17852532121

Committed 19 Sep 2025 08:10AM UTC coverage: 13.568% (-0.3%) from 13.87%

Build # 17852532121

Build Type

push

github

Committed by

tkuhn

Commit Message

feat: Switch to QueryRef provided by nanopub, using multimap

Run Details

428 of 4008 branches covered (10.68%)

Branch coverage included in aggregate %.

1104 of 7283 relevant lines covered (15.16%)

0.68 hits per line

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0.0

src/main/java/com/knowledgepixels/nanodash/page/ExplorePage.java

package com.knowledgepixels.nanodash.page;

import java.util.HashMap;
import java.util.Map;

import org.apache.wicket.markup.html.WebMarkupContainer;
import org.apache.wicket.markup.html.basic.Label;
import org.apache.wicket.markup.html.link.BookmarkablePageLink;
import org.apache.wicket.markup.html.link.ExternalLink;
import org.apache.wicket.request.flow.RedirectToUrlException;
import org.apache.wicket.request.mapper.parameter.PageParameters;
import org.commonjava.mimeparse.MIMEParse;
import org.nanopub.Nanopub;
import org.nanopub.extra.security.SignatureUtils;
import org.nanopub.extra.services.ApiResponse;
import org.nanopub.extra.services.QueryRef;
import org.nanopub.vocabulary.NTEMPLATE;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;

import com.google.common.collect.ArrayListMultimap;
import com.google.common.collect.Multimap;
import com.knowledgepixels.nanodash.GrlcQuery;
import com.knowledgepixels.nanodash.NanopubElement;
import com.knowledgepixels.nanodash.QueryApiAccess;
import com.knowledgepixels.nanodash.Utils;
import com.knowledgepixels.nanodash.component.ExploreDataTable;
import com.knowledgepixels.nanodash.component.IriItem;
import com.knowledgepixels.nanodash.component.NanopubItem;
import com.knowledgepixels.nanodash.component.StatusLine;
import com.knowledgepixels.nanodash.component.ThingListPanel;
import com.knowledgepixels.nanodash.component.TitleBar;

import jakarta.servlet.http.HttpServletRequest;
import net.trustyuri.TrustyUriUtils;

/**
 * ExplorePage is a page that allows users to explore a specific Nanopublication or Thing.
 */
public class ExplorePage extends NanodashPage {

    private static final Logger logger = LoggerFactory.getLogger(ExplorePage.class);

    /**
     * The mount path for this page.
     */
    public static final String MOUNT_PATH = "/explore";

    /**
     * {@inheritDoc}
     */
    @Override
    public String getMountPath() {
        return MOUNT_PATH;
    }

    /**
     * Constructor for ExplorePage.
     *
     * @param parameters Page parameters containing the ID of the Nanopublication or Thing to explore.
     */
    public ExplorePage(final PageParameters parameters) {
        super(parameters);

        add(new TitleBar("titlebar", this, null));

        String tempRef = parameters.get("id").toString();

        WebMarkupContainer raw = new WebMarkupContainer("raw");
        add(raw);

        Map<String, String> nanopubParams = new HashMap<>();
        nanopubParams.put("ref", tempRef);
        Nanopub np = Utils.getAsNanopub(tempRef);
        boolean isNanopubId = (np != null);
        if (isNanopubId) {
            tempRef = np.getUri().stringValue();
        }
        if (!isNanopubId && tempRef.matches("^(.*[^A-Za-z0-9-_])?RA[A-Za-z0-9-_]{43}[^A-Za-z0-9-_].*$")) {
            np = Utils.getAsNanopub(tempRef.replaceFirst("^(.*[^A-Za-z0-9-_])?(RA[A-Za-z0-9-_]{43})[^A-Za-z0-9-_].*$", "$2"));
            if (np != null) {
                String npId = np.getUri().stringValue();
                tempRef = npId + tempRef.replaceFirst("^(.*[^A-Za-z0-9-_])?(RA[A-Za-z0-9-_]{43})([^A-Za-z0-9-_].*)$", "$3");
                Multimap<String, String> params = ArrayListMultimap.create();
                params.put("thing", tempRef);
                params.put("np", npId);
                ApiResponse resp = QueryApiAccess.forcedGet(new QueryRef("get-latest-thing-nanopub", params));
                if (!resp.getData().isEmpty()) {
                    // TODO We take the most recent in case more than one latest version exists. Make other latest versions visible too.
                    npId = resp.getData().get(0).get("latestVersion");
                }
                np = Utils.getAsNanopub(npId);
            }
        }
        if (np == null) {
            raw.setVisible(false);
            add(new Label("nanopub-header", ""));
            add(new Label("nanopub", ""));
            add(new WebMarkupContainer("use-template").setVisible(false));
            add(new WebMarkupContainer("run-query").setVisible(false));
        } else {

