From bc8611a95abebaf43f6abd13dfb76929b7252033 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Thu, 18 Jun 2020 11:19:20 +0200 Subject: [PATCH] added new resources for testing --- .../dnetlib/dhp/schema/dump/oaf/Dataset.java | 45 ------ .../schema/dump/oaf/OtherResearchProduct.java | 44 ------ .../dhp/schema/dump/oaf/Publication.java | 14 -- .../dnetlib/dhp/schema/dump/oaf/Software.java | 45 ------ .../dnetlib/dhp/oa/graph/dump/APIClient.java | 56 +++++++ .../graph/dump/SparkSplitForCommunity2.java | 4 + .../dhp/oa/graph/dump/zenodo/Community.java | 13 ++ .../dhp/oa/graph/dump/zenodo/Creator.java | 4 + .../dhp/oa/graph/dump/zenodo/File.java | 7 + .../dhp/oa/graph/dump/zenodo/Grant.java | 4 + .../dhp/oa/graph/dump/zenodo/Links.java | 4 + .../dhp/oa/graph/dump/zenodo/Metadata.java | 4 + .../oa/graph/dump/zenodo/PrereserveDoi.java | 4 + .../graph/dump/zenodo/RelatedIdentifier.java | 4 + .../dhp/oa/graph/dump/zenodo/ZenodoModel.java | 143 ++++++++++++++++++ .../dhp/oa/graph/dump/ZenodoUploadTest.java | 16 ++ .../dhp/oa/graph/dump/addProjectInfo/software | 6 - .../graph/dump/addProjectInfo/software.json | 6 + .../dhp/oa/graph/dump/resultDump/orp.json | 2 +- .../oa/graph/dump/splitForCommunity/dataset | 10 ++ .../dhp/oa/graph/dump/splitForCommunity/orp | 3 + .../graph/dump/splitForCommunity/publication | 10 ++ .../oa/graph/dump/splitForCommunity/software | 12 +- .../eu/dnetlib/dhp/oa/graph/dump/zenodo/dh-ch | 19 +++ .../eu/dnetlib/dhp/oa/graph/dump/zenodo/egi | 1 + .../eu/dnetlib/dhp/oa/graph/dump/zenodo/ni | 5 + .../dump/zenodo/science-innovation-policy | 5 + 27 files changed, 329 insertions(+), 161 deletions(-) delete mode 100644 dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Dataset.java delete mode 100644 dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/OtherResearchProduct.java delete mode 100644 dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Publication.java delete mode 100644 dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Software.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/APIClient.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/SparkSplitForCommunity2.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Community.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Creator.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/File.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Grant.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Links.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Metadata.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/PrereserveDoi.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/RelatedIdentifier.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/ZenodoModel.java create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/ZenodoUploadTest.java delete mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software.json create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/splitForCommunity/dataset create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/splitForCommunity/orp create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/splitForCommunity/publication create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/zenodo/dh-ch create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/zenodo/egi create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/zenodo/ni create mode 100644 dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/zenodo/science-innovation-policy diff --git a/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Dataset.java b/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Dataset.java deleted file mode 100644 index 4ceff55b98..0000000000 --- a/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Dataset.java +++ /dev/null @@ -1,45 +0,0 @@ - -package eu.dnetlib.dhp.schema.dump.oaf; - -import java.io.Serializable; -import java.util.List; - -import eu.dnetlib.dhp.schema.common.ModelConstants; - -public class Dataset extends Result implements Serializable { - - private String size; - - private String version; - - private List geolocation; - - public Dataset() { - setType(ModelConstants.DATASET_DEFAULT_RESULTTYPE.getClassname()); - } - - public String getSize() { - return size; - } - - public void setSize(String size) { - this.size = size; - } - - public String getVersion() { - return version; - } - - public void setVersion(String version) { - this.version = version; - } - - public List getGeolocation() { - return geolocation; - } - - public void setGeolocation(List geolocation) { - this.geolocation = geolocation; - } - -} diff --git a/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/OtherResearchProduct.java b/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/OtherResearchProduct.java deleted file mode 100644 index db4ef1a629..0000000000 --- a/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/OtherResearchProduct.java +++ /dev/null @@ -1,44 +0,0 @@ - -package eu.dnetlib.dhp.schema.dump.oaf; - -import java.io.Serializable; -import java.util.List; - -import eu.dnetlib.dhp.schema.common.ModelConstants; - -public class OtherResearchProduct extends Result implements Serializable { - - private List contactperson; - - private List contactgroup; - - private List tool; - - public OtherResearchProduct() { - setType(ModelConstants.ORP_DEFAULT_RESULTTYPE.getClassname()); - } - - public List getContactperson() { - return contactperson; - } - - public void setContactperson(List contactperson) { - this.contactperson = contactperson; - } - - public List getContactgroup() { - return contactgroup; - } - - public void setContactgroup(List contactgroup) { - this.contactgroup = contactgroup; - } - - public List getTool() { - return tool; - } - - public void setTool(List tool) { - this.tool = tool; - } -} diff --git a/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Publication.java