diff --git a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/config-default.xml b/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/config-default.xml deleted file mode 100644 index b2a1322e6..000000000 --- a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/config-default.xml +++ /dev/null @@ -1,30 +0,0 @@ - - - jobTracker - ${jobTracker} - - - nameNode - ${nameNode} - - - oozie.use.system.libpath - true - - - oozie.action.sharelib.for.spark - spark2 - - - hive_metastore_uris - thrift://iis-cdh5-test-m3.ocean.icm.edu.pl:9083 - - - hive_jdbc_url - jdbc:hive2://iis-cdh5-test-m3.ocean.icm.edu.pl:10000/;UseNativeQuery=1;?spark.executor.memory=22166291558;spark.yarn.executor.memoryOverhead=3225;spark.driver.memory=15596411699;spark.yarn.driver.memoryOverhead=1228 - - - oozie.wf.workflow.notification.url - {serviceUrl}/v1/oozieNotification/jobUpdate?jobId=$jobId%26status=$status - - \ No newline at end of file diff --git a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/copyDataToImpalaCluster.sh b/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/copyDataToImpalaCluster.sh deleted file mode 100644 index 1587f7152..000000000 --- a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/copyDataToImpalaCluster.sh +++ /dev/null @@ -1,75 +0,0 @@ -export PYTHON_EGG_CACHE=/home/$(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 - -#export HADOOP_USER_NAME=$2 - -function copydb() { - - export HADOOP_USER="dimitris.pierrakos" - export HADOOP_USER_NAME='dimitris.pierrakos' - - db=$1 - FILE=("hive_wf_tmp_"$RANDOM) - hdfs dfs -mkdir hdfs://impala-cluster-mn1.openaire.eu:8020/tmp/$FILE/ - - # change ownership to impala -# hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db - hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/ - - - # copy the databases from ocean to impala - echo "copying $db" - hadoop distcp -Dmapreduce.map.memory.mb=6144 -pb hdfs://nameservice1/user/hive/warehouse/${db}.db hdfs://impala-cluster-mn1.openaire.eu:8020/tmp/$FILE/ - - hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db - - # drop tables from db - for i in `impala-shell -i impala-cluster-dn1.openaire.eu -d ${db} --delimited -q "show tables"`; - do - `impala-shell -i impala-cluster-dn1.openaire.eu -d ${db} -q "drop table $i;"`; - done - - # drop views from db - for i in `impala-shell -i impala-cluster-dn1.openaire.eu -d ${db} --delimited -q "show tables"`; - do - `impala-shell -i impala-cluster-dn1.openaire.eu -d ${db} -q "drop view $i;"`; - done - - # delete the database - impala-shell -i impala-cluster-dn1.openaire.eu -q "drop database if exists ${db} cascade"; - - # create the databases - impala-shell -i impala-cluster-dn1.openaire.eu -q "create database ${db}"; - - impala-shell -q "INVALIDATE METADATA" - echo "creating schema for ${db}" - for (( k = 0; k < 5; k ++ )); do - for i in `impala-shell -d ${db} --delimited -q "show tables"`; - do - impala-shell -d ${db} --delimited -q "show create table $i"; - done | sed 's/"$/;/' | sed 's/^"//' | sed 's/[[:space:]]\date[[:space:]]/`date`/g' | impala-shell --user $HADOOP_USER_NAME -i impala-cluster-dn1.openaire.eu -c -f - - done - - # load the data from /tmp in the respective tables - echo "copying data in tables and computing stats" - for i in `impala-shell -i impala-cluster-dn1.openaire.eu -d ${db} --delimited -q "show tables"`; - do - impala-shell -i impala-cluster-dn1.openaire.eu -d ${db} -q "load data inpath '/tmp/$FILE/${db}.db/$i' into table $i"; - impala-shell -i impala-cluster-dn1.openaire.eu -d ${db} -q "compute stats $i"; - done - - # deleting the remaining directory from hdfs -hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -rm -R /tmp/$FILE/${db}.db -} - -MONITOR_DB=$1 -#HADOOP_USER_NAME=$2 - -copydb $MONITOR_DB'_institutions' -copydb $MONITOR_DB - diff --git a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/finalizeImpalaCluster.sh b/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/finalizeImpalaCluster.sh deleted file mode 100644 index a7227e0c8..000000000 --- a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/finalizeImpalaCluster.sh +++ /dev/null @@ -1,29 +0,0 @@ -export PYTHON_EGG_CACHE=/home/$(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 - -function createShadowDB() { - SOURCE=$1 - SHADOW=$2 - - # drop views from db - for i in `impala-shell -i impala-cluster-dn1.openaire.eu -d ${SHADOW} --delimited -q "show tables"`; - do - `impala-shell -i impala-cluster-dn1.openaire.eu -d ${SHADOW} -q "drop view $i;"`; - done - - impala-shell -i impala-cluster-dn1.openaire.eu -q "drop database ${SHADOW} CASCADE"; - impala-shell -i impala-cluster-dn1.openaire.eu -q "create database if not exists ${SHADOW}"; -# impala-shell -i impala-cluster-dn1.openaire.eu -d ${SHADOW} -q "show tables" | sed "s/^/drop view if exists ${SHADOW}./" | sed "s/$/;/" | impala-shell -i impala-cluster-dn1.openaire.eu -f - - impala-shell -i impala-cluster-dn1.openaire.eu -d ${SOURCE} -q "show tables" --delimited | sed "s/\(.*\)/create view ${SHADOW}.