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added citation retrieving and conversion; added ped test

This commit is contained in:
Enrico Ottonello 2021-12-09 14:59:01 +01:00
parent 76161fd6df
commit 4269e2f0d1
5 changed files with 276 additions and 26 deletions
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29
dhp-workflows/dhp-rdfconverter/src/main/java/eu/dnetlib/dhp/rdfconverter/bioschema/model/BioSchemaProtein.java
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@ -14,8 +14,6 @@ public class BioSchemaProtein {
private List<Entry> entryList;
@JsonProperty("http://purl.org/pav/retrievedOn")
private DateTimeType retrievedOn;
@JsonProperty("citation")
private Citation citation;
public static class Entry {
@JsonProperty("@id")
@ -50,6 +48,8 @@ public class BioSchemaProtein {
private IsPartOfBioChemEntity isPartOfBioChemEntity;
@JsonProperty("mainEntityOfPage")
private Link mainEntityOfPage;
@JsonProperty("https://schema.org/citation")
private Citation citation;
public String getId() {
return id;
@ -190,6 +190,13 @@ public class BioSchemaProtein {
this.mainEntityOfPage = mainEntityOfPage;
}
public Citation getCitation() {
return citation;
}
public void setCitation(Citation citation) {
this.citation = citation;
}
}
public static class IsPartOfBioChemEntity {
@ -328,19 +335,9 @@ public class BioSchemaProtein {
}
public static class Citation {
@JsonProperty("@type")
private String type;
@JsonProperty("@id")
private String id;
public String getType() {
return type;
}
public void setType(String type) {
this.type = type;
}
public String getId() {
return id;
}
@ -373,12 +370,4 @@ public class BioSchemaProtein {
public void setRetrievedOn(DateTimeType retrievedOn) {
this.retrievedOn = retrievedOn;
}
public Citation getCitation() {
return citation;
}
public void setCitation(Citation citation) {
this.citation = citation;
}
}

18
dhp-workflows/dhp-rdfconverter/src/main/java/eu/dnetlib/dhp/rdfconverter/utils/RDFConverter.java
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@ -4,6 +4,7 @@ package eu.dnetlib.dhp.rdfconverter.utils;
import java.io.StringReader;
import java.io.StringWriter;
import java.util.*;
import java.util.stream.Collectors;
import org.eclipse.rdf4j.model.Model;
import org.eclipse.rdf4j.rio.RDFFormat;
@ -42,6 +43,7 @@ public class RDFConverter {
Object jsonObject = JsonUtils.fromString(jsonLDBuffer);
Object compact = JsonLdProcessor.compact(jsonObject, new HashMap<>(), new JsonLdOptions());
String compactContent = JsonUtils.toString(compact);
log.debug("jsonld: " + compactContent);
ObjectMapper objectMapper = new ObjectMapper();
objectMapper.enable(DeserializationFeature.ACCEPT_SINGLE_VALUE_AS_ARRAY);
@ -50,7 +52,14 @@ public class RDFConverter {
BioSchemaProtein bioSchemaProtein = objectMapper.readValue(compactContent, BioSchemaProtein.class);
log.debug("BioSchema id: " + bioSchemaProtein.getId());
BioSchemaProtein.DateTimeType retrievedOnType = bioSchemaProtein.getRetrievedOn();
BioSchemaProtein.Citation citation = bioSchemaProtein.getCitation();
List<String> citations = bioSchemaProtein.getEntryList().stream().map(entry -> {
if (entry.getCitation() != null) {
BioSchemaProtein.Citation citationInfo = entry.getCitation();
return citationInfo.getId();
}
return null;
}).filter(id -> id != null).collect(Collectors.toList());
ArrayList<String> results = new ArrayList<String>();
bioSchemaProtein.getEntryList().stream().forEach(entry -> {
@ -59,9 +68,10 @@ public class RDFConverter {
&& entry.getType().stream().filter(type -> type.equals("https://schema.org/Protein")).count() == 1) {
DataciteProtein dataciteProtein = new DataciteProtein();
if (citation != null) {
addRelatedIdentifier(dataciteProtein, citation.getId(), "CitedBy");
}
citations.forEach(citation -> {
addRelatedIdentifier(dataciteProtein, citation, "CitedBy");
});
DataciteProtein.Types types = new DataciteProtein.Types();
types.setResourceType("Protein");

