17375037963

Committed 01 Sep 2025 10:33AM UTC coverage: 11.982% (-0.04%) from 12.02%

Build # 17375037963

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push

github

Committed by

tkuhn

Commit Message

Merge branch 'master' of github.com:knowledgepixels/nanodash

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src/main/java/com/knowledgepixels/nanodash/QueryApiAccess.java

package com.knowledgepixels.nanodash;

import org.apache.commons.lang3.tuple.Pair;
import org.eclipse.rdf4j.model.IRI;
import org.nanopub.extra.services.ApiResponse;
import org.nanopub.extra.services.FailedApiCallException;
import org.nanopub.extra.services.QueryAccess;

import java.util.HashMap;
import java.util.Map;
import java.util.concurrent.ConcurrentHashMap;
import java.util.concurrent.ConcurrentMap;

/**
 * Utility class for accessing and managing API queries.
 * Provides methods to retrieve query results, manage query IDs, and fetch the latest versions of nanopublications.
 */
public class QueryApiAccess {

    private QueryApiAccess() {
    }  // no instances allowed

    private static ConcurrentMap<String,String> queryIds = new ConcurrentHashMap<>();

    private static ConcurrentMap<String,Pair<Long,String>> latestVersionMap = new ConcurrentHashMap<>();

    private static final String queryIriPattern = "^(.*[^A-Za-z0-9-_])(RA[A-Za-z0-9-_]{43})[/#]([^/#]+)$";