            // Check whether we should redirect to Nanopub Registry for machine-friendly formats:
            String mimeType = Utils.TYPE_HTML;
            try {
                HttpServletRequest httpRequest = (HttpServletRequest) getRequest().getContainerRequest();
                mimeType = MIMEParse.bestMatch(Utils.SUPPORTED_TYPES_LIST, httpRequest.getHeader("Accept"));
            } catch (Exception ex) {
                logger.error("Error determining MIME type from Accept header.", ex);
            }
            if (!mimeType.equals(Utils.TYPE_HTML)) {
                logger.info("Non-HTML content type: {}", mimeType);
                // TODO Make this registry URL configurable/dynamic:
                String redirectUrl = Utils.getMainRegistryUrl() + "np/" + TrustyUriUtils.getArtifactCode(np.getUri().stringValue());
                logger.info("Redirecting to: {}", redirectUrl);
                throw new RedirectToUrlException(redirectUrl, 302);
            }

            String nanopubHeaderLabel = "<h4>%s</h4>";
            if (isNanopubId) {
                nanopubHeaderLabel = String.format(nanopubHeaderLabel, "Nanopublication");
            } else {
                nanopubHeaderLabel = String.format(nanopubHeaderLabel, "Minted in Nanopublication");
            }
            add(new Label("nanopub-header", nanopubHeaderLabel).setEscapeModelStrings(false));
            add(new NanopubItem("nanopub", NanopubElement.get(np)));
            String url = Utils.getMainRegistryUrl() + "np/" + TrustyUriUtils.getArtifactCode(np.getUri().stringValue());
            raw.add(new ExternalLink("trig-txt", url + ".trig.txt"));
            raw.add(new ExternalLink("jsonld-txt", url + ".jsonld.txt"));
            raw.add(new ExternalLink("nq-txt", url + ".nq.txt"));
            raw.add(new ExternalLink("xml-txt", url + ".xml.txt"));
            raw.add(new ExternalLink("trig", url + ".trig"));
            raw.add(new ExternalLink("jsonld", url + ".jsonld"));
            raw.add(new ExternalLink("nq", url + ".nq"));
            raw.add(new ExternalLink("xml", url + ".xml"));
            if (Utils.isNanopubOfClass(np, NTEMPLATE.ASSERTION_TEMPLATE)) {
                add(new WebMarkupContainer("use-template").add(new BookmarkablePageLink<Void>("template-link", PublishPage.class, new PageParameters().add("template", np.getUri()))));
            } else {
                add(new WebMarkupContainer("use-template").setVisible(false));
            }
            if (Utils.isNanopubOfClass(np, GrlcQuery.GRLC_QUERY_CLASS)) {
                add(new WebMarkupContainer("run-query").add(new BookmarkablePageLink<Void>("query-link", QueryPage.class, new PageParameters().add("id", np.getUri()))));
            } else {
                add(new WebMarkupContainer("run-query").setVisible(false));
            }
        }

        final String ref = tempRef;
        final String shortName;
        if (parameters.get("label").isEmpty()) {
            shortName = IriItem.getShortNameFromURI(ref);
        } else {
            shortName = parameters.get("label").toString();
        }
        add(new Label("pagetitle", shortName + " (explore) | nanodash"));
        add(new Label("termname", shortName));
        add(new ExternalLink("urilink", ref, ref));
        if (isNanopubId && SignatureUtils.seemsToHaveSignature(np)) {
            add(StatusLine.createComponent("statusline", ref));
        } else {
            add(new Label("statusline").setVisible(false));
        }
        add(ThingListPanel.createComponent("classes-panel", ThingListPanel.Mode.CLASSES, ref, "<em>Searching for classes...</em>"));
        if (isNanopubId) {
            add(new Label("instances-panel").setVisible(false));
            add(new Label("parts-panel").setVisible(false));
            add(new Label("templates-panel").setVisible(false));
        } else {
            add(ThingListPanel.createComponent("instances-panel", ThingListPanel.Mode.INSTANCES, ref, "<em>Searching for instances...</em>"));
            add(ThingListPanel.createComponent("parts-panel", ThingListPanel.Mode.PARTS, ref, "<em>Searching for parts...</em>"));
            add(ThingListPanel.createComponent("templates-panel", ThingListPanel.Mode.TEMPLATES, ref, "<em>Searching for templates...</em>"));
        }
        add(ExploreDataTable.createComponent("reftable", ref));
    }

