26455055595

Committed 26 May 2026 02:38PM UTC coverage: 20.427% (-0.3%) from 20.748%

Build # 26455055595

Build Type

Pull #468

github

Committed by

web-flow

Commit Message

Merge 0354b3eb9 into 65b0c8452

Pull Request Pull Request #468: Source space data from nanopub-query spaces repo

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65.22

src/main/java/com/knowledgepixels/nanodash/repository/SpaceRepository.java

package com.knowledgepixels.nanodash.repository;

import com.github.jsonldjava.shaded.com.google.common.collect.Ordering;
import com.knowledgepixels.nanodash.ApiCache;
import com.knowledgepixels.nanodash.QueryApiAccess;
import com.knowledgepixels.nanodash.domain.Space;
import com.knowledgepixels.nanodash.domain.SpaceFactory;
import org.nanopub.extra.services.ApiResponseEntry;
import org.nanopub.extra.services.QueryRef;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;

import java.util.*;

/**
 * Repository class for managing Space instances, providing methods to refresh, retrieve, and query spaces based on API responses.
 */
public class SpaceRepository {

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

    private static final SpaceRepository INSTANCE = new SpaceRepository();

    /**
     * Get the singleton instance of SpaceRepository.
     *
     * @return The singleton instance of SpaceRepository.
     */
    public static SpaceRepository get() {
        return INSTANCE;
    }

    private volatile List<Space> spaceList;
    private Map<String, List<Space>> spaceListByType;
    private Map<String, Space> spacesById;
    private Map<String, Space> spacesByAltId;
    private Map<Space, Set<Space>> subspaceMap;
    private Map<Space, Set<Space>> superspaceMap;
    private boolean loaded = false;
    private volatile Long runRootUpdateAfter = null;
    private volatile long lastRefreshTime = 0;

    private final Object loadLock = new Object();

    private SpaceRepository() {
    }

    /**
     * Refresh the list of spaces from the spaces repo. Pulls the latest
     * non-invalidated SpaceDefinition per Space IRI from {@code npa:spacesGraph}
     * and joins to the declaring nanopub for label and type.
     * <p>
     * The {@code get-spaces} query returns one row per (SpaceRef, SpaceDefinition)
     * — many spaces have multiple contributing nanopubs (root + updates) and even
     * multiple SpaceRefs during the rootless transition phase. The query orders by
     * {@code DESC(?date)}, so dedup'ing by spaceIri here (first row wins) picks the
     * latest update per space.
     */
    public synchronized void refresh() {
        List<Space> newSpaceList = new ArrayList<>();
        Map<String, List<Space>> newSpaceListByType = new HashMap<>();
        Map<String, Space> newSpacesById = new HashMap<>();
        Map<String, Space> newSpacesByAltId = new HashMap<>();
        Map<Space, Set<Space>> newSubspaceMap = new HashMap<>();
        Map<Space, Set<Space>> newSuperspaceMap = new HashMap<>();
        Set<String> seen = new HashSet<>();
        for (ApiResponseEntry r : ApiCache.retrieveResponseSync(new QueryRef(QueryApiAccess.GET_SPACES), true).getData()) {
            String spaceIri = r.get("spaceIri");
            if (spaceIri == null || spaceIri.isEmpty()) continue;
            if (!seen.add(spaceIri)) continue; // first row (latest date) wins
            ApiResponseEntry entry = new ApiResponseEntry();
            entry.add("space", spaceIri);
            entry.add("np", r.get("np"));
            entry.add("label", r.get("label"));
            entry.add("type", r.get("type"));
            Space space = SpaceFactory.getOrCreate(entry);
            newSpaceList.add(space);
            newSpaceListByType.computeIfAbsent(space.getType(), k -> new ArrayList<>()).add(space);
            newSpacesById.put(space.getId(), space);
            for (String altId : space.getAltIDs()) {
                newSpacesByAltId.put(altId, space);
            }
        }
        logger.info("Refreshed spaces from spaces repo: {} distinct spaces", newSpaceList.size());
        SpaceFactory.removeStale(newSpacesById.keySet());
        populateSubspaceRelations(newSpacesById, newSubspaceMap, newSuperspaceMap);
        for (Space space : newSpaceList) {
            space.setDataNeedsUpdate();
        }
        spacesById = newSpacesById;
        spacesByAltId = newSpacesByAltId;
        spaceListByType = newSpaceListByType;
        subspaceMap = newSubspaceMap;
        superspaceMap = newSuperspaceMap;
        loaded = true;
        lastRefreshTime = System.currentTimeMillis();
        spaceList = newSpaceList; // volatile write last — establishes happens-before for all above
    }

