
     * {@inheritDoc}
     */
    @Override
    public void finalizeValues() {
    }

    private String getLabelString(IRI iri) {
        if (template.getLabel(iri) != null) {
            return template.getLabel(iri).replaceFirst(" - .*$", "");
        } else if (context.getLabel(iri) != null) {
            return context.getLabel(iri).replaceFirst(" - .*$", "");
        } else {
            return Utils.getShortNameFromURI(iri.stringValue());
        }
    }

    /**
     * {@inheritDoc}
     */
    @Override
    public void removeFromContext() {
        // Nothing to be done here.
    }

    private String getFullValue() {
        String s = model.getObject();
        if (s == null) return null;
        if (template.isAutoEscapePlaceholder(iri)) {
            s = Utils.urlEncode(s);
        }
        if (!prefix.isEmpty()) {
            s = prefix + s;
        }
        return s;
    }

    private boolean isNanopubValue(Object obj) {
        if (obj == null) return false;
        if (obj.toString().equals(LocalUri.of("nanopub").stringValue())) return true;
        // A fillSource match means a *prior* nanopub (supersede/derive), not "this" one — don't label it as such.
        if (context.getExistingNanopub() == null) return false;
        return obj.toString().equals(context.getExistingNanopub().getUri().stringValue());
    }

    private String getNanopubValue() {
        Nanopub ref = context.getReferenceNanopub();
        if (ref != null) {
            return ref.getUri().stringValue();
        } else {
            return LocalUri.of("nanopub").stringValue();
        }
    }

    private boolean isAssertionValue(Object obj) {
        if (obj == null) return false;
        if (obj.toString().equals(LocalUri.of("assertion").stringValue())) return true;
        // A fillSource match means a *prior* assertion (supersede/derive), not "this" one.
        if (context.getExistingNanopub() == null) return false;
        return obj.toString().equals(context.getExistingNanopub().getAssertionUri().stringValue());
    }

    private String getAssertionValue() {
        Nanopub ref = context.getReferenceNanopub();
        if (ref != null) {
            return ref.getAssertionUri().stringValue();
        } else {
            return LocalUri.of("assertion").stringValue();
        }
    }

    /**
     * {@inheritDoc}
     */
    @Override
    public boolean isUnifiableWith(Value v) {
        if (v == null) return true;
        if (v instanceof IRI) {
            String vs = v.stringValue();
            if (vs.equals(LocalUri.of("nanopub").stringValue())) {
                vs = getNanopubValue();
            } else if (vs.equals(LocalUri.of("assertion").stringValue())) {
                vs = getAssertionValue();
            }
            if (vs.startsWith(prefix)) vs = vs.substring(prefix.length());
//                        if (Utils.isLocalURI(vs)) vs = vs.replaceFirst("^" + LocalUri.PREFIX, "");
            if (template.isAutoEscapePlaceholder(iri)) {
                vs = Utils.urlDecode(vs);
            }
            Validatable<String> validatable = new Validatable<>(vs);
//                        if (template.isLocalResource(iri) && !Utils.isUriPostfix(vs)) {
//                                vs = Utils.getUriPostfix(vs);
//                        }
            new Validator().validate(validatable);
            if (!validatable.isValid()) {
                return false;
            }
            if (model.getObject().isEmpty()) {
                return true;
            }
            return vs.equals(model.getObject());
        } else if (v instanceof Literal vL) {
            if (template.getRegex(iri) != null && !v.stringValue().matches(template.getRegex(iri))) {
                return false;
            }
            String languagetag = template.getLanguageTag(iri);
            IRI datatype = template.getDatatype(iri);
            if (languagetag != null) {
                if (vL.getLanguage().isEmpty() || !Literals.normalizeLanguageTag(vL.getLanguage().get()).equals(languagetag)) {
                    return false;
                }
            } else if (datatype != null) {
                if (!vL.getDatatype().equals(datatype)) {
                    return false;
                }
            }
            if (linkComp.getDefaultModelObject() == null || linkComp.getDefaultModelObject().toString().isEmpty()) {
                return true;
            }
            return linkComp.getDefaultModelObject().equals("\"" + v.stringValue() + "\"");
        }
        return false;
    }