    static {
        // TODO Load this dynamically somehow at some point:
        load("RAe-oA5eSmkCXCALZ99-0k4imnlI74KPqURfhHOmnzo6A/get-latest-nanopubs-from-pubkeys");
        load("RAuy4N1h4vZ1wgBUMvTiWw2y_Y0_5oFYRTwdq-xj2qqNM/get-latest-nanopubs-from-userid");
        load("RAZbyFSenuKSRMLGlRfrbeu6vQ6g2IEECYZ2zSGcIBIhQ/get-accepted-nanopubs-by-author");
        load("RAiCBvPL2hRGzI8g5L68O-C9yEXryC_vG35GdEm5jtH_s/get-user-stats-from-pubkeys");  // Deactivated for now...
        load("RA3U23LL3xbNwsu92fAqsKb0kagOud4f9TlRQq3evNJck/get-user-stats-from-userid");  // Deactivated for now...
        load("RAcNvmEiUNUb2a7O4fwRvy2x2BCN640AC880fTzFworr8/get-top-creators-last30d");
        load("RAmhy4KQe6I80bA2Da4JziYyKBoXuXIzqo57GDSVgLfDg/get-top-authors");
        load("RA7oUCHG8TEjVQpGTUN5sfu3_IQmza3aSBSCxfJdBc3Rs/get-most-recent-nanopubs");
        load("RA52cg2OzJucmpCb7KSKTgfPV5HKIjsFcmww_rxb7v5zU/get-latest-accepted");
        load("RAPGhXDRzeGu-Qk0AkjleEtxMxqAvJ-dZn7985gzAbyhs/get-publisher-version");
        load("RAvL7pe2ppsfq4mVWTdJjssYGsjrmliNd_sZO2ytLvg1Y/get-most-used-templates-last30d");
        load("RANn4Mu8r8bqJA9KJMGXTQAEGAEvtNKGFsuhRIC6BRIOo/get-latest-nanopubs-by-type");
        load("RAiRsB2YywxjsBMkVRTREJBooXhf2ZOHoUs5lxciEl37I/get-latest-version-of-np");
        load("RA0aZxyh_I0rCJyBepXOWC2tGdI5YYHORFCC-qBR8xHZA/get-all-user-intros");
        load("RA-tlMmQA7iT2wR2aS3PlONrepX7vdXbkzeWluea7AECg/get-suggested-templates-to-get-started");
        load("RAtIndAeo8zYnEvTjFRaHD2AlenvkJHlw6P52JWR_l5dQ/get-type-overview-last-12-months");
        load("RAn3agwsH2yk-8132RJApGYxdPSHHCXDAIYiCaSBBo6tg/get-approved-nanopubs");
        load("RAz1ogtMxSTKSOYwHAfD5M3Y-vd1vd46OZta_vvbqh8kY/find-uri-references");
        load("RAE35dYJQlpnqim7VeKuu07E9I1LQUZpkdYQR4RvU3KMU/get-nanopubs-by-type");
        load("RALZXWg5lZoJoQ0VHL5mpDgNxYpqU6FoDLWGp4rs8A6b8/get-introducing-nanopub");
        load("RAWruhiSmyzgZhVRs8QY8YQPAgHzTfl7anxII1de-yaCs/fulltext-search-on-labels");
        load("RAVEmFh3d6qonTFQ5S9SVqXZh0prrH1YLhSSs0dJvyvpM/find-things");
        load("RAjt1H9rCSr6A9VGzlhye00zPdH69JdGc3kd_2VjDmzVg/get-instances");
        load("RAH06iUwnvj_pRARY15ayJAY5tuJau3rCvHhPPhe49fVI/get-classes-for-thing");
        load("RAJStXEm1wZcg34ZLPqe00VPSzIVCwC2rrxdj_JR8v5DY/find-referencing-nanopubs");  // not yet used...
        load("RAtftxAXJubB4rlm9fOvvHNVIkXvWQLC6Ag_MiV7HL0ow/get-labels-for-thing");  // not yet used...
        load("RARtWHRzNY5hh31X2VB5eOCJAdp9Cjv4CakA0Idqz69MI/get-templates-with-uri");
        load("RAWH0fe1RCpoOgaJE1B2qfTzzdTiBUUK7iIk6l7Zll9mg/get-newer-versions-of-np");
        load("RAQqjXQYlxYQeI4Y3UQy9OrD5Jx1E3PJ8KwKKQlWbiYSw/get-queries");
        load("RAzXDzCHoZmJITgYYquLwDDkSyNf3eKKQz9NfQPYB1cyE/get-latest-thing-nanopub");
        load("RAnpimW7SPwaum2fefdS6_jpzYxcTRGjE-pmgNTL_BBJU/get-projects");
        load("RAJmZoM0xCGE8OL6EgmQBOd1M58ggNkwZ0IUqHOAPRfvE/get-parts");
        load("RA6bgrU3Ezfg5VAiLru0BFYHaSj6vZU6jJTscxNl8Wqvc/get-assertion-templates");
        load("RA4bt3MQRnEPC2nSsdbCJc74wT-e1w68dSCpYVyvG0274/get-provenance-templates");
        load("RAMcdiJpvvk8424AJIH1jsDUQVcPYOLRw0DNnZt_ND_LQ/get-pubinfo-templates");
    }

    /**
     * Loads a query ID into the queryIds map.
     *
     * @param queryId The query ID to load.
     */
    static void load(String queryId) {
        queryIds.put(queryId.substring(46), queryId);
    }

    /**
     * Forces the retrieval of an API response for a given query name and parameters.
     * Retries until a valid response is received.
     *
     * @param queryName The name of the query.
     * @return The API response.
     */
    public static ApiResponse forcedGet(String queryName) {
        return forcedGet(queryName, new HashMap<>());
    }

    /**
     * Forces the retrieval of an API response for a given query name and parameters.
     * Retries until a valid response is received.
     *
     * @param queryName The name of the query.
     * @param params    The parameters for the query.
     * @return The API response.
     */
    public static ApiResponse forcedGet(String queryName, Map<String, String> params) {
        while (true) {
            ApiResponse resp = null;
            try {
                resp = QueryApiAccess.get(queryName, params);
            } catch (Exception ex) {
                // TODO We should be more specific about which exceptions we catch here
                //      and generally improve this, as this could hang forever.
                ex.printStackTrace();
            }
            if (resp != null) return resp;
            try {
                Thread.sleep(100);
            } catch (InterruptedException ex) {
                ex.printStackTrace();
            }
        }
    }