    /**
     * Force a refresh of the root spaces after a specified delay, allowing for any ongoing updates to complete before the next refresh.
     *
     * @param waitMillis The number of milliseconds to wait before allowing the next refresh to occur.
     */
    public void forceRootRefresh(long waitMillis) {
        spaceList = null;
        runRootUpdateAfter = System.currentTimeMillis() + waitMillis;
    }

    /**
     * Ensure that the spaces are loaded, fetching them from the API if necessary.
     */
    public void ensureLoaded() {
        if (spaceList == null) {
            try {
                synchronized (loadLock) {
                    if (runRootUpdateAfter != null) {
                        while (System.currentTimeMillis() < runRootUpdateAfter) {
                            Thread.sleep(100);
                        }
                        runRootUpdateAfter = null;
                    }
                }
            } catch (InterruptedException ex) {
                logger.error("Interrupted", ex);
            }
            if (spaceList == null) { // double-check after potential wait
                refresh();
            }
        } else if (System.currentTimeMillis() - lastRefreshTime > 60_000) {
            refresh();
        }
    }

    /**
     * Get a space by its id.
     *
     * @param id The id of the space.
     * @return The corresponding Space object, or null if not found.
     */
    public Space findById(String id) {
        ensureLoaded();
        return spacesById.get(id);
    }

    /**
     * Get a space by one of its alternative IDs.
     *
     * @param altId The alternative ID of the space.
     * @return The corresponding Space object, or null if not found.
     */
    public Space findByAltId(String altId) {
        ensureLoaded();
        return spacesByAltId.get(altId);
    }

    /**
     * Get spaces by their type.
     *
     * @param type The type of spaces to retrieve.
     * @return List of Space objects matching the specified type, or an empty list if none are found.
     */
    public List<Space> findByType(String type) {
        ensureLoaded();
        return spaceListByType.computeIfAbsent(type, k -> new ArrayList<>());
    }

    /**
     * Get subspaces of a given space.
     *
     * @param space The space for which to find subspaces.
     * @return List of subspaces.
     */
    public List<Space> findSubspaces(Space space) {
        if (subspaceMap.containsKey(space)) {
            List<Space> subspaces = new ArrayList<>(subspaceMap.get(space));
            subspaces.sort(Ordering.usingToString());
            return subspaces;
        }
        return new ArrayList<>();
    }

    /**
     * Get subspaces of a given space that match a specific type.
     *
     * @param space The space for which to find subspaces.
     * @param type  The type of subspaces to filter by.
     * @return List of subspaces matching the specified type.
     */
    public List<Space> findSubspaces(Space space, String type) {
        List<Space> l = new ArrayList<>();
        for (Space s : findSubspaces(space)) {
            if (s.getType().equals(type)) l.add(s);
        }
        return l;
    }

    /**
     * Get superspaces of this space.
     *
     * @return List of superspaces.
     */
    public List<Space> findSuperspaces(Space space) {
        if (superspaceMap.containsKey(space)) {
            List<Space> superspaces = new ArrayList<>(superspaceMap.get(space));
            superspaces.sort(Ordering.usingToString());
            return superspaces;
        }
        return new ArrayList<>();
    }

    /**
     * Refresh the spaces and mark each as needing a downstream data update.
     */
    public void refreshAndInvalidate() {
        refresh();
        for (Space space : spaceList) {
            space.setDataNeedsUpdate();
        }
    }

    private static void populateSubspaceRelations(
            Map<String, Space> spacesById,
            Map<Space, Set<Space>> subspaceMap,
            Map<Space, Set<Space>> superspaceMap) {
        for (ApiResponseEntry r : ApiCache.retrieveResponseSync(new QueryRef(QueryApiAccess.GET_SUB_SPACE_LINKS), true).getData()) {
            Space child = spacesById.get(r.get("child"));
            Space parent = spacesById.get(r.get("parent"));
            if (child == null || parent == null) continue;
            subspaceMap.computeIfAbsent(parent, k -> new HashSet<>()).add(child);
            superspaceMap.computeIfAbsent(child, k -> new HashSet<>()).add(parent);
        }
    }