    /**
     * {@inheritDoc}
     */
    @Override
    public void unifyWith(Value v) throws UnificationException {
        if (v == null) return;
        String vs = v.stringValue();
        if (!isUnifiableWith(v)) {
            logger.error("Cannot unify {}", v);
            throw new UnificationException(vs);
        }
        if (v instanceof IRI) {
            if (vs.equals(LocalUri.of("nanopub").stringValue())) {
                vs = getNanopubValue();
            } else if (vs.equals(LocalUri.of("assertion").stringValue())) {
                vs = getAssertionValue();
            }
            if (!prefix.isEmpty() && vs.startsWith(prefix)) {
                vs = vs.substring(prefix.length());
                // With read-only items, we don't need preliminary local identifiers:
//                        } else if (Utils.isLocalURI(vs)) {
//                                vs = vs.replaceFirst("^" + LocalUri.PREFIX, "");
//                        } else if (template.isLocalResource(iri) && !Utils.isUriPostfix(vs)) {
//                                vs = Utils.getUriPostfix(vs);
            }
            if (template.isAutoEscapePlaceholder(iri)) {
                vs = Utils.urlDecode(vs);
            }
            model.setObject(vs);
        } else if (v instanceof Literal vL) {
            if (vs.length() >= LONG_LITERAL_LENGTH) {
                linkComp.add(AttributeAppender.append("class", "long-literal collapsed"));
                showMoreLabelLiteral.setVisible(true);
            }
            if (vL.getLanguage().isPresent()) {
                model.setObject("\"" + vs + "\"");
                languageModel.setObject("(" + Literals.normalizeLanguageTag(vL.getLanguage().get()) + ")");
                languageComp.setVisible(true);
            } else if (!vL.getDatatype().equals(XSD.STRING)) {
                model.setObject("\"" + vs + "\"");
                datatypeModel.setObject("(" + vL.getDatatype().stringValue().replace(XSD.NAMESPACE, "xsd:") + ")");
                datatypeComp.setVisible(true);
            } else {
                model.setObject("\"" + vs + "\"");
            }
            if (Utils.looksLikeHtml(vs)) {
                linkComp.setVisible(false);
                extraModel.setObject(Utils.sanitizeHtml(vs));
                extraComp.setEscapeModelStrings(false);
                extraComp.setVisible(true);
                showMoreLabelLiteral.setVisible(false);
                showMoreLabelHTML.setVisible(true);
            }
        }
    }

    /**
     * Validator class for validating the input.
     */
    protected class Validator extends InvalidityHighlighting implements IValidator<String> {

        /**
         * Default constructor for Validator.
         */
        public Validator() {
        }

        @Override
        public void validate(IValidatable<String> s) {
            String sv = s.getValue();
            String p = prefix;
            if (template.isAutoEscapePlaceholder(iri)) {
                sv = Utils.urlEncode(sv);
            }
            if (sv.matches("https?://.+")) {
                p = "";
            } else if (sv.contains(":")) {
                s.error(new ValidationError("Colon character is not allowed in postfix"));
            }
            String iriString = p + sv;
            if (iriString.matches("[^:# ]+")) {
                p = LocalUri.PREFIX;
                iriString = p + sv;
            }
            try {
                ParsedIRI piri = new ParsedIRI(iriString);
                if (!piri.isAbsolute()) {
                    s.error(new ValidationError("IRI not well-formed"));
                }
                if (p.isEmpty() && !Utils.isLocalURI(sv) && !sv.matches("https?://.+")) {
                    s.error(new ValidationError("Only http(s):// IRIs are allowed here"));
                }
            } catch (URISyntaxException ex) {
                s.error(new ValidationError("IRI not well-formed"));
            }
            String regex = template.getRegex(iri);
            if (regex != null) {
                if (!sv.matches(regex)) {
                    s.error(new ValidationError("Value '" + sv + "' doesn't match the pattern '" + regex + "'"));
                }
            }
            if (template.isRestrictedChoicePlaceholder(iri)) {
                if (!restrictedChoice.getPossibleValues().contains(iriString) && !restrictedChoice.hasPossibleRefValues()) {
                    // not checking the possible ref values can overgenerate, but normally works
                    s.error(new ValidationError("Invalid choice"));
                }
            }
            if (template.isExternalUriPlaceholder(iri)) {
                if (!iriString.matches("https?://.+")) {
                    s.error(new ValidationError("Not an external IRI"));
                }
            }
            if (template.isTrustyUriPlaceholder(iri)) {
                if (!TrustyUriUtils.isPotentialTrustyUri(iriString)) {
                    s.error(new ValidationError("Not a trusty URI"));
                }
            }
            if (iri.equals(NTEMPLATE.CREATOR_PLACEHOLDER) && context.getExistingNanopub() != null) {
                boolean found = false;
                for (IRI creator : SimpleCreatorPattern.getCreators(context.getExistingNanopub())) {
                    if (creator.stringValue().equals(iriString)) {
                        found = true;
                        break;
                    }
                }
                if (!found) {
                    s.error(new ValidationError("Not a creator of nanopub"));
                }
            }
        }