\1 as select * from ${SOURCE}.\1;/" | impala-shell -i impala-cluster-dn1.openaire.eu -f - -} - -MONITOR_DB=$1 -MONITOR_DB_SHADOW=$2 - -createShadowDB $MONITOR_DB'_institutions' $MONITOR_DB'_institutions_shadow' -createShadowDB $MONITOR_DB $MONITOR_DB'_shadow' diff --git a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/monitor.sh b/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/monitor.sh deleted file mode 100644 index 4f1889c9e..000000000 --- a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/monitor.sh +++ /dev/null @@ -1,54 +0,0 @@ -export PYTHON_EGG_CACHE=/home/$(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 - -export SOURCE=$1 -export TARGET=$2 -export SHADOW=$3 -export SCRIPT_PATH=$4 -export SCRIPT_PATH2=$5 -export SCRIPT_PATH2=$6 - -export HIVE_OPTS="-hiveconf mapred.job.queue.name=analytics -hiveconf hive.spark.client.connect.timeout=120000ms -hiveconf hive.spark.client.server.connect.timeout=300000ms -hiveconf spark.executor.memory=19166291558 -hiveconf spark.yarn.executor.memoryOverhead=3225 -hiveconf spark.driver.memory=11596411699 -hiveconf spark.yarn.driver.memoryOverhead=1228" -export HADOOP_USER_NAME="oozie" - -echo "Getting file from " $4 -hdfs dfs -copyToLocal $4 - -echo "Getting file from " $5 -hdfs dfs -copyToLocal $5 - -echo "Getting file from " $6 -hdfs dfs -copyToLocal $6 - -#update Institutions DB -cat updateMonitorDB_institutions.sql | sed "s/SOURCE/$1/g" | sed "s/TARGET/$2_institutions/g1" > foo -hive $HIVE_OPTS -f foo -cat updateMonitorDB.sql | sed "s/SOURCE/$1/g" | sed "s/TARGET/$2_institutions/g1" > foo -hive $HIVE_OPTS -f foo - -echo "Hive shell finished" - -echo "Updating shadow monitor insitutions database" -hive -e "drop database if exists ${SHADOW}_institutions cascade" -hive -e "create database if not exists ${SHADOW}_institutions" -hive $HIVE_OPTS --database ${2}_institutions -e "show tables" | grep -v WARN | sed "s/\(.*\)/create view ${SHADOW}_institutions.\1 as select * from ${2}_institutions.\1;/" > foo -hive -f foo -echo "Shadow db monitor insitutions ready!" - -#update Monitor DB -cat updateMonitorDBAll.sql | sed "s/SOURCE/$1/g" | sed "s/TARGET/$2/g1" > foo -hive $HIVE_OPTS -f foo - -echo "Hive shell finished" - -echo "Updating shadow monitor database" -hive -e "drop database if exists ${SHADOW} cascade" -hive -e "create database if not exists ${SHADOW}" -hive $HIVE_OPTS --database ${2} -e "show tables" | grep -v WARN | sed "s/\(.*\)/create view ${SHADOW}.\1 as select * from ${2}.\1;/" > foo -hive -f foo -echo "Shadow db monitor insitutions ready!" diff --git a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDB.sql b/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDB.sql deleted file mode 100644 index 248b7e564..000000000 --- a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDB.sql +++ /dev/null @@ -1,138 +0,0 @@ -INSERT INTO TARGET.result select * from TARGET.result_new; -ANALYZE TABLE TARGET.result COMPUTE STATISTICS; - -INSERT INTO TARGET.result_citations select * from SOURCE.result_citations orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_citations COMPUTE STATISTICS; - -INSERT INTO TARGET.result_references_oc select * from SOURCE.result_references_oc orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_references_oc COMPUTE STATISTICS; - -INSERT INTO TARGET.result_classifications select * from SOURCE.result_classifications orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_classifications COMPUTE STATISTICS; - -INSERT INTO TARGET.result_apc select * from SOURCE.result_apc orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_apc COMPUTE STATISTICS; - -INSERT INTO TARGET.result_concepts select * from SOURCE.result_concepts orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_concepts COMPUTE STATISTICS; - -INSERT INTO TARGET.result_datasources select * from SOURCE.result_datasources orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_datasources COMPUTE STATISTICS; - -INSERT INTO TARGET.result_fundercount select * from SOURCE.result_fundercount orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_fundercount COMPUTE STATISTICS; - -INSERT INTO TARGET.result_gold select * from SOURCE.result_gold orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_gold COMPUTE STATISTICS; - -INSERT INTO TARGET.result_greenoa select * from SOURCE.result_greenoa orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_greenoa COMPUTE STATISTICS; - -INSERT INTO TARGET.result_languages select * from SOURCE.result_languages orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_languages COMPUTE STATISTICS; - -INSERT INTO TARGET.result_licenses select * from SOURCE.result_licenses orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_licenses COMPUTE STATISTICS; - -INSERT INTO TARGET.result_oids select * from SOURCE.result_oids orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_oids COMPUTE STATISTICS; - -INSERT INTO TARGET.result_organization select * from SOURCE.result_organization orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_organization COMPUTE STATISTICS; - -INSERT INTO TARGET.result_peerreviewed select * from SOURCE.result_peerreviewed orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_peerreviewed COMPUTE STATISTICS; - -INSERT INTO TARGET.result_pids select * from SOURCE.result_pids orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_pids COMPUTE STATISTICS; - -INSERT INTO TARGET.result_projectcount select * from SOURCE.result_projectcount orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_projectcount COMPUTE STATISTICS; - -INSERT INTO TARGET.result_projects select * from SOURCE.result_projects orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_projects COMPUTE STATISTICS; - -INSERT INTO TARGET.result_refereed select * from SOURCE.result_refereed orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_refereed COMPUTE STATISTICS; - -INSERT INTO TARGET.result_sources select * from SOURCE.result_sources orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_sources COMPUTE STATISTICS; - -INSERT INTO TARGET.result_topics select * from SOURCE.result_topics orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_topics COMPUTE STATISTICS; - -INSERT INTO TARGET.result_fos select * from SOURCE.result_fos orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_fos COMPUTE STATISTICS; - -INSERT INTO TARGET.result_accessroute select * from SOURCE.result_accessroute orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_accessroute COMPUTE STATISTICS; - -create or replace view TARGET.foo1 as select * from SOURCE.result_result rr where rr.source in (select id from TARGET.result_new); -create or replace view TARGET.foo2 as select * from SOURCE.result_result rr where rr.target in (select id from TARGET.result_new); -insert into TARGET.result_result select distinct * from (select * from TARGET.foo1 union all select * from TARGET.foo2) foufou; -drop view TARGET.foo1; -drop view TARGET.foo2; -ANALYZE TABLE TARGET.result_result COMPUTE STATISTICS; - - --- indicators --- Sprint 1 ---- -INSERT INTO TARGET.indi_pub_green_oa select * from SOURCE.indi_pub_green_oa orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_green_oa COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_grey_lit select * from SOURCE.indi_pub_grey_lit orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_grey_lit COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_doi_from_crossref select * from SOURCE.indi_pub_doi_from_crossref orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_doi_from_crossref COMPUTE STATISTICS; --- Sprint 2 ---- -INSERT INTO TARGET.indi_result_has_cc_licence select * from SOURCE.indi_result_has_cc_licence orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_has_cc_licence COMPUTE STATISTICS; -INSERT INTO TARGET.indi_result_has_cc_licence_url select * from SOURCE.indi_result_has_cc_licence_url orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_has_cc_licence_url COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_has_abstract select * from SOURCE.indi_pub_has_abstract orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_has_abstract COMPUTE STATISTICS; -INSERT INTO TARGET.indi_result_with_orcid select * from SOURCE.indi_result_with_orcid orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_with_orcid COMPUTE STATISTICS; ----- Sprint 3 ---- -INSERT INTO TARGET.indi_funded_result_with_fundref select * from SOURCE.indi_funded_result_with_fundref orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_funded_result_with_fundref COMPUTE STATISTICS; - ----- Sprint 4 ---- -INSERT INTO TARGET.indi_pub_diamond select * from SOURCE.indi_pub_diamond orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_diamond COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_in_transformative select * from SOURCE.indi_pub_in_transformative orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_in_transformative COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_closed_other_open select * from SOURCE.indi_pub_closed_other_open orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_closed_other_open COMPUTE STATISTICS; ----- Sprint 5 ---- -INSERT INTO TARGET.indi_result_no_of_copies select * from SOURCE.indi_result_no_of_copies orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_no_of_copies COMPUTE STATISTICS; ----- Sprint 6 ---- -INSERT INTO TARGET.indi_pub_hybrid_oa_with_cc select * from SOURCE.indi_pub_hybrid_oa_with_cc orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_hybrid_oa_with_cc COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_bronze_oa select * from SOURCE.indi_pub_bronze_oa orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_bronze_oa COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_downloads select * from SOURCE.indi_pub_downloads orig where exists (select 1 from TARGET.result_new r where r.id=orig.result_id); -ANALYZE TABLE TARGET.indi_pub_downloads COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_downloads_datasource