}

1	package com.knowledgepixels.nanodash.repository;
2
3	import com.github.jsonldjava.shaded.com.google.common.collect.Ordering;
4	import com.knowledgepixels.nanodash.ApiCache;
5	import com.knowledgepixels.nanodash.QueryApiAccess;
6	import com.knowledgepixels.nanodash.domain.Space;
7	import com.knowledgepixels.nanodash.domain.SpaceFactory;
8	import org.nanopub.extra.services.ApiResponseEntry;
9	import org.nanopub.extra.services.QueryRef;
10	import org.slf4j.Logger;
11	import org.slf4j.LoggerFactory;
12
13	import java.util.*;
14
15	/**
16	* Repository class for managing Space instances, providing methods to refresh, retrieve, and query spaces based on API responses.
17	*/
18	public class SpaceRepository {
19
20	private static final Logger logger = LoggerFactory.getLogger(SpaceRepository.class);	9✔
21
22	private static final SpaceRepository INSTANCE = new SpaceRepository();	15✔
23
24	/**
25	* Get the singleton instance of SpaceRepository.
26	*
27	* @return The singleton instance of SpaceRepository.
28	*/
29	public static SpaceRepository get() {
30	return INSTANCE;	6✔
31	}
32
33	private volatile List<Space> spaceList;
34	private Map<String, List<Space>> spaceListByType;
35	private Map<String, Space> spacesById;
36	private Map<String, Space> spacesByAltId;
37	private Map<Space, Set<Space>> subspaceMap;
38	private Map<Space, Set<Space>> superspaceMap;
39	private boolean loaded = false;	9✔
40	private volatile Long runRootUpdateAfter = null;	9✔
41	private volatile long lastRefreshTime = 0;	9✔
42
43	private final Object loadLock = new Object();	15✔
44
45	private SpaceRepository() {	6✔
46	}	3✔
47
48	/**
49	* Refresh the list of spaces from the spaces repo. Pulls the latest
50	* non-invalidated SpaceDefinition per Space IRI from {@code npa:spacesGraph}
51	* and joins to the declaring nanopub for label and type.
52	* <p>
53	* The {@code get-spaces} query returns one row per (SpaceRef, SpaceDefinition)
54	* — many spaces have multiple contributing nanopubs (root + updates) and even
55	* multiple SpaceRefs during the rootless transition phase. The query orders by
56	* {@code DESC(?date)}, so dedup'ing by spaceIri here (first row wins) picks the
57	* latest update per space.
58	*/
59	public synchronized void refresh() {
60	List<Space> newSpaceList = new ArrayList<>();	12✔
61	Map<String, List<Space>> newSpaceListByType = new HashMap<>();	12✔
62	Map<String, Space> newSpacesById = new HashMap<>();	12✔
63	Map<String, Space> newSpacesByAltId = new HashMap<>();	12✔
64	Map<Space, Set<Space>> newSubspaceMap = new HashMap<>();	12✔
65	Map<Space, Set<Space>> newSuperspaceMap = new HashMap<>();	12✔
66	Set<String> seen = new HashSet<>();	12✔
67	for (ApiResponseEntry r : ApiCache.retrieveResponseSync(new QueryRef(QueryApiAccess.GET_SPACES), true).getData()) {	48✔
68	String spaceIri = r.get("spaceIri");	12✔
69	if (spaceIri == null \|\| spaceIri.isEmpty()) continue;	15!
70	if (!seen.add(spaceIri)) continue; // first row (latest date) wins	15✔
71	ApiResponseEntry entry = new ApiResponseEntry();	12✔
72	entry.add("space", spaceIri);	12✔
73	entry.add("np", r.get("np"));	18✔
74	entry.add("label", r.get("label"));	18✔
75	entry.add("type", r.get("type"));	18✔
76	Space space = SpaceFactory.getOrCreate(entry);	9✔
77	newSpaceList.add(space);	12✔
78	newSpaceListByType.computeIfAbsent(space.getType(), k -> new ArrayList<>()).add(space);	39✔
79	newSpacesById.put(space.getId(), space);	18✔
80	for (String altId : space.getAltIDs()) {	33✔
81	newSpacesByAltId.put(altId, space);	15✔
82	}	3✔
83	}	3✔
84	logger.info("Refreshed spaces from spaces repo: {} distinct spaces", newSpaceList.size());	18✔
85	SpaceFactory.removeStale(newSpacesById.keySet());	9✔
86	populateSubspaceRelations(newSpacesById, newSubspaceMap, newSuperspaceMap);	12✔
87	for (Space space : newSpaceList) {	30✔
88	space.setDataNeedsUpdate();	6✔
89	}	3✔
90	spacesById = newSpacesById;	9✔
91	spacesByAltId = newSpacesByAltId;	9✔
92	spaceListByType = newSpaceListByType;	9✔
93	subspaceMap = newSubspaceMap;	9✔
94	superspaceMap = newSuperspaceMap;	9✔
95	loaded = true;	9✔
96	lastRefreshTime = System.currentTimeMillis();	9✔
97	spaceList = newSpaceList; // volatile write last — establishes happens-before for all above	9✔
98	}	3✔
99
100	/**