    }

    /**
     * <p>toString.</p>
     *
     * @return a {@link java.lang.String} object
     */
    public String toString() {
        return "[read-only IRI item: " + iri + "]";
    }

}

1	package com.knowledgepixels.nanodash.component;
2
3	import com.knowledgepixels.nanodash.LocalUri;
4	import com.knowledgepixels.nanodash.RestrictedChoice;
5	import com.knowledgepixels.nanodash.domain.User;
6	import com.knowledgepixels.nanodash.Utils;
7	import com.knowledgepixels.nanodash.component.StatementItem.RepetitionGroup;
8	import com.knowledgepixels.nanodash.domain.IndividualAgent;
9	import com.knowledgepixels.nanodash.domain.MaintainedResource;
10	import com.knowledgepixels.nanodash.domain.Space;
11	import com.knowledgepixels.nanodash.page.ExplorePage;
12	import com.knowledgepixels.nanodash.repository.MaintainedResourceRepository;
13	import com.knowledgepixels.nanodash.repository.SpaceRepository;
14	import com.knowledgepixels.nanodash.template.ContextType;
15	import com.knowledgepixels.nanodash.template.Template;
16	import com.knowledgepixels.nanodash.template.UnificationException;
17	import net.trustyuri.TrustyUriUtils;
18	import org.apache.commons.codec.Charsets;
19	import org.apache.wicket.behavior.AttributeAppender;
20	import org.apache.wicket.markup.html.basic.Label;
21	import org.apache.wicket.markup.html.link.ExternalLink;
22	import org.apache.wicket.model.IModel;
23	import org.apache.wicket.model.Model;
24	import org.apache.wicket.validation.IValidatable;
25	import org.apache.wicket.validation.IValidator;
26	import org.apache.wicket.validation.Validatable;
27	import org.apache.wicket.validation.ValidationError;
28	import org.eclipse.rdf4j.common.net.ParsedIRI;
29	import org.eclipse.rdf4j.model.IRI;
30	import org.eclipse.rdf4j.model.Literal;
31	import org.eclipse.rdf4j.model.Value;
32	import org.eclipse.rdf4j.model.ValueFactory;
33	import org.eclipse.rdf4j.model.impl.SimpleValueFactory;
34	import org.eclipse.rdf4j.model.util.Literals;
35	import org.eclipse.rdf4j.model.vocabulary.XSD;
36	import org.nanopub.Nanopub;
37	import org.nanopub.NanopubUtils;
38	import org.nanopub.SimpleCreatorPattern;
39	import org.nanopub.vocabulary.NTEMPLATE;
40	import org.slf4j.Logger;
41	import org.slf4j.LoggerFactory;
42
43	import java.net.URISyntaxException;
44	import java.net.URLEncoder;
45	import java.util.HashMap;
46	import java.util.Map;
47
48	/**
49	* ReadonlyItem is a component that displays a read-only item in the form.
50	*/
51	public class ReadonlyItem extends AbstractContextComponent {
52
53	private static final int LONG_LITERAL_LENGTH = 100;
54	private static final Logger logger = LoggerFactory.getLogger(ReadonlyItem.class);	×
55	private static final ValueFactory vf = SimpleValueFactory.getInstance();	×
56
57	private IModel<String> model;
58	private String prefix;
59	private ExternalLink linkComp;
60	private Label extraComp, languageComp, datatypeComp;
61	private IModel<String> extraModel, languageModel, datatypeModel;
62	private IRI iri;
63	private RestrictedChoice restrictedChoice;
64	private Label showMoreLabelLiteral, showMoreLabelHTML;
65	private final Template template;
66
67	/**
68	* Constructor for ReadonlyItem.
69	*
70	* @param id the component id
71	* @param parentId the parent id (e.g., "subj", "obj")
72	* @param iriP the IRI of the item
