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Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop

This commit is contained in:
Sandro La Bruzzo 2020-12-07 10:42:53 +01:00
parent b31dd126fb a104a632df
commit 620e585b63
14 changed files with 420 additions and 15 deletions
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9
dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleaningFunctions.java
View File

@ -190,15 +190,6 @@ public class CleaningFunctions {
}
}
final Set<String> collectedFrom = Optional
.ofNullable(r.getCollectedfrom())
.map(
c -> c
.stream()
.map(KeyValue::getKey)
.collect(Collectors.toCollection(HashSet::new)))
.orElse(new HashSet<>());
for (Author a : r.getAuthor()) {
if (Objects.isNull(a.getPid())) {
a.setPid(Lists.newArrayList());

32
dhp-workflows/dhp-stats-promote/pom.xml Normal file
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@ -0,0 +1,32 @@
<?xml version="1.0" encoding="UTF-8"?>
<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
<parent>
<artifactId>dhp-workflows</artifactId>
<groupId>eu.dnetlib.dhp</groupId>
<version>1.2.4-SNAPSHOT</version>
</parent>
<modelVersion>4.0.0</modelVersion>
<artifactId>dhp-stats-promote</artifactId>
<dependencies>
<dependency>
<groupId>org.apache.spark</groupId>
<artifactId>spark-core_2.11</artifactId>
</dependency>
<dependency>
<groupId>org.apache.spark</groupId>
<artifactId>spark-sql_2.11</artifactId>
</dependency>
</dependencies>
<build>
<plugins>
<plugin>
<groupId>pl.project13.maven</groupId>
<artifactId>git-commit-id-plugin</artifactId>
<version>2.1.11</version>
<configuration>
<failOnNoGitDirectory>false</failOnNoGitDirectory>
</configuration>
</plugin>
</plugins>
</build>
</project>

34
dhp-workflows/dhp-stats-promote/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/config-default.xml Normal file
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@ -0,0 +1,34 @@
<configuration>
<property>
<name>jobTracker</name>
<value>${jobTracker}</value>
</property>
<property>
<name>nameNode</name>
<value>${nameNode}</value>
</property>
<property>
<name>oozie.use.system.libpath</name>
<value>true</value>
</property>
<property>
<name>oozie.action.sharelib.for.spark</name>
<value>spark2</value>
</property>
<property>
<name>hive_metastore_uris</name>
<value>thrift://iis-cdh5-test-m3.ocean.icm.edu.pl:9083</value>
</property>
<property>
<name>hive_jdbc_url</name>
<value>jdbc:hive2://iis-cdh5-test-m3.ocean.icm.edu.pl:10000</value>
</property>
<property>
<name>oozie.wf.workflow.notification.url</name>
<value>{serviceUrl}/v1/oozieNotification/jobUpdate?jobId=$jobId%26status=$status</value>
</property>
<property>
<name>stats_tool_api_url</name>
<value>${stats_tool_api_url}</value>
</property>
</configuration>

18
dhp-workflows/dhp-stats-promote/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/impala-shell.sh Normal file
View File

@ -0,0 +1,18 @@
export PYTHON_EGG_CACHE=/home/$(whoami)/.python-eggs
export link_folder=/tmp/impala-shell-python-egg-cache-$(whoami)
if ! [ -L $link_folder ]
then
rm -Rf "$link_folder"
ln -sfn ${PYTHON_EGG_CACHE}${link_folder} ${link_folder}
fi
echo "Getting file from " $3
hdfs dfs -copyToLocal $3
echo "Running impala shell make the new database visible"
impala-shell -q "INVALIDATE METADATA;"
echo "Running impala shell to compute new table stats"
impala-shell -d $1 -f $2
echo "Impala shell finished"
rm $2

4
dhp-workflows/dhp-stats-promote/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/promoteCache.sh Normal file
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@ -0,0 +1,4 @@
#!/usr/bin/env bash
curl --request GET $1/cache/promoteCache

8
dhp-workflows/dhp-stats-promote/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/computeProductionStats.sql Normal file
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@ -0,0 +1,8 @@
------------------------------------------------------
------------------------------------------------------
-- Impala table statistics - Needed to make the tables
-- visible for impala
------------------------------------------------------
------------------------------------------------------
INVALIDATE METADATA ${stats_db_name};