}

1	package com.knowledgepixels.nanodash.page;
2
3	import java.util.HashMap;
4	import java.util.Map;
5
6	import org.apache.wicket.markup.html.WebMarkupContainer;
7	import org.apache.wicket.markup.html.basic.Label;
8	import org.apache.wicket.markup.html.link.BookmarkablePageLink;
9	import org.apache.wicket.markup.html.link.ExternalLink;
10	import org.apache.wicket.request.flow.RedirectToUrlException;
11	import org.apache.wicket.request.mapper.parameter.PageParameters;
12	import org.commonjava.mimeparse.MIMEParse;
13	import org.nanopub.Nanopub;
14	import org.nanopub.extra.security.SignatureUtils;
15	import org.nanopub.extra.services.ApiResponse;
16	import org.nanopub.extra.services.QueryRef;
17	import org.nanopub.vocabulary.NTEMPLATE;
18	import org.slf4j.Logger;
19	import org.slf4j.LoggerFactory;
20
21	import com.google.common.collect.ArrayListMultimap;
22	import com.google.common.collect.Multimap;
23	import com.knowledgepixels.nanodash.GrlcQuery;
24	import com.knowledgepixels.nanodash.NanopubElement;
25	import com.knowledgepixels.nanodash.QueryApiAccess;
26	import com.knowledgepixels.nanodash.Utils;
27	import com.knowledgepixels.nanodash.component.ExploreDataTable;
28	import com.knowledgepixels.nanodash.component.IriItem;
29	import com.knowledgepixels.nanodash.component.NanopubItem;
30	import com.knowledgepixels.nanodash.component.StatusLine;
31	import com.knowledgepixels.nanodash.component.ThingListPanel;
32	import com.knowledgepixels.nanodash.component.TitleBar;
33
34	import jakarta.servlet.http.HttpServletRequest;
35	import net.trustyuri.TrustyUriUtils;
36
37	/**
38	* ExplorePage is a page that allows users to explore a specific Nanopublication or Thing.
39	*/
40	public class ExplorePage extends NanodashPage {
41
42	private static final Logger logger = LoggerFactory.getLogger(ExplorePage.class);	×
43
44	/**
45	* The mount path for this page.
46	*/
47	public static final String MOUNT_PATH = "/explore";
48
49	/**
50	* {@inheritDoc}
51	*/
52	@Override
53	public String getMountPath() {
54	return MOUNT_PATH;	×
55	}
56
57	/**
58	* Constructor for ExplorePage.
59	*
60	* @param parameters Page parameters containing the ID of the Nanopublication or Thing to explore.
61	*/
62	public ExplorePage(final PageParameters parameters) {
63	super(parameters);	×
64
65	add(new TitleBar("titlebar", this, null));	×
66
67	String tempRef = parameters.get("id").toString();	×
68
69	WebMarkupContainer raw = new WebMarkupContainer("raw");	×
70	add(raw);	×
71
72	Map<String, String> nanopubParams = new HashMap<>();	×
73	nanopubParams.put("ref", tempRef);	×
74	Nanopub np = Utils.getAsNanopub(tempRef);	×
75	boolean isNanopubId = (np != null);	×
76	if (isNanopubId) {	×
77	tempRef = np.getUri().stringValue();	×
78	}
79	if (!isNanopubId && tempRef.matches("^(.[^A-Za-z0-9-_])?RA[A-Za-z0-9-_]{43}[^A-Za-z0-9-_].$")) {	×
80	np = Utils.getAsNanopub(tempRef.replaceFirst("^(.[^A-Za-z0-9-_])?(RA[A-Za-z0-9-_]{43})[^A-Za-z0-9-_].$", "$2"));	×
81	if (np != null) {	×
82	String npId = np.getUri().stringValue();	×
83	tempRef = npId + tempRef.replaceFirst("^(.[^A-Za-z0-9-_])?(RA[A-Za-z0-9-_]{43})([^A-Za-z0-9-_].)$", "$3");	×
84	Multimap<String, String> params = ArrayListMultimap.create();	×
85	params.put("thing", tempRef);	×
86	params.put("np", npId);	×
87	ApiResponse resp = QueryApiAccess.forcedGet(new QueryRef("get-latest-thing-nanopub", params));	×
88	if (!resp.getData().isEmpty()) {	×
89	// TODO We take the most recent in case more than one latest version exists. Make other latest versions visible too.
90	npId = resp.getData().get(0).get("latestVersion");	×
91	}
92	np = Utils.getAsNanopub(npId);	×
93	}
94	}
95	if (np == null) {	×
96	raw.setVisible(false);	×
97	add(new Label("nanopub-header", ""));	×
98	add(new Label("nanopub", ""));	×
99	add(new WebMarkupContainer("use-template").setVisible(false));	×
100	add(new WebMarkupContainer("run-query").setVisible(false));	×
101	} else {
102
103	// Check whether we should redirect to Nanopub Registry for machine-friendly formats:
104	String mimeType = Utils.TYPE_HTML;	×
105	try {
106	HttpServletRequest httpRequest = (HttpServletRequest) getRequest().getContainerRequest();	×
107	mimeType = MIMEParse.bestMatch(Utils.SUPPORTED_TYPES_LIST, httpRequest.getHeader("Accept"));	×
108	} catch (Exception ex) {	×
109	logger.error("Error determining MIME type from Accept header.", ex);	×
110	}	×
111	if (!mimeType.equals(Utils.TYPE_HTML)) {	×
112	logger.info("Non-HTML content type: {}", mimeType);	×
113	// TODO Make this registry URL configurable/dynamic:
114	String redirectUrl = Utils.getMainRegistryUrl() + "np/" + TrustyUriUtils.getArtifactCode(np.getUri().stringValue());	×
115	logger.info("Redirecting to: {}", redirectUrl);	×
116	throw new RedirectToUrlException(redirectUrl, 302);	×
117	}
118
119	String nanopubHeaderLabel = "<h4>%s</h4>";	×
120	if (isNanopubId) {	×
121	nanopubHeaderLabel = String.format(nanopubHeaderLabel, "Nanopublication");	×
122	} else {
123	nanopubHeaderLabel = String.format(nanopubHeaderLabel, "Minted in Nanopublication");	×
124	}
125	add(new Label("nanopub-header", nanopubHeaderLabel).setEscapeModelStrings(false));	×
126	add(new NanopubItem("nanopub", NanopubElement.get(np)));	×
127	String url = Utils.getMainRegistryUrl() + "np/" + TrustyUriUtils.getArtifactCode(np.getUri().stringValue());	×
128	raw.add(new ExternalLink("trig-txt", url + ".trig.txt"));	×
129	raw.add(new ExternalLink("jsonld-txt", url + ".jsonld.txt"));	×
130	raw.add(new ExternalLink("nq-txt", url + ".nq.txt"));	×
131	raw.add(new ExternalLink("xml-txt", url + ".xml.txt"));	×
132	raw.add(new ExternalLink("trig", url + ".trig"));	×
133	raw.add(new ExternalLink("jsonld", url + ".jsonld"));	×
134	raw.add(new ExternalLink("nq", url + ".nq"));	×
135	raw.add(new ExternalLink("xml", url + ".xml"));	×
136	if (Utils.isNanopubOfClass(np, NTEMPLATE.ASSERTION_TEMPLATE)) {	×
137	add(new WebMarkupContainer("use-template").add(new BookmarkablePageLink<Void>("template-link", PublishPage.class, new PageParameters().add("template", np.getUri()))));	×
138	} else {
139	add(new WebMarkupContainer("use-template").setVisible(false));	×
140	}
141	if (Utils.isNanopubOfClass(np, GrlcQuery.GRLC_QUERY_CLASS)) {	×
142	add(new WebMarkupContainer("run-query").add(new BookmarkablePageLink<Void>("query-link", QueryPage.class, new PageParameters().add("id", np.getUri()))));	×
143	} else {
144	add(new WebMarkupContainer("run-query").setVisible(false));	×
145	}
146	}
147
148	final String ref = tempRef;	×
149	final String shortName;
150	if (parameters.get("label").isEmpty()) {	×
151	shortName = IriItem.getShortNameFromURI(ref);	×
152	} else {
153	shortName = parameters.get("label").toString();	×
154	}
155	add(new Label("pagetitle", shortName + " (explore) \| nanodash"));	×
156	add(new Label("termname", shortName));	×
157	add(new ExternalLink("urilink", ref, ref));	×
158	if (isNanopubId && SignatureUtils.seemsToHaveSignature(np)) {	×
159	add(StatusLine.createComponent("statusline", ref));	×
160	} else {
161	add(new Label("statusline").setVisible(false));	×
162	}
163	add(ThingListPanel.createComponent("classes-panel", ThingListPanel.Mode.CLASSES, ref, "<em>Searching for classes...</em>"));	×
164	if (isNanopubId) {	×
165	add(new Label("instances-panel").setVisible(false));	×
166	add(new Label("parts-panel").setVisible(false));	×
167	add(new Label("templates-panel").setVisible(false));	×
168	} else {
169	add(ThingListPanel.createComponent("instances-panel", ThingListPanel.Mode.INSTANCES, ref, "<em>Searching for instances...</em>"));	×
170	add(ThingListPanel.createComponent("parts-panel", ThingListPanel.Mode.PARTS, ref, "<em>Searching for parts...</em>"));	×
171	add(ThingListPanel.createComponent("templates-panel", ThingListPanel.Mode.TEMPLATES, ref, "<em>Searching for templates...</em>"));	×
172	}
173	add(ExploreDataTable.createComponent("reftable", ref));	×
174	}	×
175
176	}

knowledgepixels / nanodash / 17852532121

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