73	* @param statementPartId the statement part ID
74	* @param rg the repetition group
75	*/
76	public ReadonlyItem(String id, String parentId, final IRI iriP, IRI statementPartId, final RepetitionGroup rg) {
77	super(id, rg.getContext());	×
78	this.iri = iriP;	×
79	template = context.getTemplate();	×
80	model = (IModel<String>) context.getComponentModels().get(iri);	×
81	if (model == null) {	×
82	model = Model.of("");	×
83	context.getComponentModels().put(iri, model);	×
84	}
85	String postfix = Utils.getUriPostfix(iri);	×
86	if (context.hasParam(postfix)) {	×
87	model.setObject(context.getParam(postfix));	×
88	}
89	if (model.getObject().isEmpty() && template.isRootNanopubPlaceholder(iri) && context.getReferenceNanopub() == null) {	×
90	model.setObject(LocalUri.of("nanopub").stringValue());	×
91	}
92
93	final Map<String, String> foafNameMap;
94	if (context.getExistingNanopub() == null) {	×
95	foafNameMap = new HashMap<>();	×
96	} else {
97	foafNameMap = Utils.getFoafNameMap(context.getExistingNanopub());	×
98	}
99
100	prefix = template.getPrefix(iri);	×
101	if (prefix == null) prefix = "";	×
102	if (template.isRestrictedChoicePlaceholder(iri)) {	×
103	restrictedChoice = new RestrictedChoice(iri, context);	×
104	}
105	add(new Label("prefix", new Model<String>() {	×
106
107	@Override
108	public String getObject() {
109	String prefixLabel = template.getPrefixLabel(iri);	×
110	String v = getFullValue();	×
111	if (prefixLabel == null \|\| IndividualAgent.isUser(v) \|\| foafNameMap.containsKey(v)) {	×
112	return "";	×
113	} else if (prefixLabel.matches("https?://.*")) {	×
114	// Hide prefix label that leaks through as a raw URL.
115	return "";	×
116	} else {
117	if (!prefixLabel.isEmpty() && parentId.equals("subj")) {	×
118	// Capitalize first letter of label if at subject position:
119	prefixLabel = prefixLabel.substring(0, 1).toUpperCase() + prefixLabel.substring(1);	×
120	}
121	return prefixLabel;	×
122	}
123	}
124
125	}));
126
127	linkComp = new ExternalLink("link", new Model<String>() {	×
128
129	@Override
130	public String getObject() {
131	String obj = getFullValue();	×
132	if (obj == null) return "";	×
133	if (obj.equals(LocalUri.of("nanopub").stringValue())) {	×
134	if (context.getExistingNanopub() != null) {	×
135	obj = context.getExistingNanopub().getUri().stringValue();	×
136	return ExplorePage.MOUNT_PATH + "?id=" + URLEncoder.encode(obj, Charsets.UTF_8);	×
137	} else {
138	return "";	×
139	}
140	} else if (obj.equals(LocalUri.of("assertion").stringValue())) {	×
141	if (context.getExistingNanopub() != null) {	×
142	obj = context.getExistingNanopub().getAssertionUri().stringValue();	×
143	return ExplorePage.MOUNT_PATH + "?id=" + URLEncoder.encode(obj, Charsets.UTF_8);	×
144	} else {
145	return "";	×
146	}
147	} else if (obj.matches("https?://.+")) {	×
148	return NanodashLink.getPageUrl(obj);	×
149	} else {
150	return "";	×
151	}
152	}
153
154	}, new Model<String>() {	×
155
156	@Override
157	public String getObject() {
158	String obj = getFullValue();	×
159	if (obj != null && obj.equals(LocalUri.of("nanopub").stringValue())) {	×
160	return "this nanopublication";	×
161	}
162	if (obj != null && obj.equals(LocalUri.of("assertion").stringValue())) {	×
163	return context.getType() == ContextType.ASSERTION ? "this assertion" : "the assertion above";	×
