17837235071

Committed 18 Sep 2025 05:58PM UTC coverage: 13.87%. Remained the same

Build # 17837235071

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push

github

Committed by

tkuhn

Commit Message

chore: Remove serialVersionUIDs

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29.37

src/main/java/com/knowledgepixels/nanodash/template/TemplateData.java

package com.knowledgepixels.nanodash.template;

import com.knowledgepixels.nanodash.QueryApiAccess;
import net.trustyuri.TrustyUriUtils;
import org.eclipse.rdf4j.model.IRI;
import org.eclipse.rdf4j.model.Statement;
import org.nanopub.Nanopub;
import org.nanopub.extra.services.ApiResponse;
import org.nanopub.extra.services.ApiResponseEntry;
import org.nanopub.vocabulary.NTEMPLATE;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;

import java.io.Serializable;
import java.util.*;
import java.util.concurrent.ConcurrentHashMap;
import java.util.concurrent.ConcurrentMap;

/**
 * Singleton class that manages templates data.
 */
public class TemplateData implements Serializable {

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

    private static TemplateData instance;

    /**
     * Refreshes the templates data by creating a new instance of TemplateData.
     */
    public static synchronized void refreshTemplates() {
        instance = new TemplateData();
    }

    /**
     * Ensures that the TemplateData instance is loaded.
     */
    public static synchronized void ensureLoaded() {
        if (instance == null) refreshTemplates();
    }

    /**
     * Gets the singleton instance of TemplateData.
     *
     * @return the TemplateData instance
     */
    public static TemplateData get() {
        ensureLoaded();
        return instance;
    }

    private List<ApiResponseEntry> assertionTemplates, provenanceTemplates, pubInfoTemplates;
    private ConcurrentMap<String, Template> templateMap;

    /**
     * Constructor to initialize the TemplateData instance.
     */
    public TemplateData() {
        assertionTemplates = new ArrayList<>();
        provenanceTemplates = new ArrayList<>();
        pubInfoTemplates = new ArrayList<>();
        templateMap = new ConcurrentHashMap<>();
        refreshTemplates(assertionTemplates, "get-assertion-templates");
        refreshTemplates(provenanceTemplates, "get-provenance-templates");
        refreshTemplates(pubInfoTemplates, "get-pubinfo-templates");
    }

    private void refreshTemplates(List<ApiResponseEntry> templates, String queryId) {
        ApiResponse templateEntries = QueryApiAccess.forcedGet(queryId);
        String previousId = null;
        logger.info("Loading templates...");
        for (ApiResponseEntry entry : templateEntries.getData()) {
            if ("true".equals(entry.get("unlisted"))) continue;
            if (!entry.get("np").equals(previousId)) {
                templates.add(entry);
            }
            previousId = entry.get("np");
        }
        templates.sort(templateComparator);
    }

    /**
     * Returns the list of assertion templates.
     *
     * @return a list of assertion templates
     */
    public List<ApiResponseEntry> getAssertionTemplates() {
        return assertionTemplates;
    }

    /**
     * Returns the list of provenance templates.
     *
     * @return a list of provenance templates
     */
    public List<ApiResponseEntry> getProvenanceTemplates() {
        return provenanceTemplates;
    }

    /**
     * Returns the list of publication information templates.
     *
     * @return a list of publication information templates
     */
    public List<ApiResponseEntry> getPubInfoTemplates() {
        return pubInfoTemplates;
    }

    /**
     * Returns a Template object for the given template ID.
     *
     * @param id the ID of the template
     * @return the Template object if found, or null if not found or invalid
     */
    public Template getTemplate(String id) {
        Template template = templateMap.get(id);
        if (template != null) return template;
        if (TrustyUriUtils.isPotentialTrustyUri(id)) {
            try {
                Template t = new Template(id);
                templateMap.put(id, t);
                return t;
            } catch (Exception ex) {
                logger.error("Exception: {}", ex.getMessage());
                return null;
            }
        }
        return null;
    }

    public Template getTemplate(Nanopub np) {
        IRI templateId = getTemplateId(np);
        if (templateId == null) return null;
        return getTemplate(templateId.stringValue());
    }