    /**
     * Retrieves an API response for a given query name.
     *
     * @param queryName The name of the query.
     * @return The API response.
     * @throws org.nanopub.extra.services.FailedApiCallException If the API call fails.
     */
    public static ApiResponse get(String queryName) throws FailedApiCallException {
        return get(queryName, new HashMap<>());
    }

    /**
     * Retrieves an API response for a given query name and a single parameter.
     *
     * @param queryName  The name of the query.
     * @param paramKey   The key of the parameter.
     * @param paramValue The value of the parameter.
     * @return The API response.
     * @throws org.nanopub.extra.services.FailedApiCallException If the API call fails.
     */
    public static ApiResponse get(String queryName, String paramKey, String paramValue) throws FailedApiCallException {
        Map<String, String> params = new HashMap<>();
        params.put(paramKey, paramValue);
        return get(queryName, params);
    }

    /**
     * Retrieves an API response for a given query name and parameters.
     *
     * @param queryName The name of the query.
     * @param params    The parameters for the query.
     * @return The API response.
     * @throws org.nanopub.extra.services.FailedApiCallException If the API call fails.
     */
    public static ApiResponse get(String queryName, Map<String, String> params) throws FailedApiCallException {
        String queryId;
        if (queryName.matches("^RA[A-Za-z0-9-_]{43}/.*$")) {
            queryId = queryName;
        } else if (queryIds.containsKey(queryName)) {
            queryId = queryIds.get(queryName);
        } else {
            throw new IllegalArgumentException("Query name not known: " + queryName);
        }
        return QueryAccess.get(queryId, params);
    }

    /**
     * Retrieves the latest version ID of a given nanopublication.
     *
     * @param nanopubId The ID of the nanopublication.
     * @return The latest version ID.
     */
    public static String getLatestVersionId(String nanopubId) {
        long currentTime = System.currentTimeMillis();
        if (!latestVersionMap.containsKey(nanopubId) || currentTime - latestVersionMap.get(nanopubId).getLeft() > 1000 * 60) {
            // Re-fetch if existing value is older than 1 minute
            Map<String, String> params = new HashMap<>();
            params.put("np", nanopubId);
            try {
                ApiResponse r = get("get-latest-version-of-np", params);
                if (r.getData().size() != 1) return nanopubId;
                String l = r.getData().get(0).get("latest");
                latestVersionMap.put(nanopubId, Pair.of(currentTime, l));
            } catch (Exception ex) {
                ex.printStackTrace();
                return nanopubId;
            }
        }
        return latestVersionMap.get(nanopubId).getRight();
    }

    /**
     * Extracts the query ID from a given query IRI.
     *
     * @param queryIri The query IRI.
     * @return The query ID, or null if the IRI is invalid.
     */
    public static String getQueryId(IRI queryIri) {
        if (queryIri == null) return null;
        if (!queryIri.stringValue().matches(queryIriPattern)) return null;
        return queryIri.stringValue().replaceFirst(queryIriPattern, "$2/$3");
    }

    /**
     * Retrieves the query ID for a given query name.
     *
     * @param queryName The name of the query.
     * @return The query ID, or null if the query name is unknown.
     */
    public static String getQueryId(String queryName) {
        return queryIds.get(queryName);
    }

    /**
     * Extracts the query name from a given query IRI.
     *
     * @param queryIri The query IRI.
     * @return The query name, or null if the IRI is invalid.
     */
    public static String getQueryName(IRI queryIri) {
        if (queryIri == null) return null;
        if (!queryIri.stringValue().matches(queryIriPattern)) return null;
        return queryIri.stringValue().replaceFirst(queryIriPattern, "$3");
    }