164	}
165	if (obj != null && obj.matches("https?://.+")) {	×
166	IRI objIri = vf.createIRI(obj);	×
167	if (iri.equals(NTEMPLATE.CREATOR_PLACEHOLDER)) {	×
168	// TODO We might want to introduce a "(you)" flag here at some point
169	return User.getShortDisplayName(objIri);	×
170	} else if (isAssertionValue(objIri)) {	×
171	if (context.getType() == ContextType.ASSERTION) {	×
172	return "this assertion";	×
173	} else {
174	return "the assertion above";	×
175	}
176	} else if (isNanopubValue(objIri)) {	×
177	return "this nanopublication";	×
178	} else if (IndividualAgent.isUser(obj)) {	×
179	return User.getShortDisplayName(objIri);	×
180	} else if (foafNameMap.containsKey(obj)) {	×
181	return foafNameMap.get(obj);	×
182	}
183	Space space = SpaceRepository.get().findById(obj);	×
184	if (space != null) return space.getLabel();	×
185	space = SpaceRepository.get().findByAltId(obj);	×
186	if (space != null) return space.getLabel();	×
187	MaintainedResource mr = MaintainedResourceRepository.get().findById(obj);	×
188	if (mr != null) return mr.getLabel();	×
189	return getLabelString(objIri);	×
190	}
191	return obj;	×
192	}
193
194	});
195	if (template.isIntroducedResource(iri) \|\| template.isEmbeddedResource(iri)) {	×
196	linkComp.add(AttributeAppender.append("class", "introduced"));	×
197	}
198	add(linkComp);	×
199	add(new Label("description", new Model<String>() {	×
200
201	@Override
202	public String getObject() {
203	String obj = getFullValue();	×
204	if (obj != null && obj.matches("https?://.+")) {	×
205	IRI objIri = vf.createIRI(obj);	×
206	if (isAssertionValue(objIri)) {	×
207	return "This is the identifier for the assertion of this nanopublication.";	×
208	} else if (isNanopubValue(objIri)) {	×
209	return "This is the identifier for this whole nanopublication.";	×
210	} else if (context.isReadOnly() && obj.startsWith(context.getExistingNanopub().getUri().stringValue())) {	×
211	return "This is a local identifier minted within the nanopublication.";	×
212	}
213	String labelString = getLabelString(objIri);	×
214	String description = "";	×
215	if (labelString.contains(" - ")) description = labelString.replaceFirst("^.* - ", "");	×
216	return description;	×
217	} else if (obj != null && obj.startsWith("\"")) {	×
218	return "(this is a literal)";	×
219	}
220	return "";	×
221	}
222
223	}));
224	Model<String> uriModel = new Model<String>() {	×
225
226	@Override
227	public String getObject() {
228	String obj = getFullValue();	×
229	if (obj != null && obj.startsWith("\"")) return "";	×
230	if (isAssertionValue(obj)) {	×
231	return getAssertionValue();	×
232	} else if (isNanopubValue(obj)) {	×
233	return getNanopubValue();	×
234	}
235	return obj;	×
236	}
237
238	};
239	add(Utils.getUriLink("uri", uriModel));	×
240	extraModel = Model.of("");	×
241	extraComp = new Label("extra", extraModel);	×
242	extraComp.setVisible(false);	×
243	add(extraComp);	×
244	languageModel = Model.of("");	×
245	languageComp = new Label("language", languageModel);	×
246	languageComp.setVisible(false);	×
247	add(languageComp);	×
248	datatypeModel = Model.of("");	×
249	datatypeComp = new Label("datatype", datatypeModel);	×
250	datatypeComp.setVisible(false);	×
251	add(datatypeComp);	×
252
253	showMoreLabelLiteral = new Label("show-more-literal", "");	×