    /**
     * Returns a Template object for the provenance template of the given Nanopub.
     *
     * @param np the Nanopub from which to extract the provenance template
     * @return the Template object if found, or null if not found or invalid
     */
    public Template getProvenanceTemplate(Nanopub np) {
        IRI templateId = getProvenanceTemplateId(np);
        if (templateId == null) return null;
        return getTemplate(templateId.stringValue());
    }

    /**
     * Returns a set of Template objects for the publication information templates of the given Nanopub.
     *
     * @param np the Nanopub from which to extract the publication information templates
     * @return a set of Template objects
     */
    public Set<Template> getPubinfoTemplates(Nanopub np) {
        Set<Template> templates = new HashSet<>();
        for (IRI id : getPubinfoTemplateIds(np)) {
            templates.add(getTemplate(id.stringValue()));
        }
        return templates;
    }

    /**
     * Returns the template ID of the given Nanopub.
     *
     * @param nanopub the Nanopub from which to extract the template ID
     * @return the IRI of the template ID, or null if not found
     */
    public IRI getTemplateId(Nanopub nanopub) {
        for (Statement st : nanopub.getPubinfo()) {
            if (!st.getSubject().equals(nanopub.getUri())) continue;
            if (!st.getPredicate().equals(NTEMPLATE.WAS_CREATED_FROM_TEMPLATE)) continue;
            if (!(st.getObject() instanceof IRI)) continue;
            return (IRI) st.getObject();
        }
        return null;
    }

    /**
     * Returns the provenance template ID of the given Nanopub.
     *
     * @param nanopub the Nanopub from which to extract the provenance template ID
     * @return the IRI of the provenance template ID, or null if not found
     */
    public IRI getProvenanceTemplateId(Nanopub nanopub) {
        for (Statement st : nanopub.getPubinfo()) {
            if (!st.getSubject().equals(nanopub.getUri())) continue;
            if (!st.getPredicate().equals(NTEMPLATE.WAS_CREATED_FROM_PROVENANCE_TEMPLATE)) continue;
            if (!(st.getObject() instanceof IRI)) continue;
            return (IRI) st.getObject();
        }
        return null;
    }

    /**
     * Returns the set of publication information template IDs for the given Nanopub.
     *
     * @param nanopub the Nanopub from which to extract the publication information template IDs
     * @return a set of IRI objects representing the publication information template IDs
     */
    public Set<IRI> getPubinfoTemplateIds(Nanopub nanopub) {
        Set<IRI> iriSet = new HashSet<>();
        for (Statement st : nanopub.getPubinfo()) {
            if (!st.getSubject().equals(nanopub.getUri())) continue;
            if (!st.getPredicate().equals(NTEMPLATE.WAS_CREATED_FROM_PUBINFO_TEMPLATE)) continue;
            if (!(st.getObject() instanceof IRI)) continue;
            iriSet.add((IRI) st.getObject());
        }
        return iriSet;
    }


    public static List<Template> getTemplateList(ApiResponse apiResponse) {
        List<Template> templates = new ArrayList<>();
        for (ApiResponseEntry e : apiResponse.getData()) {
            String templateNpId = e.get("template_np");
            if (templateNpId == null) templateNpId = e.get("np");
            templates.add(TemplateData.get().getTemplate(templateNpId));
        }
        return templates;
    }

    private static final TemplateComparator templateComparator = new TemplateComparator();

    private static class TemplateComparator implements Comparator<ApiResponseEntry>, Serializable {

        /**
         * Compares two Template objects based on their labels.
         *
         * @param o1 the first object to be compared.
         * @param o2 the second object to be compared.
         * @return a negative integer, zero, or a positive integer as the first argument is less than, equal to, or greater than the second.
         */
        @Override
        public int compare(ApiResponseEntry o1, ApiResponseEntry o2) {
            return o1.get("label").compareTo(o2.get("label"));
        }