}

1	package com.knowledgepixels.nanodash;
2
3	import org.apache.commons.lang3.tuple.Pair;
4	import org.eclipse.rdf4j.model.IRI;
5	import org.nanopub.extra.services.ApiResponse;
6	import org.nanopub.extra.services.FailedApiCallException;
7	import org.nanopub.extra.services.QueryAccess;
8
9	import java.util.HashMap;
10	import java.util.Map;
11	import java.util.concurrent.ConcurrentHashMap;
12	import java.util.concurrent.ConcurrentMap;
13
14	/**
15	* Utility class for accessing and managing API queries.
16	* Provides methods to retrieve query results, manage query IDs, and fetch the latest versions of nanopublications.
17	*/
18	public class QueryApiAccess {
19
20	private QueryApiAccess() {
21	} // no instances allowed
22
23	private static ConcurrentMap<String,String> queryIds = new ConcurrentHashMap<>();	4✔
24
25	private static ConcurrentMap<String,Pair<Long,String>> latestVersionMap = new ConcurrentHashMap<>();	4✔
26
27	private static final String queryIriPattern = "^(.*[^A-Za-z0-9-_])(RA[A-Za-z0-9-_]{43})[/#]([^/#]+)$";
28
29	static {
30	// TODO Load this dynamically somehow at some point:
31	load("RAe-oA5eSmkCXCALZ99-0k4imnlI74KPqURfhHOmnzo6A/get-latest-nanopubs-from-pubkeys");	2✔
32	load("RAuy4N1h4vZ1wgBUMvTiWw2y_Y0_5oFYRTwdq-xj2qqNM/get-latest-nanopubs-from-userid");	2✔
33	load("RAZbyFSenuKSRMLGlRfrbeu6vQ6g2IEECYZ2zSGcIBIhQ/get-accepted-nanopubs-by-author");	2✔
34	load("RAiCBvPL2hRGzI8g5L68O-C9yEXryC_vG35GdEm5jtH_s/get-user-stats-from-pubkeys"); // Deactivated for now...	2✔
35	load("RA3U23LL3xbNwsu92fAqsKb0kagOud4f9TlRQq3evNJck/get-user-stats-from-userid"); // Deactivated for now...	2✔
36	load("RAcNvmEiUNUb2a7O4fwRvy2x2BCN640AC880fTzFworr8/get-top-creators-last30d");	2✔
37	load("RAmhy4KQe6I80bA2Da4JziYyKBoXuXIzqo57GDSVgLfDg/get-top-authors");	2✔
38	load("RA7oUCHG8TEjVQpGTUN5sfu3_IQmza3aSBSCxfJdBc3Rs/get-most-recent-nanopubs");	2✔
39	load("RA52cg2OzJucmpCb7KSKTgfPV5HKIjsFcmww_rxb7v5zU/get-latest-accepted");	2✔
40	load("RAPGhXDRzeGu-Qk0AkjleEtxMxqAvJ-dZn7985gzAbyhs/get-publisher-version");	2✔
41	load("RAvL7pe2ppsfq4mVWTdJjssYGsjrmliNd_sZO2ytLvg1Y/get-most-used-templates-last30d");	2✔
42	load("RANn4Mu8r8bqJA9KJMGXTQAEGAEvtNKGFsuhRIC6BRIOo/get-latest-nanopubs-by-type");	2✔
43	load("RAiRsB2YywxjsBMkVRTREJBooXhf2ZOHoUs5lxciEl37I/get-latest-version-of-np");	2✔
44	load("RA0aZxyh_I0rCJyBepXOWC2tGdI5YYHORFCC-qBR8xHZA/get-all-user-intros");	2✔
45	load("RA-tlMmQA7iT2wR2aS3PlONrepX7vdXbkzeWluea7AECg/get-suggested-templates-to-get-started");	2✔
46	load("RAtIndAeo8zYnEvTjFRaHD2AlenvkJHlw6P52JWR_l5dQ/get-type-overview-last-12-months");	2✔
47	load("RAn3agwsH2yk-8132RJApGYxdPSHHCXDAIYiCaSBBo6tg/get-approved-nanopubs");	2✔
48	load("RAz1ogtMxSTKSOYwHAfD5M3Y-vd1vd46OZta_vvbqh8kY/find-uri-references");	2✔
49	load("RAE35dYJQlpnqim7VeKuu07E9I1LQUZpkdYQR4RvU3KMU/get-nanopubs-by-type");	2✔
50	load("RALZXWg5lZoJoQ0VHL5mpDgNxYpqU6FoDLWGp4rs8A6b8/get-introducing-nanopub");	2✔
51	load("RAWruhiSmyzgZhVRs8QY8YQPAgHzTfl7anxII1de-yaCs/fulltext-search-on-labels");	2✔
52	load("RAVEmFh3d6qonTFQ5S9SVqXZh0prrH1YLhSSs0dJvyvpM/find-things");	2✔
53	load("RAjt1H9rCSr6A9VGzlhye00zPdH69JdGc3kd_2VjDmzVg/get-instances");	2✔
54	load("RAH06iUwnvj_pRARY15ayJAY5tuJau3rCvHhPPhe49fVI/get-classes-for-thing");	2✔