207
dhp-workflows/dhp-stats-promote/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/updateProductionViews.sql Normal file
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@ -0,0 +1,207 @@
------------------------------------------------------
------------------------------------------------------
-- Shadow schema table exchange
------------------------------------------------------
------------------------------------------------------
-- Dropping old views
DROP VIEW IF EXISTS ${stats_db_production_name}.category;
DROP VIEW IF EXISTS ${stats_db_production_name}.concept;
DROP VIEW IF EXISTS ${stats_db_production_name}.context;
DROP VIEW IF EXISTS ${stats_db_production_name}.country;
DROP VIEW IF EXISTS ${stats_db_production_name}.countrygdp;
DROP VIEW IF EXISTS ${stats_db_production_name}.creation_date;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_citations;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_classifications;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_concepts;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_datasources;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_languages;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_licenses;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_oids;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_pids;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_refereed;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_sources;
DROP VIEW IF EXISTS ${stats_db_production_name}.dataset_topics;
DROP VIEW IF EXISTS ${stats_db_production_name}.datasource;
DROP VIEW IF EXISTS ${stats_db_production_name}.datasource_languages;
DROP VIEW IF EXISTS ${stats_db_production_name}.datasource_oids;
DROP VIEW IF EXISTS ${stats_db_production_name}.datasource_organizations;
DROP VIEW IF EXISTS ${stats_db_production_name}.datasource_results;
DROP VIEW IF EXISTS ${stats_db_production_name}.datasource_sources;
DROP VIEW IF EXISTS ${stats_db_production_name}.funder;
DROP VIEW IF EXISTS ${stats_db_production_name}.fundref;
DROP VIEW IF EXISTS ${stats_db_production_name}.numbers_country;
DROP VIEW IF EXISTS ${stats_db_production_name}.organization;
DROP VIEW IF EXISTS ${stats_db_production_name}.organization_datasources;
DROP VIEW IF EXISTS ${stats_db_production_name}.organization_pids;
DROP VIEW IF EXISTS ${stats_db_production_name}.organization_projects;
DROP VIEW IF EXISTS ${stats_db_production_name}.organization_sources;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_citations;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_classifications;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_concepts;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_datasources;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_languages;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_licenses;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_oids;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_pids;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_refereed;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_sources;
DROP VIEW IF EXISTS ${stats_db_production_name}.otherresearchproduct_topics;
DROP VIEW IF EXISTS ${stats_db_production_name}.project;
DROP VIEW IF EXISTS ${stats_db_production_name}.project_oids;
DROP VIEW IF EXISTS ${stats_db_production_name}.project_organizations;
DROP VIEW IF EXISTS ${stats_db_production_name}.project_results;
DROP VIEW IF EXISTS ${stats_db_production_name}.project_resultcount;
DROP VIEW IF EXISTS ${stats_db_production_name}.project_results_publication;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_citations;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_classifications;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_concepts;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_datasources;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_languages;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_licenses;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_oids;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_pids;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_refereed;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_sources;
DROP VIEW IF EXISTS ${stats_db_production_name}.publication_topics;
DROP VIEW IF EXISTS ${stats_db_production_name}.result;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_affiliated_country;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_citations;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_classifications;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_concepts;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_datasources;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_deposited_country;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_fundercount;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_gold;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_greenoa;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_languages;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_licenses;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_oids;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_organization;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_peerreviewed;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_pids;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_projectcount;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_projects;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_refereed;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_sources;
DROP VIEW IF EXISTS ${stats_db_production_name}.result_topics;
DROP VIEW IF EXISTS ${stats_db_production_name}.rndexpediture;
DROP VIEW IF EXISTS ${stats_db_production_name}.roarmap;