    }

}

1	package com.knowledgepixels.nanodash.template;
2
3	import com.knowledgepixels.nanodash.QueryApiAccess;
4	import net.trustyuri.TrustyUriUtils;
5	import org.eclipse.rdf4j.model.IRI;
6	import org.eclipse.rdf4j.model.Statement;
7	import org.nanopub.Nanopub;
8	import org.nanopub.extra.services.ApiResponse;
9	import org.nanopub.extra.services.ApiResponseEntry;
10	import org.nanopub.vocabulary.NTEMPLATE;
11	import org.slf4j.Logger;
12	import org.slf4j.LoggerFactory;
13
14	import java.io.Serializable;
15	import java.util.*;
16	import java.util.concurrent.ConcurrentHashMap;
17	import java.util.concurrent.ConcurrentMap;
18
19	/**
20	* Singleton class that manages templates data.
21	*/
22	public class TemplateData implements Serializable {
23
24	private static final Logger logger = LoggerFactory.getLogger(TemplateData.class);	3✔
25
26	private static TemplateData instance;
27
28	/**
29	* Refreshes the templates data by creating a new instance of TemplateData.
30	*/
31	public static synchronized void refreshTemplates() {
32	instance = new TemplateData();	4✔
33	}	1✔
34
35	/**
36	* Ensures that the TemplateData instance is loaded.
37	*/
38	public static synchronized void ensureLoaded() {
39	if (instance == null) refreshTemplates();	3✔
40	}	1✔
41
42	/**
43	* Gets the singleton instance of TemplateData.
44	*
45	* @return the TemplateData instance
46	*/
47	public static TemplateData get() {
48	ensureLoaded();	1✔
49	return instance;	2✔
50	}
51
52	private List<ApiResponseEntry> assertionTemplates, provenanceTemplates, pubInfoTemplates;
53	private ConcurrentMap<String, Template> templateMap;
54
55	/**
56	* Constructor to initialize the TemplateData instance.
57	*/
58	public TemplateData() {	2✔
59	assertionTemplates = new ArrayList<>();	5✔
60	provenanceTemplates = new ArrayList<>();	5✔
61	pubInfoTemplates = new ArrayList<>();	5✔
62	templateMap = new ConcurrentHashMap<>();	5✔
63	refreshTemplates(assertionTemplates, "get-assertion-templates");	5✔
64	refreshTemplates(provenanceTemplates, "get-provenance-templates");	5✔
65	refreshTemplates(pubInfoTemplates, "get-pubinfo-templates");	5✔
66	}	1✔
67
68	private void refreshTemplates(List<ApiResponseEntry> templates, String queryId) {
69	ApiResponse templateEntries = QueryApiAccess.forcedGet(queryId);	3✔
70	String previousId = null;	2✔
71	logger.info("Loading templates...");	3✔
72	for (ApiResponseEntry entry : templateEntries.getData()) {	11✔
73	if ("true".equals(entry.get("unlisted"))) continue;	7✔
74	if (!entry.get("np").equals(previousId)) {	6✔
75	templates.add(entry);	4✔
76	}
77	previousId = entry.get("np");	4✔
78	}	1✔
79	templates.sort(templateComparator);	3✔
80	}	1✔
81
82	/**
83	* Returns the list of assertion templates.
84	*
85	* @return a list of assertion templates
86	*/
87	public List<ApiResponseEntry> getAssertionTemplates() {
88	return assertionTemplates;	×
89	}
90
91	/**
92	* Returns the list of provenance templates.
93	*
94	* @return a list of provenance templates
95	*/
96	public List<ApiResponseEntry> getProvenanceTemplates() {
97	return provenanceTemplates;	×
98	}
99
100	/**
101	* Returns the list of publication information templates.
102	*
103	* @return a list of publication information templates
104	*/
105	public List<ApiResponseEntry> getPubInfoTemplates() {
106	return pubInfoTemplates;	×
107	}
108
109	/**
110	* Returns a Template object for the given template ID.
111	*
112	* @param id the ID of the template
113	* @return the Template object if found, or null if not found or invalid
114	*/
115	public Template getTemplate(String id) {
116	Template template = templateMap.get(id);	×
117	if (template != null) return template;	×
118	if (TrustyUriUtils.isPotentialTrustyUri(id)) {	×
119	try {
120	Template t = new Template(id);	×
121	templateMap.put(id, t);	×
122	return t;	×
123	} catch (Exception ex) {	×
124	logger.error("Exception: {}", ex.getMessage());	×
125	return null;	×
126	}
127	}
128	return null;	×
129	}
130
131	public Template getTemplate(Nanopub np) {
132	IRI templateId = getTemplateId(np);	×
133	if (templateId == null) return null;	×
134	return getTemplate(templateId.stringValue());	×