15
dhp-workflows/dhp-rdfconverter/src/test/java/eu/dnetlib/dhp/rdfconverter/bioschema/ConverterTest.java
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@ -17,11 +17,22 @@ public class ConverterTest {
static Logger logger = LoggerFactory.getLogger(ConverterTest.class);
@Test
// @Disabled
public void nqToDataciteTest() throws Exception {
InputStream is = ConverterTest.class.getResourceAsStream("/eu/dnetlib/dhp/rdfconverter/bioschema/disprot.nq");
String nq = IOUtils.toString(is);
logger.info("NQ: " + nq);
logger.debug("NQ: " + nq);
RDFConverter converter = new RDFConverter();
ArrayList<String> results = converter.nQuadsFile2DataciteJson(nq, "Protein");
if (results != null && !results.isEmpty()) {
logger.info("JSON DATACITE: " + results.get(0));
}
}
@Test
public void pedCitationTest() throws Exception {
InputStream is = ConverterTest.class.getResourceAsStream("/eu/dnetlib/dhp/rdfconverter/bioschema/ped.nq");
String nq = IOUtils.toString(is);
logger.debug("NQ: " + nq);
RDFConverter converter = new RDFConverter();
ArrayList<String> results = converter.nQuadsFile2DataciteJson(nq, "Protein");
if (results != null && !results.isEmpty()) {