DROP VIEW IF EXISTS ${stats_db_production_name}.software;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_citations;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_classifications;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_concepts;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_datasources;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_languages;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_licenses;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_oids;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_pids;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_refereed;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_sources;
DROP VIEW IF EXISTS ${stats_db_production_name}.software_topics;
-- Creating the shadow database, in case it doesn't exist
CREATE database IF NOT EXISTS ${stats_db_production_name};
-- Creating new views
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.category AS SELECT * FROM ${stats_db_name}.category;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.concept AS SELECT * FROM ${stats_db_name}.concept;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.context AS SELECT * FROM ${stats_db_name}.context;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.country AS SELECT * FROM ${stats_db_name}.country;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.countrygdp AS SELECT * FROM ${stats_db_name}.countrygdp;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.creation_date AS SELECT * FROM ${stats_db_name}.creation_date;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset AS SELECT * FROM ${stats_db_name}.dataset;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_citations AS SELECT * FROM ${stats_db_name}.dataset_citations;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_classifications AS SELECT * FROM ${stats_db_name}.dataset_classifications;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_concepts AS SELECT * FROM ${stats_db_name}.dataset_concepts;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_datasources AS SELECT * FROM ${stats_db_name}.dataset_datasources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_languages AS SELECT * FROM ${stats_db_name}.dataset_languages;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_licenses AS SELECT * FROM ${stats_db_name}.dataset_licenses;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_oids AS SELECT * FROM ${stats_db_name}.dataset_oids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_pids AS SELECT * FROM ${stats_db_name}.dataset_pids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_refereed AS SELECT * FROM ${stats_db_name}.dataset_refereed;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_sources AS SELECT * FROM ${stats_db_name}.dataset_sources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.dataset_topics AS SELECT * FROM ${stats_db_name}.dataset_topics;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.datasource AS SELECT * FROM ${stats_db_name}.datasource;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.datasource_languages AS SELECT * FROM ${stats_db_name}.datasource_languages;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.datasource_oids AS SELECT * FROM ${stats_db_name}.datasource_oids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.datasource_organizations AS SELECT * FROM ${stats_db_name}.datasource_organizations;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.datasource_results AS SELECT * FROM ${stats_db_name}.datasource_results;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.datasource_sources AS SELECT * FROM ${stats_db_name}.datasource_sources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.funder AS SELECT * FROM ${stats_db_name}.funder;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.fundref AS SELECT * FROM ${stats_db_name}.fundref;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.numbers_country AS SELECT * FROM ${stats_db_name}.numbers_country;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.organization AS SELECT * FROM ${stats_db_name}.organization;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.organization_datasources AS SELECT * FROM ${stats_db_name}.organization_datasources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.organization_pids AS SELECT * FROM ${stats_db_name}.organization_pids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.organization_projects AS SELECT * FROM ${stats_db_name}.organization_projects;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.organization_sources AS SELECT * FROM ${stats_db_name}.organization_sources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct AS SELECT * FROM ${stats_db_name}.otherresearchproduct;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_citations AS SELECT * FROM ${stats_db_name}.otherresearchproduct_citations;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_classifications AS SELECT * FROM ${stats_db_name}.otherresearchproduct_classifications;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_concepts AS SELECT * FROM ${stats_db_name}.otherresearchproduct_concepts;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_datasources AS SELECT * FROM ${stats_db_name}.otherresearchproduct_datasources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_languages AS SELECT * FROM ${stats_db_name}.otherresearchproduct_languages;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_licenses AS SELECT * FROM ${stats_db_name}.otherresearchproduct_licenses;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_oids AS SELECT * FROM ${stats_db_name}.otherresearchproduct_oids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_pids AS SELECT * FROM ${stats_db_name}.otherresearchproduct_pids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_refereed AS SELECT * FROM ${stats_db_name}.otherresearchproduct_refereed;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_sources AS SELECT * FROM ${stats_db_name}.otherresearchproduct_sources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.otherresearchproduct_topics AS SELECT * FROM ${stats_db_name}.otherresearchproduct_topics;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.project AS SELECT * FROM ${stats_db_name}.project;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.project_oids