135	}
136
137	/**
138	* Returns a Template object for the provenance template of the given Nanopub.
139	*
140	* @param np the Nanopub from which to extract the provenance template
141	* @return the Template object if found, or null if not found or invalid
142	*/
143	public Template getProvenanceTemplate(Nanopub np) {
144	IRI templateId = getProvenanceTemplateId(np);	×
145	if (templateId == null) return null;	×
146	return getTemplate(templateId.stringValue());	×
147	}
148
149	/**
150	* Returns a set of Template objects for the publication information templates of the given Nanopub.
151	*
152	* @param np the Nanopub from which to extract the publication information templates
153	* @return a set of Template objects
154	*/
155	public Set<Template> getPubinfoTemplates(Nanopub np) {
156	Set<Template> templates = new HashSet<>();	×
157	for (IRI id : getPubinfoTemplateIds(np)) {	×
158	templates.add(getTemplate(id.stringValue()));	×
159	}	×
160	return templates;	×
161	}
162
163	/**
164	* Returns the template ID of the given Nanopub.
165	*
166	* @param nanopub the Nanopub from which to extract the template ID
167	* @return the IRI of the template ID, or null if not found
168	*/
169	public IRI getTemplateId(Nanopub nanopub) {
170	for (Statement st : nanopub.getPubinfo()) {	×
171	if (!st.getSubject().equals(nanopub.getUri())) continue;	×
172	if (!st.getPredicate().equals(NTEMPLATE.WAS_CREATED_FROM_TEMPLATE)) continue;	×
173	if (!(st.getObject() instanceof IRI)) continue;	×
174	return (IRI) st.getObject();	×
175	}
176	return null;	×
177	}
178
179	/**
180	* Returns the provenance template ID of the given Nanopub.
181	*
182	* @param nanopub the Nanopub from which to extract the provenance template ID
183	* @return the IRI of the provenance template ID, or null if not found
184	*/
185	public IRI getProvenanceTemplateId(Nanopub nanopub) {
186	for (Statement st : nanopub.getPubinfo()) {	×
187	if (!st.getSubject().equals(nanopub.getUri())) continue;	×
188	if (!st.getPredicate().equals(NTEMPLATE.WAS_CREATED_FROM_PROVENANCE_TEMPLATE)) continue;	×
189	if (!(st.getObject() instanceof IRI)) continue;	×
190	return (IRI) st.getObject();	×
191	}
192	return null;	×
193	}
194
195	/**
196	* Returns the set of publication information template IDs for the given Nanopub.
197	*
198	* @param nanopub the Nanopub from which to extract the publication information template IDs
199	* @return a set of IRI objects representing the publication information template IDs
200	*/
201	public Set<IRI> getPubinfoTemplateIds(Nanopub nanopub) {
202	Set<IRI> iriSet = new HashSet<>();	×
203	for (Statement st : nanopub.getPubinfo()) {	×
204	if (!st.getSubject().equals(nanopub.getUri())) continue;	×
205	if (!st.getPredicate().equals(NTEMPLATE.WAS_CREATED_FROM_PUBINFO_TEMPLATE)) continue;	×
206	if (!(st.getObject() instanceof IRI)) continue;	×
207	iriSet.add((IRI) st.getObject());	×
208	}	×
209	return iriSet;	×
210	}
211
212
213	public static List<Template> getTemplateList(ApiResponse apiResponse) {
214	List<Template> templates = new ArrayList<>();	×
215	for (ApiResponseEntry e : apiResponse.getData()) {	×
216	String templateNpId = e.get("template_np");	×
217	if (templateNpId == null) templateNpId = e.get("np");	×
218	templates.add(TemplateData.get().getTemplate(templateNpId));	×
219	}	×
220	return templates;	×
221	}
222
223	private static final TemplateComparator templateComparator = new TemplateComparator();	5✔
224
225	private static class TemplateComparator implements Comparator<ApiResponseEntry>, Serializable {
226
227	/**
228	* Compares two Template objects based on their labels.
229	*
230	* @param o1 the first object to be compared.
231	* @param o2 the second object to be compared.
232	* @return a negative integer, zero, or a positive integer as the first argument is less than, equal to, or greater than the second.
233	*/
234	@Override
235	public int compare(ApiResponseEntry o1, ApiResponseEntry o2) {
236	return o1.get("label").compareTo(o2.get("label"));	8✔
237	}
238
239	}
240
241	}

knowledgepixels / nanodash / 17837235071

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