229
dhp-workflows/dhp-rdfconverter/src/test/resources/eu/dnetlib/dhp/rdfconverter/bioschema/ped.nq Normal file
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@ -0,0 +1,229 @@
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> <http://purl.org/pav/retrievedFrom> <https://proteinensemble.org/PED00014> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> <http://purl.org/pav/retrievedOn> "2021-12-06T11:52:22"^^<http://www.w3.org/2001/XMLSchema#dateTime> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> <http://purl.org/pav/createdWith> <https://github.com/HW-SWeL/BMUSE/releases/tag/0.5.2> .
<https://proteinensemble.org/PED00014> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/CollectionPage> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014> <https://schema.org/citation> <https://identifiers.org/pubmed:20399186> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014> <https://schema.org/identifier> "https://identifiers.org/ped:PED00014" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014> <https://schema.org/includedInDataset> "https://proteinensemble.org/#2021-02-12" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014> <https://schema.org/mainEntity> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/23786852> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014> <https://schema.org/name> "Structural ensemble of pSic1 (1-90) phosphorylated at Thr5, Thr33, Thr45, Ser69, Ser76 and Ser80, in complex with SKP1 (4-186) and CDC4 (270-744)" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://identifiers.org/pubmed:20399186> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/ScholarlyArticle> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/23786852> <https://schema.org/itemListElement> <https://proteinensemble.org/PED00014#P07834_D_0> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/23786852> <https://schema.org/itemListElement> <https://proteinensemble.org/PED00014#P52286_C_0> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/23786852> <https://schema.org/itemListElement> <https://proteinensemble.org/PED00014#P38634_A_1> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/23786852> <https://schema.org/numberOfItems> "3" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/Protein> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0> <http://purl.org/dc/terms/conformsTo> <https://bioschemas.org/profiles/Protein/0.11-RELEASE> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0> <https://schema.org/hasBioPolymerSequence> "LKRDLITSLPFEISLKIFNYLQFEDIINSLGVSQNWNKIIRKSTSLWKKLLISENFVSPKGFNSLNLKLSQKYPKLSQQDRLRLSFLENIFILKNWYNPKFVPQRTTLRGHMTSVITCLQFEDNYVITGADDKMIRVYDSINKKFLLQLSGHDGGVWALKYAHGGILVSGSTDRTVRVWDIKKGCCTHVFKGHNSTVRCLDIVEYKNIKYIVTGSRDNTLHVWKLPKESSVPDHGEEHDYPLVFHTPEENPYFVGVLRGHMASVRTVSGHGNIVVSGSYDNTLIVWDVAQMKCLYILSGHTDRIYSTIYDHERKRCISASMDTTIRIWDLENIWNNGECSYATNSASPCAKILGAMYTLQGHTALVGLLRLSDKFLVSAAADGSIRGWDANDYSRKFSYHHTNLSAITTFYVSDNILVSGSENQFNIYNLRSGKLVHANILKDADQIWSVNFKGKTLVAAVEKDGQSFLEILDFS" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0> <https://schema.org/hasSequenceAnnotation> <https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0> <https://schema.org/identifier> "https://identifiers.org/uniprot:P07834" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0> <https://schema.org/name> "Cell division control protein 4" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0> <https://schema.org/sameAs> <http://purl.uniprot.org/uniprot/P07834> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/profiles/Protein/0.11-RELEASE> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/CreativeWork> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/SequenceAnnotation> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/368314152> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/2096895906> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1073956941> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/367565188> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1109163979> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/639913980> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/107821945> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/2059079389> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1901071107> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/274002240> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/502163975> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P07834_D_0_270_744> <https://schema.org/sequenceLocation> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1565361539> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/368314152> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00120> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00120> <https://schema.org/name> "NMR" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00120> <https://schema.org/termCode> "IDPO:00120" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://disprot.org/assets/data/IDPO_v0.2.owl> <https://schema.org/name> "IDP ontology" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00166> <https://schema.org/name> "RDC" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1073956941> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1073956941> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00167> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00167> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00167> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00167> <https://schema.org/name> "chemical shift" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00167> <https://schema.org/termCode> "IDPO:00167" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00168> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00168> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00168> <https://schema.org/name> "relaxation" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00168> <https://schema.org/termCode> "IDPO:00168" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1109163979> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1109163979> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1109163979> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00169> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00169> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00169> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00169> <https://schema.org/name> "T2 relaxation" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00169> <https://schema.org/termCode> "IDPO:00169" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/639913980> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/639913980> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/639913980> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00125> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00125> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00125> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00125> <https://schema.org/name> "SAXS" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00125> <https://schema.org/termCode> "IDPO:00125" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/107821945> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/107821945> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/107821945> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00186> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00186> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00186> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00186> <https://schema.org/name> "TraDES" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00186> <https://schema.org/termCode> "IDPO:00186" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/2059079389> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/2059079389> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/2059079389> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00192> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00192> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00192> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00192> <https://schema.org/name> "CNS" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00192> <https://schema.org/termCode> "IDPO:00192" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1901071107> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1901071107> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1901071107> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00208> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00208> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00208> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00208> <https://schema.org/name> "CRYSOL" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00208> <https://schema.org/termCode> "IDPO:00208" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/274002240> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/274002240> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/274002240> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00210> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00210> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00210> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00210> <https://schema.org/name> "ShiftX" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00210> <https://schema.org/termCode> "IDPO:00210" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/502163975> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/502163975> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/502163975> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00216> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00216> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/DefinedTerm> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00216> <https://schema.org/inDefinedTermSet> <https://disprot.org/assets/data/IDPO_v0.2.owl> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00216> <https://schema.org/name> "ENSEMBLE" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://disprot.org/assets/data/IDPO_v0.2.owl:00216> <https://schema.org/termCode> "IDPO:00216" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://proteinensemble.org/PED00014#P52286_C_0> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/Protein> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0> <http://purl.org/dc/terms/conformsTo> <https://bioschemas.org/profiles/Protein/0.11-RELEASE> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://proteinensemble.org/PED00014#P52286_C_0> <https://schema.org/hasSequenceAnnotation> <https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0> <https://schema.org/identifier> "https://identifiers.org/uniprot:P52286" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0> <https://schema.org/sameAs> <http://purl.uniprot.org/uniprot/P52286> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/SequenceAnnotation> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/400036188> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1958752721> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1896099201> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/569393342> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/946591913> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/892712429> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/561273240> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/649186691> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1894898714> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/additionalProperty> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1015020144> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014#P52286_C_0_4_186> <https://schema.org/sequenceLocation> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/240836288> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://proteinensemble.org/PED00014#P38634_A_1_1_90> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/SequenceAnnotation> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
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<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/696555349> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl#IDPO:00125> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1412437827> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1412437827> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1412437827> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00186> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/837490728> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/837490728> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/837490728> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00192> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1021447597> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1021447597> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1021447597> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00208> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/725322807> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/725322807> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/725322807> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00210> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/2067319117> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/PropertyValue> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/2067319117> <https://schema.org/name> "Term" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/2067319117> <https://schema.org/value> <https://disprot.org/assets/data/IDPO_v0.2.owl:00216> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1503093711> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <https://schema.org/SequenceRange> <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1503093711> <https://schema.org/rangeEnd> "90" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1/proteinensemble.org/PED00014/1503093711> <https://schema.org/rangeStart> "1" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .
<https://proteinensemble.org/PED00014> <http://purl.org/dc/terms/title> "PED" <https://bioschemas.org/crawl/v1/proteinensemble/PED00014/20211206/1> .

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dhp-workflows/dhp-rdfconverter/src/test/resources/log4j.properties Normal file
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# Set root logger level to DEBUG and its only appender to A1.
log4j.rootLogger=INFO, A1
# A1 is set to be a ConsoleAppender.
log4j.appender.A1=org.apache.log4j.ConsoleAppender
# A1 uses PatternLayout.
log4j.logger.org = ERROR
log4j.logger.eu.dnetlib = DEBUG
log4j.appender.A1.layout=org.apache.log4j.PatternLayout
log4j.appender.A1.layout.ConversionPattern=%-4r [%t] %-5p %c %x - %m%n