AS SELECT * FROM ${stats_db_name}.project_oids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.project_organizations AS SELECT * FROM ${stats_db_name}.project_organizations;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.project_results AS SELECT * FROM ${stats_db_name}.project_results;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.project_resultcount AS SELECT * FROM ${stats_db_name}.project_resultcount;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.project_results_publication AS SELECT * FROM ${stats_db_name}.project_results_publication;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication AS SELECT * FROM ${stats_db_name}.publication;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_citations AS SELECT * FROM ${stats_db_name}.publication_citations;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_classifications AS SELECT * FROM ${stats_db_name}.publication_classifications;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_concepts AS SELECT * FROM ${stats_db_name}.publication_concepts;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_datasources AS SELECT * FROM ${stats_db_name}.publication_datasources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_languages AS SELECT * FROM ${stats_db_name}.publication_languages;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_licenses AS SELECT * FROM ${stats_db_name}.publication_licenses;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_oids AS SELECT * FROM ${stats_db_name}.publication_oids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_pids AS SELECT * FROM ${stats_db_name}.publication_pids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_refereed AS SELECT * FROM ${stats_db_name}.publication_refereed;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_sources AS SELECT * FROM ${stats_db_name}.publication_sources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.publication_topics AS SELECT * FROM ${stats_db_name}.publication_topics;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result AS SELECT * FROM ${stats_db_name}.result;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_affiliated_country AS SELECT * FROM ${stats_db_name}.result_affiliated_country;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_citations AS SELECT * FROM ${stats_db_name}.result_citations;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_classifications AS SELECT * FROM ${stats_db_name}.result_classifications;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_concepts AS SELECT * FROM ${stats_db_name}.result_concepts;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_datasources AS SELECT * FROM ${stats_db_name}.result_datasources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_deposited_country AS SELECT * FROM ${stats_db_name}.result_deposited_country;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_fundercount AS SELECT * FROM ${stats_db_name}.result_fundercount;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_gold AS SELECT * FROM ${stats_db_name}.result_gold;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_greenoa AS SELECT * FROM ${stats_db_name}.result_greenoa;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_languages AS SELECT * FROM ${stats_db_name}.result_languages;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_licenses AS SELECT * FROM ${stats_db_name}.result_licenses;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_oids AS SELECT * FROM ${stats_db_name}.result_oids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_organization AS SELECT * FROM ${stats_db_name}.result_organization;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_peerreviewed AS SELECT * FROM ${stats_db_name}.result_peerreviewed;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_pids AS SELECT * FROM ${stats_db_name}.result_pids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_projectcount AS SELECT * FROM ${stats_db_name}.result_projectcount;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_projects AS SELECT * FROM ${stats_db_name}.result_projects;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_refereed AS SELECT * FROM ${stats_db_name}.result_refereed;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_sources AS SELECT * FROM ${stats_db_name}.result_sources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.result_topics AS SELECT * FROM ${stats_db_name}.result_topics;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.rndexpediture AS SELECT * FROM ${stats_db_name}.rndexpediture;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.roarmap AS SELECT * FROM ${stats_db_name}.roarmap;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software AS SELECT * FROM ${stats_db_name}.software;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_citations AS SELECT * FROM ${stats_db_name}.software_citations;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_classifications AS SELECT * FROM ${stats_db_name}.software_classifications;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_concepts AS SELECT * FROM ${stats_db_name}.software_concepts;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_datasources AS SELECT * FROM ${stats_db_name}.software_datasources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_languages AS SELECT * FROM ${stats_db_name}.software_languages;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_licenses AS SELECT * FROM ${stats_db_name}.software_licenses;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_oids AS SELECT * FROM ${stats_db_name}.software_oids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_pids AS SELECT * FROM ${stats_db_name}.software_pids;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_refereed AS SELECT * FROM ${stats_db_name}.software_refereed;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_sources AS SELECT * FROM ${stats_db_name}.software_sources;
CREATE VIEW IF NOT EXISTS ${stats_db_production_name}.software_topics AS SELECT * FROM ${stats_db_name}.software_topics;