254	add(showMoreLabelLiteral);	×
255	showMoreLabelLiteral.setVisible(false);	×
256
257	showMoreLabelHTML = new Label("show-more-html", "");	×
258	add(showMoreLabelHTML);	×
259	showMoreLabelHTML.setVisible(false);	×
260	}	×
261
262	/**
263	* {@inheritDoc}
264	*/
265	@Override
266	public void fillFinished() {
267	String obj = getFullValue();	×
268	if (obj != null) {	×
269	if (isAssertionValue(obj)) {	×
270	linkComp.add(new AttributeAppender("class", "this-assertion"));	×
271	} else if (isNanopubValue(obj)) {	×
272	linkComp.add(new AttributeAppender("class", "this-nanopub"));	×
273	} else if (context.getExistingNanopub() != null) {	×
274	Nanopub np = context.getExistingNanopub();	×
275	if (NanopubUtils.getIntroducedIriIds(np).contains(obj) \|\| NanopubUtils.getEmbeddedIriIds(np).contains(obj)) {	×
276	linkComp.add(AttributeAppender.append("class", "introduced"));	×
277	}
278	}
279	}
280	}	×
281
282	/**
283	* {@inheritDoc}
284	*/
285	@Override
286	public void finalizeValues() {
287	}	×
288
289	private String getLabelString(IRI iri) {
290	if (template.getLabel(iri) != null) {	×
291	return template.getLabel(iri).replaceFirst(" - .*$", "");	×
292	} else if (context.getLabel(iri) != null) {	×
293	return context.getLabel(iri).replaceFirst(" - .*$", "");	×
294	} else {
295	return Utils.getShortNameFromURI(iri.stringValue());	×
296	}
297	}
298
299	/**
300	* {@inheritDoc}
301	*/
302	@Override
303	public void removeFromContext() {
304	// Nothing to be done here.
305	}	×
306
307	private String getFullValue() {
308	String s = model.getObject();	×
309	if (s == null) return null;	×
310	if (template.isAutoEscapePlaceholder(iri)) {	×
311	s = Utils.urlEncode(s);	×
312	}
313	if (!prefix.isEmpty()) {	×
314	s = prefix + s;	×
315	}
316	return s;	×
317	}
318
319	private boolean isNanopubValue(Object obj) {
320	if (obj == null) return false;	×
321	if (obj.toString().equals(LocalUri.of("nanopub").stringValue())) return true;	×
322	// A fillSource match means a prior nanopub (supersede/derive), not "this" one — don't label it as such.
323	if (context.getExistingNanopub() == null) return false;	×
324	return obj.toString().equals(context.getExistingNanopub().getUri().stringValue());	×
325	}
326
327	private String getNanopubValue() {
328	Nanopub ref = context.getReferenceNanopub();	×
329	if (ref != null) {	×
330	return ref.getUri().stringValue();	×
331	} else {
332	return LocalUri.of("nanopub").stringValue();	×
333	}
334	}
335
336	private boolean isAssertionValue(Object obj) {
337	if (obj == null) return false;	×
338	if (obj.toString().equals(LocalUri.of("assertion").stringValue())) return true;	×
339	// A fillSource match means a prior assertion (supersede/derive), not "this" one.
340	if (context.getExistingNanopub() == null) return false;	×
341	return obj.toString().equals(context.getExistingNanopub().getAssertionUri().stringValue());	×
342	}
343
344	private String getAssertionValue() {
345	Nanopub ref = context.getReferenceNanopub();	×
346	if (ref != null) {	×
347	return ref.getAssertionUri().stringValue();	×
348	} else {
349	return LocalUri.of("assertion").stringValue();	×
350	}
351	}
352
353	/**
354	* {@inheritDoc}
355	*/
356	@Override
357	public boolean isUnifiableWith(Value v) {
358	if (v == null) return true;	×
359	if (v instanceof IRI) {	×