b/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Publication.java deleted file mode 100644 index b0148c2ddd..0000000000 --- a/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Publication.java +++ /dev/null @@ -1,14 +0,0 @@ - -package eu.dnetlib.dhp.schema.dump.oaf; - -import java.io.Serializable; - -import eu.dnetlib.dhp.schema.common.ModelConstants; - -public class Publication extends Result implements Serializable { - - public Publication() { - setType(ModelConstants.PUBLICATION_DEFAULT_RESULTTYPE.getClassname()); - } - -} diff --git a/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Software.java b/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Software.java deleted file mode 100644 index 8140403fae..0000000000 --- a/dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/dump/oaf/Software.java +++ /dev/null @@ -1,45 +0,0 @@ - -package eu.dnetlib.dhp.schema.dump.oaf; - -import java.io.Serializable; -import java.util.List; - -import eu.dnetlib.dhp.schema.common.ModelConstants; - -public class Software extends Result implements Serializable { - - private List documentationUrl; - - private String codeRepositoryUrl; - - private String programmingLanguage; - - public Software() { - setType(ModelConstants.SOFTWARE_DEFAULT_RESULTTYPE.getClassname()); - } - - public List getDocumentationUrl() { - return documentationUrl; - } - - public void setDocumentationUrl(List documentationUrl) { - this.documentationUrl = documentationUrl; - } - - public String getCodeRepositoryUrl() { - return codeRepositoryUrl; - } - - public void setCodeRepositoryUrl(String codeRepositoryUrl) { - this.codeRepositoryUrl = codeRepositoryUrl; - } - - public String getProgrammingLanguage() { - return programmingLanguage; - } - - public void setProgrammingLanguage(String programmingLanguage) { - this.programmingLanguage = programmingLanguage; - } - -} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/APIClient.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/APIClient.java new file mode 100644 index 0000000000..4ba7d431b4 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/APIClient.java @@ -0,0 +1,56 @@ +package eu.dnetlib.dhp.oa.graph.dump; + +import java.io.*; +import java.net.MalformedURLException; + +import com.cloudera.org.apache.http.HttpResponse; +import com.cloudera.org.apache.http.client.HttpClient; +import com.cloudera.org.apache.http.client.methods.HttpPost; +import com.cloudera.org.apache.http.entity.StringEntity; +import com.cloudera.org.apache.http.impl.client.DefaultHttpClient; +import com.cloudera.org.apache.http.util.EntityUtils; +import com.google.gson.Gson; +import eu.dnetlib.dhp.oa.graph.dump.zenodo.ZenodoModel; +import org.springframework.beans.factory.annotation.Value; + +import java.io.IOException; + + +public class SendToZenodo implements Serializable { + + + + + String urlString; + + + public SendToZenodo(String urlString) throws MalformedURLException { + + + this.urlString = urlString ; + } + + public void connect() throws IOException { + + String json = "{}"; + + HttpClient client = new DefaultHttpClient(); + HttpPost post = new HttpPost(urlString); + + StringEntity input = new StringEntity(json); + post.setEntity(input); + post.addHeader("Content-Type", "application/json"); + + HttpResponse response = client.execute(post); + System.out.println(response.getStatusLine()); + System.out.println(response.getEntity().getContent().toString()); + + json = EntityUtils.toString(response.getEntity()); + + ZenodoModel newSubmission = new Gson().fromJson(json, ZenodoModel.class); + System.out.println(newSubmission.getLinks().getBucket()); + + } + + +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/SparkSplitForCommunity2.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/SparkSplitForCommunity2.java new file mode 100644 index 0000000000..10dd079ef5 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/SparkSplitForCommunity2.java @@ -0,0 +1,4 @@ +package eu.dnetlib.dhp.oa.graph.dump; + +public class SparkSplitForCommunity2 { +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Community.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Community.java new file mode 100644 index 0000000000..89a48a8d56 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Community.java @@ -0,0 +1,13 @@ +package eu.dnetlib.dhp.oa.graph.dump.zenodo; + +public class Communities { + private String identifier; + + public String getIdentifier() { + return identifier; + } + + public void setIdentifier(String identifier) { + this.identifier = identifier; + } +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Creator.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Creator.java new file mode 100644 index 0000000000..6a968d00f8 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Creator.java @@ -0,0 +1,4 @@ +package eu.dnetlib.dhp.oa.graph.dump.zenodo; + +public class Creator { +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/File.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/File.java new file mode 100644 index 0000000000..3f6ff49160 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/File.java @@ -0,0 +1,7 @@ +package eu.dnetlib.dhp.oa.graph.dump; + +import java.io.Serializable; + +public class File implements Serializable { + {"checksum": "dbf89bfc64fb70f7861b3b338ac3626d", "filename": "dataset.gz", "filesize": 22822474699, "id": "d20d0069-6a66-4cf5-a226-22ab5f87ece8", "links": {"download": "https://zenodo.org/api/files/44450289-0dbe-4d38-aa91-7a671dcd0700/dataset.gz", "self": "https://zenodo.org/api/deposit/depositions/3516918/files/d20d0069-6a66-4cf5-a226-22ab5f87ece8"}}; +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Grant.