55	load("RAJStXEm1wZcg34ZLPqe00VPSzIVCwC2rrxdj_JR8v5DY/find-referencing-nanopubs"); // not yet used...	2✔
56	load("RAtftxAXJubB4rlm9fOvvHNVIkXvWQLC6Ag_MiV7HL0ow/get-labels-for-thing"); // not yet used...	2✔
57	load("RARtWHRzNY5hh31X2VB5eOCJAdp9Cjv4CakA0Idqz69MI/get-templates-with-uri");	2✔
58	load("RAWH0fe1RCpoOgaJE1B2qfTzzdTiBUUK7iIk6l7Zll9mg/get-newer-versions-of-np");	2✔
59	load("RAQqjXQYlxYQeI4Y3UQy9OrD5Jx1E3PJ8KwKKQlWbiYSw/get-queries");	2✔
60	load("RAzXDzCHoZmJITgYYquLwDDkSyNf3eKKQz9NfQPYB1cyE/get-latest-thing-nanopub");	2✔
61	load("RAnpimW7SPwaum2fefdS6_jpzYxcTRGjE-pmgNTL_BBJU/get-projects");	2✔
62	load("RAJmZoM0xCGE8OL6EgmQBOd1M58ggNkwZ0IUqHOAPRfvE/get-parts");	2✔
63	load("RA6bgrU3Ezfg5VAiLru0BFYHaSj6vZU6jJTscxNl8Wqvc/get-assertion-templates");	2✔
64	load("RA4bt3MQRnEPC2nSsdbCJc74wT-e1w68dSCpYVyvG0274/get-provenance-templates");	2✔
65	load("RAMcdiJpvvk8424AJIH1jsDUQVcPYOLRw0DNnZt_ND_LQ/get-pubinfo-templates");	2✔
66	}	1✔
67
68	/**
69	* Loads a query ID into the queryIds map.
70	*
71	* @param queryId The query ID to load.
72	*/
73	static void load(String queryId) {
74	queryIds.put(queryId.substring(46), queryId);	7✔
75	}	1✔
76
77	/**
78	* Forces the retrieval of an API response for a given query name and parameters.
79	* Retries until a valid response is received.
80	*
81	* @param queryName The name of the query.
82	* @return The API response.
83	*/
84	public static ApiResponse forcedGet(String queryName) {
85	return forcedGet(queryName, new HashMap<>());	6✔
86	}
87
88	/**
89	* Forces the retrieval of an API response for a given query name and parameters.
90	* Retries until a valid response is received.
91	*
92	* @param queryName The name of the query.
93	* @param params The parameters for the query.
94	* @return The API response.
95	*/
96	public static ApiResponse forcedGet(String queryName, Map<String, String> params) {
97	while (true) {
98	ApiResponse resp = null;	2✔
99	try {
100	resp = QueryApiAccess.get(queryName, params);	4✔
101	} catch (Exception ex) {	1✔
102	// TODO We should be more specific about which exceptions we catch here
103	// and generally improve this, as this could hang forever.
104	ex.printStackTrace();	2✔
105	}	1✔
106	if (resp != null) return resp;	4✔
107	try {
108	Thread.sleep(100);	2✔
109	} catch (InterruptedException ex) {	×
110	ex.printStackTrace();	×
111	}	1✔
112	}	1✔
113	}
114
115	/**
116	* Retrieves an API response for a given query name.
117	*
118	* @param queryName The name of the query.
119	* @return The API response.
120	* @throws org.nanopub.extra.services.FailedApiCallException If the API call fails.
121	*/
122	public static ApiResponse get(String queryName) throws FailedApiCallException {
123	return get(queryName, new HashMap<>());	6✔
124	}
125
126	/**
127	* Retrieves an API response for a given query name and a single parameter.
128	*
129	* @param queryName The name of the query.
130	* @param paramKey The key of the parameter.
131	* @param paramValue The value of the parameter.
132	* @return The API response.
133	* @throws org.nanopub.extra.services.FailedApiCallException If the API call fails.
134	*/
135	public static ApiResponse get(String queryName, String paramKey, String paramValue) throws FailedApiCallException {