101	* Force a refresh of the root spaces after a specified delay, allowing for any ongoing updates to complete before the next refresh.
102	*
103	* @param waitMillis The number of milliseconds to wait before allowing the next refresh to occur.
104	*/
105	public void forceRootRefresh(long waitMillis) {
106	spaceList = null;	×
107	runRootUpdateAfter = System.currentTimeMillis() + waitMillis;	×
108	}	×
109
110	/**
111	* Ensure that the spaces are loaded, fetching them from the API if necessary.
112	*/
113	public void ensureLoaded() {
114	if (spaceList == null) {	9✔
115	try {
116	synchronized (loadLock) {	15✔
117	if (runRootUpdateAfter != null) {	9!
118	while (System.currentTimeMillis() < runRootUpdateAfter) {	×
119	Thread.sleep(100);	×
120	}
121	runRootUpdateAfter = null;	×
122	}
123	}	9✔
124	} catch (InterruptedException ex) {	×
125	logger.error("Interrupted", ex);	×
126	}	3✔
127	if (spaceList == null) { // double-check after potential wait	9!
128	refresh();	9✔
129	}
130	} else if (System.currentTimeMillis() - lastRefreshTime > 60_000) {	21!
131	refresh();	×
132	}
133	}	3✔
134
135	/**
136	* Get a space by its id.
137	*
138	* @param id The id of the space.
139	* @return The corresponding Space object, or null if not found.
140	*/
141	public Space findById(String id) {
142	ensureLoaded();	6✔
143	return spacesById.get(id);	18✔
144	}
145
146	/**
147	* Get a space by one of its alternative IDs.
148	*
149	* @param altId The alternative ID of the space.
150	* @return The corresponding Space object, or null if not found.
151	*/
152	public Space findByAltId(String altId) {
153	ensureLoaded();	6✔
154	return spacesByAltId.get(altId);	18✔
155	}
156
157	/**
158	* Get spaces by their type.
159	*
160	* @param type The type of spaces to retrieve.
161	* @return List of Space objects matching the specified type, or an empty list if none are found.
162	*/
163	public List<Space> findByType(String type) {
164	ensureLoaded();	×
165	return spaceListByType.computeIfAbsent(type, k -> new ArrayList<>());	×
166	}
167
168	/**
169	* Get subspaces of a given space.
170	*
171	* @param space The space for which to find subspaces.
172	* @return List of subspaces.
173	*/
174	public List<Space> findSubspaces(Space space) {
175	if (subspaceMap.containsKey(space)) {	×
176	List<Space> subspaces = new ArrayList<>(subspaceMap.get(space));	×
177	subspaces.sort(Ordering.usingToString());	×
178	return subspaces;	×
179	}
180	return new ArrayList<>();	×
181	}
182
183	/**
184	* Get subspaces of a given space that match a specific type.
185	*
186	* @param space The space for which to find subspaces.
187	* @param type The type of subspaces to filter by.
188	* @return List of subspaces matching the specified type.
189	*/
190	public List<Space> findSubspaces(Space space, String type) {
191	List<Space> l = new ArrayList<>();	×
192	for (Space s : findSubspaces(space)) {	×
193	if (s.getType().equals(type)) l.add(s);	×
194	}	×
195	return l;	×
196	}
197
198	/**
199	* Get superspaces of this space.
200	*
201	* @return List of superspaces.
202	*/
203	public List<Space> findSuperspaces(Space space) {
204	if (superspaceMap.containsKey(space)) {	×
205	List<Space> superspaces = new ArrayList<>(superspaceMap.get(space));	×
206	superspaces.sort(Ordering.usingToString());	×
207	return superspaces;	×
208	}
209	return new ArrayList<>();	×
210	}
211
212	/**
213	* Refresh the spaces and mark each as needing a downstream data update.
214	*/
215	public void refreshAndInvalidate() {
216	refresh();	×
217	for (Space space : spaceList) {	×
218	space.setDataNeedsUpdate();	×
219	}	×
220	}	×
221
222	private static void populateSubspaceRelations(
223	Map<String, Space> spacesById,
224	Map<Space, Set<Space>> subspaceMap,
225	Map<Space, Set<Space>> superspaceMap) {
226	for (ApiResponseEntry r : ApiCache.retrieveResponseSync(new QueryRef(QueryApiAccess.GET_SUB_SPACE_LINKS), true).getData()) {	48✔
227	Space child = spacesById.get(r.get("child"));	21✔
228	Space parent = spacesById.get(r.get("parent"));	21✔
229	if (child == null \|\| parent == null) continue;	15✔
230	subspaceMap.computeIfAbsent(parent, k -> new HashSet<>()).add(child);	36✔
231	superspaceMap.computeIfAbsent(child, k -> new HashSet<>()).add(parent);	36✔
232	}	3✔
233	}	3✔
234
235	}

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