17211438187

Committed 25 Aug 2025 02:13PM UTC coverage: 12.474% (+0.03%) from 12.446%

Build # 17211438187

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push

github

Committed by

ashleycaselli

Commit Message

build(deps): update org.apache.maven.plugins:maven-compiler-plugin to v3.14.0

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330 of 3766 branches covered (8.76%)

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32.17

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.slf4j.Logger;
import org.slf4j.LoggerFactory;

import java.io.Serializable;
import java.util.*;

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

    private static final long serialVersionUID = 1L;
    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 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 Map<String, Template> templateMap;

    /**
     * Constructor to initialize the TemplateData instance.
     */
    public TemplateData() {
        assertionTemplates = new ArrayList<>();
        provenanceTemplates = new ArrayList<>();
        pubInfoTemplates = new ArrayList<>();
        templateMap = new HashMap<>();
        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");
        }
        Collections.sort(templates, 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(Template.WAS_CREATED_FROM_TEMPLATE_PREDICATE)) 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(Template.WAS_CREATED_FROM_PROVENANCE_TEMPLATE_PREDICATE)) 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(Template.WAS_CREATED_FROM_PUBINFO_TEMPLATE_PREDICATE)) continue;
            if (!(st.getObject() instanceof IRI)) continue;
            iriSet.add((IRI) st.getObject());
        }
        return iriSet;
    }


    private static final TemplateComparator templateComparator = new TemplateComparator();

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

        private static final long serialVersionUID = 1L;

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

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