136	Map<String, String> params = new HashMap<>();	×
137	params.put(paramKey, paramValue);	×
138	return get(queryName, params);	×
139	}
140
141	/**
142	* Retrieves an API response for a given query name and parameters.
143	*
144	* @param queryName The name of the query.
145	* @param params The parameters for the query.
146	* @return The API response.
147	* @throws org.nanopub.extra.services.FailedApiCallException If the API call fails.
148	*/
149	public static ApiResponse get(String queryName, Map<String, String> params) throws FailedApiCallException {
150	String queryId;
151	if (queryName.matches("^RA[A-Za-z0-9-_]{43}/.*$")) {	4✔
152	queryId = queryName;	3✔
153	} else if (queryIds.containsKey(queryName)) {	4✔
154	queryId = queryIds.get(queryName);	6✔
155	} else {
156	throw new IllegalArgumentException("Query name not known: " + queryName);	6✔
157	}
158	return QueryAccess.get(queryId, params);	4✔
159	}
160
161	/**
162	* Retrieves the latest version ID of a given nanopublication.
163	*
164	* @param nanopubId The ID of the nanopublication.
165	* @return The latest version ID.
166	*/
167	public static String getLatestVersionId(String nanopubId) {
168	long currentTime = System.currentTimeMillis();	2✔
169	if (!latestVersionMap.containsKey(nanopubId) \|\| currentTime - latestVersionMap.get(nanopubId).getLeft() > 1000 * 60) {	4!
170	// Re-fetch if existing value is older than 1 minute
171	Map<String, String> params = new HashMap<>();	4✔
172	params.put("np", nanopubId);	5✔
173	try {
174	ApiResponse r = get("get-latest-version-of-np", params);	4✔
175	if (r.getData().size() != 1) return nanopubId;	5!
176	String l = r.getData().get(0).get("latest");	8✔
177	latestVersionMap.put(nanopubId, Pair.of(currentTime, l));	8✔
178	} catch (Exception ex) {	×
179	ex.printStackTrace();	×
180	return nanopubId;	×
181	}	1✔
182	}
183	return latestVersionMap.get(nanopubId).getRight();	7✔
184	}
185
186	/**
187	* Extracts the query ID from a given query IRI.
188	*
189	* @param queryIri The query IRI.
190	* @return The query ID, or null if the IRI is invalid.
191	*/
192	public static String getQueryId(IRI queryIri) {
193	if (queryIri == null) return null;	×
194	if (!queryIri.stringValue().matches(queryIriPattern)) return null;	×
195	return queryIri.stringValue().replaceFirst(queryIriPattern, "$2/$3");	×
196	}
197
198	/**
199	* Retrieves the query ID for a given query name.
200	*
201	* @param queryName The name of the query.
202	* @return The query ID, or null if the query name is unknown.
203	*/
204	public static String getQueryId(String queryName) {
205	return queryIds.get(queryName);	5✔
206	}
207
208	/**
209	* Extracts the query name from a given query IRI.
210	*
211	* @param queryIri The query IRI.
212	* @return The query name, or null if the IRI is invalid.
213	*/
214	public static String getQueryName(IRI queryIri) {
215	if (queryIri == null) return null;	4✔
216	if (!queryIri.stringValue().matches(queryIriPattern)) return null;	7✔
217	return queryIri.stringValue().replaceFirst(queryIriPattern, "$3");	6✔
218	}
219
220	}

knowledgepixels / nanodash / 17375037963

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