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Grant.java new file mode 100644 index 0000000000..9a063d67b2 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Grant.java @@ -0,0 +1,4 @@ +package eu.dnetlib.dhp.oa.graph.dump.zenodo; + +public class Grant { +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Links.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Links.java new file mode 100644 index 0000000000..76a3b2bdd1 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Links.java @@ -0,0 +1,4 @@ +package eu.dnetlib.dhp.oa.graph.dump.zenodo; + +public class Links { +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Metadata.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Metadata.java new file mode 100644 index 0000000000..af10e1485f --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/Metadata.java @@ -0,0 +1,4 @@ +package eu.dnetlib.dhp.oa.graph.dump.zenodo; + +public class Metadata { +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/PrereserveDoi.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/PrereserveDoi.java new file mode 100644 index 0000000000..c463eecb73 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/PrereserveDoi.java @@ -0,0 +1,4 @@ +package eu.dnetlib.dhp.oa.graph.dump.zenodo; + +public class PrereserveDoi { +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/RelatedIdentifier.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/RelatedIdentifier.java new file mode 100644 index 0000000000..c13dee1e75 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/RelatedIdentifier.java @@ -0,0 +1,4 @@ +package eu.dnetlib.dhp.oa.graph.dump.zenodo; + +public class RelatedIdentifier { +} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/ZenodoModel.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/ZenodoModel.java new file mode 100644 index 0000000000..8dc80ae997 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/zenodo/ZenodoModel.java @@ -0,0 +1,143 @@ +package eu.dnetlib.dhp.oa.graph.dump.zenodo; + +import java.io.Serializable; +import java.util.List; + +public class ZenodoResponse implements Serializable { + + private String conceptdoi; + private String conceptrecid; + private String created; + private String doi; + private String doi_url; + private List files; + private String id; + private Links links; + private Metadata metadata; + private String modifie; + private String owner; + private String record_id; + private String state; + private boolean submitted; + private String title; + + public String getConceptdoi() { + return conceptdoi; + } + + public void setConceptdoi(String conceptdoi) { + this.conceptdoi = conceptdoi; + } + + public String getConceptrecid() { + return conceptrecid; + } + + public void setConceptrecid(String conceptrecid) { + this.conceptrecid = conceptrecid; + } + + public String getCreated() { + return created; + } + + public void setCreated(String created) { + this.created = created; + } + + public String getDoi() { + return doi; + } + + public void setDoi(String doi) { + this.doi = doi; + } + + public String getDoi_url() { + return doi_url; + } + + public void setDoi_url(String doi_url) { + this.doi_url = doi_url; + } + + public List getFiles() { + return files; + } + + public void setFiles(List files) { + this.files = files; + } + + public String getId() { + return id; + } + + public void setId(String id) { + this.id = id; + } + + public Links getLinks() { + return links; + } + + public void setLinks(Links links) { + this.links = links; + } + + public Metadata getMetadata() { + return metadata; + } + + public void setMetadata(Metadata metadata) { + this.metadata = metadata; + } + + public String getModifie() { + return modifie; + } + + public void setModifie(String modifie) { + this.modifie = modifie; + } + + public String getOwner() { + return owner; + } + + public void setOwner(String owner) { + this.owner = owner; + } + + public String getRecord_id() { + return record_id; + } + + public void setRecord_id(String record_id) { + this.record_id = record_id; + } + + public String getState() { + return state; + } + + public void setState(String state) { + this.state = state; + } + + public boolean isSubmitted() { + return submitted; + } + + public void setSubmitted(boolean submitted) { + this.submitted = submitted; + } + + public String getTitle() { + return title; + } + + public void setTitle(String title) { + this.title = title; + } +} diff --git a/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/ZenodoUploadTest.java b/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/ZenodoUploadTest.java new file mode 100644 index 0000000000..ca3f91c593 --- /dev/null +++ b/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/ZenodoUploadTest.java @@ -0,0 +1,16 @@ + +package eu.dnetlib.dhp.oa.graph.dump; + +import java.io.IOException; + +import org.junit.jupiter.api.Test; + +public class TestZenodoConnection { + + @Test + public void test1() throws IOException { + APIClient s = new APIClient( + "https://sandbox.zenodo.org/api/deposit/depositions?access_token=5ImUj0VC1ICg4ifK5dc3AGzJhcfAB4osxrFlsr8WxHXxjaYgCE0hY8HZcDoe"); + + } +} diff --git a/dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software b/dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software deleted file mode 100644 index 0d34f2eb27..0000000000 --- a/dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software +++ /dev/null @@ -1,6 +0,0 @@ -{"author":[],"bestaccessright":{},"collectedfrom":[{"key":"10|rest________::b8e502674c3c3499d5374e9b2ea6d8d5","value":"bio.tools"}],"context":[{"code":"dh-ch","label":"Digital Humanities and Cultural Heritage","provenance":["community:subject"]}],"contributor":[],"country":[],"coverage":[],"dateofcollection":"","description":["Chilibot searches the PubMed literature database based on specific relationships between proteins, genes, or keywords. 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