87
dhp-workflows/dhp-stats-promote/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/workflow.xml Normal file
View File

@ -0,0 +1,87 @@
<workflow-app name="Graph Stats" xmlns="uri:oozie:workflow:0.5">
<parameters>
<property>
<name>stats_db_name</name>
<description>the target stats database name</description>
</property>
<property>
<name>stats_db_production_name</name>
<description>the name of the production schema</description>
</property>
<property>
<name>stats_tool_api_url</name>
<description>The url of the API of the stats tool. Is used to trigger the cache promote.</description>
</property>
<property>
<name>hive_metastore_uris</name>
<description>hive server metastore URIs</description>
</property>
<property>
<name>hive_jdbc_url</name>
<description>hive server jdbc url</description>
</property>
<property>
<name>hive_timeout</name>
<description>the time period, in seconds, after which Hive fails a transaction if a Hive client has not sent a hearbeat. The default value is 300 seconds.</description>
</property>
</parameters>
<global>
<job-tracker>${jobTracker}</job-tracker>
<name-node>${nameNode}</name-node>
<configuration>
<property>
<name>hive.metastore.uris</name>
<value>${hive_metastore_uris}</value>
</property>
<property>
<name>hive.txn.timeout</name>
<value>${hive_timeout}</value>
</property>
</configuration>
</global>
<start to="updateProductionViews"/>
<kill name="Kill">
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
</kill>
<action name="updateProductionViews">
<hive2 xmlns="uri:oozie:hive2-action:0.1">
<jdbc-url>${hive_jdbc_url}</jdbc-url>
<script>scripts/updateProductionViews.sql</script>
<param>stats_db_name=${stats_db_name}</param>
<param>stats_db_production_name=${stats_db_production_name}</param>
</hive2>
<ok to="computeProductionStats"/>
<error to="Kill"/>
</action>
<action name="computeProductionStats">
<shell xmlns="uri:oozie:shell-action:0.1">
<job-tracker>${jobTracker}</job-tracker>
<name-node>${nameNode}</name-node>
<exec>impala-shell.sh</exec>
<argument>${stats_db_production_name}</argument>
<argument>computeProductionStats.sql</argument>
<argument>${wf:appPath()}/scripts/computeProductionStats.sql</argument>
<file>impala-shell.sh</file>
</shell>
<ok to="promoteCache"/>
<error to="Kill"/>
</action>
<action name="promoteCache">
<shell xmlns="uri:oozie:shell-action:0.1">
<job-tracker>${jobTracker}</job-tracker>
<name-node>${nameNode}</name-node>
<exec>promoteCache.sh</exec>
<argument>${stats_tool_api_url}</argument>
<file>promoteCache.sh</file>
</shell>
<ok to="End"/>
<error to="Kill"/>
</action>
<end name="End"/>
</workflow-app>