360	String vs = v.stringValue();	×
361	if (vs.equals(LocalUri.of("nanopub").stringValue())) {	×
362	vs = getNanopubValue();	×
363	} else if (vs.equals(LocalUri.of("assertion").stringValue())) {	×
364	vs = getAssertionValue();	×
365	}
366	if (vs.startsWith(prefix)) vs = vs.substring(prefix.length());	×
367	// if (Utils.isLocalURI(vs)) vs = vs.replaceFirst("^" + LocalUri.PREFIX, "");
368	if (template.isAutoEscapePlaceholder(iri)) {	×
369	vs = Utils.urlDecode(vs);	×
370	}
371	Validatable<String> validatable = new Validatable<>(vs);	×
372	// if (template.isLocalResource(iri) && !Utils.isUriPostfix(vs)) {
373	// vs = Utils.getUriPostfix(vs);
374	// }
375	new Validator().validate(validatable);	×
376	if (!validatable.isValid()) {	×
377	return false;	×
378	}
379	if (model.getObject().isEmpty()) {	×
380	return true;	×
381	}
382	return vs.equals(model.getObject());	×
383	} else if (v instanceof Literal vL) {	×
384	if (template.getRegex(iri) != null && !v.stringValue().matches(template.getRegex(iri))) {	×
385	return false;	×
386	}
387	String languagetag = template.getLanguageTag(iri);	×
388	IRI datatype = template.getDatatype(iri);	×
389	if (languagetag != null) {	×
390	if (vL.getLanguage().isEmpty() \|\| !Literals.normalizeLanguageTag(vL.getLanguage().get()).equals(languagetag)) {	×
391	return false;	×
392	}
393	} else if (datatype != null) {	×
394	if (!vL.getDatatype().equals(datatype)) {	×
395	return false;	×
396	}
397	}
398	if (linkComp.getDefaultModelObject() == null \|\| linkComp.getDefaultModelObject().toString().isEmpty()) {	×
399	return true;	×
400	}
401	return linkComp.getDefaultModelObject().equals("\"" + v.stringValue() + "\"");	×
402	}
403	return false;	×
404	}
405
406	/**
407	* {@inheritDoc}
408	*/
409	@Override
410	public void unifyWith(Value v) throws UnificationException {
411	if (v == null) return;	×
412	String vs = v.stringValue();	×
413	if (!isUnifiableWith(v)) {	×
414	logger.error("Cannot unify {}", v);	×
415	throw new UnificationException(vs);	×
416	}
417	if (v instanceof IRI) {	×
418	if (vs.equals(LocalUri.of("nanopub").stringValue())) {	×
419	vs = getNanopubValue();	×
420	} else if (vs.equals(LocalUri.of("assertion").stringValue())) {	×
421	vs = getAssertionValue();	×
422	}
423	if (!prefix.isEmpty() && vs.startsWith(prefix)) {	×
424	vs = vs.substring(prefix.length());	×
425	// With read-only items, we don't need preliminary local identifiers:
426	// } else if (Utils.isLocalURI(vs)) {
427	// vs = vs.replaceFirst("^" + LocalUri.PREFIX, "");
428	// } else if (template.isLocalResource(iri) && !Utils.isUriPostfix(vs)) {
429	// vs = Utils.getUriPostfix(vs);
430	}
431	if (template.isAutoEscapePlaceholder(iri)) {	×
432	vs = Utils.urlDecode(vs);	×
433	}
434	model.setObject(vs);	×
435	} else if (v instanceof Literal vL) {	×
436	if (vs.length() >= LONG_LITERAL_LENGTH) {	×
437	linkComp.add(AttributeAppender.append("class", "long-literal collapsed"));	×
438	showMoreLabelLiteral.setVisible(true);	×
439	}
440	if (vL.getLanguage().isPresent()) {	×
441	model.setObject("\"" + vs + "\"");	×
442	languageModel.setObject("(" + Literals.normalizeLanguageTag(vL.getLanguage().get()) + ")");	×
443	languageComp.setVisible(true);	×
444	} else if (!vL.getDatatype().equals(XSD.STRING)) {	×
445	model.setObject("\"" + vs + "\"");	×