4
dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/config-default.xml
View File

@ -27,4 +27,8 @@
<name>oozie.wf.workflow.notification.url</name>
<value>{serviceUrl}/v1/oozieNotification/jobUpdate?jobId=$jobId%26status=$status</value>
</property>
<property>
<name>stats_tool_api_url</name>
<value>${stats_tool_api_url}</value>
</property>
</configuration>

2
dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step6.sql
View File

@ -11,7 +11,7 @@ CREATE TABLE ${stats_db_name}.project_oids AS SELECT substr(p.id, 4) AS id, oids
-- Project_organizations Table
DROP TABLE IF EXISTS ${stats_db_name}.project_organizations;
CREATE TABLE ${stats_db_name}.project_organizations AS SELECT substr(r.source, 4) AS id, substr(r.target, 4) AS organization from ${openaire_db_name}.relation r WHERE r.reltype='projectOrganization';
CREATE TABLE ${stats_db_name}.project_organizations AS SELECT substr(r.source, 4) AS id, substr(r.target, 4) AS organization from ${openaire_db_name}.relation r WHERE r.reltype='projectOrganization' and r.datainfo.deletedbyinference=false;
-- Project_results Table
DROP TABLE IF EXISTS ${stats_db_name}.project_results;

2
dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step7.sql
View File

@ -25,7 +25,7 @@ CREATE OR REPLACE VIEW ${stats_db_name}.result_pids AS SELECT * FROM ${stats_db_
CREATE OR REPLACE VIEW ${stats_db_name}.result_topics AS SELECT * FROM ${stats_db_name}.publication_topics UNION ALL SELECT * FROM ${stats_db_name}.software_topics UNION ALL SELECT * FROM ${stats_db_name}.dataset_topics UNION ALL SELECT * FROM ${stats_db_name}.otherresearchproduct_topics;
DROP TABLE IF EXISTS ${stats_db_name}.result_organization;
CREATE TABLE ${stats_db_name}.result_organization AS SELECT substr(r.target, 4) AS id, substr(r.source, 4) AS organization FROM ${openaire_db_name}.relation r WHERE r.reltype='resultOrganization';
CREATE TABLE ${stats_db_name}.result_organization AS SELECT substr(r.target, 4) AS id, substr(r.source, 4) AS organization FROM ${openaire_db_name}.relation r WHERE r.reltype='resultOrganization' and r.datainfo.deletedbyinference=false;
DROP TABLE IF EXISTS ${stats_db_name}.result_projects;
CREATE TABLE ${stats_db_name}.result_projects AS select pr.result AS id, pr.id AS project, datediff(p.enddate, p.startdate) AS daysfromend FROM ${stats_db_name}.result r JOIN ${stats_db_name}.project_results pr ON r.id=pr.result JOIN ${stats_db_name}.project_tmp p ON p.id=pr.id;

2
dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step8.sql
View File

@ -47,7 +47,7 @@ DROP TABLE IF EXISTS ${stats_db_name}.datasource_oids;
CREATE TABLE ${stats_db_name}.datasource_oids AS SELECT substr(d.id, 4) AS id, oids.ids AS oid FROM ${openaire_db_name}.datasource d LATERAL VIEW explode(d.originalid) oids AS ids;
DROP TABLE IF EXISTS ${stats_db_name}.datasource_organizations;
CREATE TABLE ${stats_db_name}.datasource_organizations AS SELECT substr(r.target, 4) AS id, substr(r.source, 4) AS organization FROM ${openaire_db_name}.relation r WHERE r.reltype='datasourceOrganization';
CREATE TABLE ${stats_db_name}.datasource_organizations AS SELECT substr(r.target, 4) AS id, substr(r.source, 4) AS organization FROM ${openaire_db_name}.relation r WHERE r.reltype='datasourceOrganization' and r.datainfo.deletedbyinference=false;
-- datasource sources:
-- where the datasource info have been collected from.

4
dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/updateCache.sh Normal file
View File

@ -0,0 +1,4 @@
#!/usr/bin/env bash
curl --request GET $1/cache/updateCache

22
dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/workflow.xml
View File

@ -17,6 +17,10 @@
<name>stats_db_shadow_name</name>
<description>the name of the shadow schema</description>
</property>
<property>
<name>stats_tool_api_url</name>
<description>The url of the API of the stats tool. Is used to trigger the cache update.</description>
</property>
<property>
<name>hive_metastore_uris</name>
<description>hive server metastore URIs</description>
@ -255,7 +259,7 @@
<action name="Step17">
<hive2 xmlns="uri:oozie:hive2-action:0.1">
<jdbc-url>${hive_jdbc_url}</jdbc-url>
<script>scripts/step17.sql</script>
<script>scripts/updateProductionViews.sql</script>
<param>stats_db_name=${stats_db_name}</param>
<param>stats_db_shadow_name=${stats_db_shadow_name}</param>
</hive2>
@ -283,10 +287,22 @@
<name-node>${nameNode}</name-node>
<exec>impala-shell.sh</exec>
<argument>${stats_db_shadow_name}</argument>
<argument>step19.sql</argument>
<argument>${wf:appPath()}/scripts/step19.sql</argument>
<argument>computeProductionStats.sql</argument>
<argument>${wf:appPath()}/scripts/computeProductionStats.sql</argument>
<file>impala-shell.sh</file>
</shell>
<ok to="Step20"/>
<error to="Kill"/>
</action>
<action name="Step20">
<shell xmlns="uri:oozie:shell-action:0.1">
<job-tracker>${jobTracker}</job-tracker>
<name-node>${nameNode}</name-node>
<exec>updateCache.sh</exec>
<argument>${stats_tool_api_url}</argument>
<file>updateCache.sh</file>
</shell>
<ok to="End"/>
<error to="Kill"/>
</action>