446	datatypeModel.setObject("(" + vL.getDatatype().stringValue().replace(XSD.NAMESPACE, "xsd:") + ")");	×
447	datatypeComp.setVisible(true);	×
448	} else {
449	model.setObject("\"" + vs + "\"");	×
450	}
451	if (Utils.looksLikeHtml(vs)) {	×
452	linkComp.setVisible(false);	×
453	extraModel.setObject(Utils.sanitizeHtml(vs));	×
454	extraComp.setEscapeModelStrings(false);	×
455	extraComp.setVisible(true);	×
456	showMoreLabelLiteral.setVisible(false);	×
457	showMoreLabelHTML.setVisible(true);	×
458	}
459	}
460	}	×
461
462	/**
463	* Validator class for validating the input.
464	*/
465	protected class Validator extends InvalidityHighlighting implements IValidator<String> {
466
467	/**
468	* Default constructor for Validator.
469	*/
470	public Validator() {	×
471	}	×
472
473	@Override
474	public void validate(IValidatable<String> s) {
475	String sv = s.getValue();	×
476	String p = prefix;	×
477	if (template.isAutoEscapePlaceholder(iri)) {	×
478	sv = Utils.urlEncode(sv);	×
479	}
480	if (sv.matches("https?://.+")) {	×
481	p = "";	×
482	} else if (sv.contains(":")) {	×
483	s.error(new ValidationError("Colon character is not allowed in postfix"));	×
484	}
485	String iriString = p + sv;	×
486	if (iriString.matches("[^:# ]+")) {	×
487	p = LocalUri.PREFIX;	×
488	iriString = p + sv;	×
489	}
490	try {
491	ParsedIRI piri = new ParsedIRI(iriString);	×
492	if (!piri.isAbsolute()) {	×
493	s.error(new ValidationError("IRI not well-formed"));	×
494	}
495	if (p.isEmpty() && !Utils.isLocalURI(sv) && !sv.matches("https?://.+")) {	×
496	s.error(new ValidationError("Only http(s):// IRIs are allowed here"));	×
497	}
498	} catch (URISyntaxException ex) {	×
499	s.error(new ValidationError("IRI not well-formed"));	×
500	}	×
501	String regex = template.getRegex(iri);	×
502	if (regex != null) {	×
503	if (!sv.matches(regex)) {	×
504	s.error(new ValidationError("Value '" + sv + "' doesn't match the pattern '" + regex + "'"));	×
505	}
506	}
507	if (template.isRestrictedChoicePlaceholder(iri)) {	×
508	if (!restrictedChoice.getPossibleValues().contains(iriString) && !restrictedChoice.hasPossibleRefValues()) {	×
509	// not checking the possible ref values can overgenerate, but normally works
510	s.error(new ValidationError("Invalid choice"));	×
511	}
512	}
513	if (template.isExternalUriPlaceholder(iri)) {	×
514	if (!iriString.matches("https?://.+")) {	×
515	s.error(new ValidationError("Not an external IRI"));	×
516	}
517	}
518	if (template.isTrustyUriPlaceholder(iri)) {	×
519	if (!TrustyUriUtils.isPotentialTrustyUri(iriString)) {	×
520	s.error(new ValidationError("Not a trusty URI"));	×
521	}
522	}
523	if (iri.equals(NTEMPLATE.CREATOR_PLACEHOLDER) && context.getExistingNanopub() != null) {	×
524	boolean found = false;	×
525	for (IRI creator : SimpleCreatorPattern.getCreators(context.getExistingNanopub())) {	×
526	if (creator.stringValue().equals(iriString)) {	×
527	found = true;	×
528	break;	×
529	}
530	}	×
531	if (!found) {	×
532	s.error(new ValidationError("Not a creator of nanopub"));	×
533	}
534	}
535	}	×
536
537	}
538
539	/**
540	* <p>toString.</p>
541	*
542	* @return a {@link java.lang.String} object
543	*/
544	public String toString() {
545	return "[read-only IRI item: " + iri + "]";	×
546	}
547
548	}

knowledgepixels / nanodash / 24880477649

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