select * from SOURCE.indi_pub_downloads_datasource orig where exists (select 1 from TARGET.result_new r where r.id=orig.result_id); -ANALYZE TABLE TARGET.indi_pub_downloads_datasource COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_downloads_year select * from SOURCE.indi_pub_downloads_year orig where exists (select 1 from TARGET.result_new r where r.id=orig.result_id); -ANALYZE TABLE TARGET.indi_pub_downloads_year COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_downloads_datasource_year select * from SOURCE.indi_pub_downloads_datasource_year orig where exists (select 1 from TARGET.result_new r where r.id=orig.result_id); -ANALYZE TABLE TARGET.indi_pub_downloads_datasource_year COMPUTE STATISTICS; ----- Sprint 7 ---- -INSERT INTO TARGET.indi_pub_gold_oa select * from SOURCE.indi_pub_gold_oa orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_gold_oa COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_hybrid select * from SOURCE.indi_pub_hybrid orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_hybrid COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_has_preprint select * from SOURCE.indi_pub_has_preprint orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_has_preprint COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_in_subscribed select * from SOURCE.indi_pub_in_subscribed orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_in_subscribed COMPUTE STATISTICS; -INSERT INTO TARGET.indi_result_with_pid select * from SOURCE.indi_result_with_pid orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_with_pid COMPUTE STATISTICS; -INSERT INTO TARGET.indi_impact_measures select * from SOURCE.indi_impact_measures orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_impact_measures COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_interdisciplinarity select * from SOURCE.indi_pub_interdisciplinarity orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_interdisciplinarity COMPUTE STATISTICS; - -DROP TABLE IF EXISTS TARGET.result_new; \ No newline at end of file diff --git a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDBAll.sql b/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDBAll.sql deleted file mode 100644 index 478e3824e..000000000 --- a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDBAll.sql +++ /dev/null @@ -1,150 +0,0 @@ -DROP TABLE IF EXISTS TARGET.result_new; - -create table TARGET.result_new as - select distinct * from ( - select * from SOURCE.result r where exists (select 1 from SOURCE.result_organization ro where ro.id=r.id and ro.organization in ( - 'openorgs____::4d4051b56708688235252f1d8fddb8c1', --Iscte - Instituto Universitário de Lisboa - 'openorgs____::ab4ac74c35fa5dada770cf08e5110fab' -- Universidade Católica Portuguesa - ) )) foo; - -INSERT INTO TARGET.result select * from TARGET.result_new; -ANALYZE TABLE TARGET.result_new COMPUTE STATISTICS; - -INSERT INTO TARGET.result select * from TARGET.result_new; -ANALYZE TABLE TARGET.result COMPUTE STATISTICS; - -INSERT INTO TARGET.result_citations select * from SOURCE.result_citations orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_citations COMPUTE STATISTICS; - -INSERT INTO TARGET.result_references_oc select * from SOURCE.result_references_oc orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_references_oc COMPUTE STATISTICS; - -INSERT INTO TARGET.result_classifications select * from SOURCE.result_classifications orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_classifications COMPUTE STATISTICS; - -INSERT INTO TARGET.result_apc select * from SOURCE.result_apc orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_apc COMPUTE STATISTICS; - -INSERT INTO TARGET.result_concepts select * from SOURCE.result_concepts orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_concepts COMPUTE STATISTICS; - -INSERT INTO TARGET.result_datasources select * from SOURCE.result_datasources orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_datasources COMPUTE STATISTICS; - -INSERT INTO TARGET.result_fundercount select * from SOURCE.result_fundercount orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_fundercount COMPUTE STATISTICS; - -INSERT INTO TARGET.result_gold select * from SOURCE.result_gold orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_gold COMPUTE STATISTICS; - -INSERT INTO TARGET.result_greenoa select * from SOURCE.result_greenoa orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_greenoa COMPUTE STATISTICS; - -INSERT INTO TARGET.result_languages select * from SOURCE.result_languages orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_languages COMPUTE STATISTICS; - -INSERT INTO TARGET.result_licenses select * from SOURCE.result_licenses orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_licenses COMPUTE STATISTICS; - -INSERT INTO TARGET.result_oids select * from SOURCE.result_oids orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_oids COMPUTE STATISTICS; - -INSERT INTO TARGET.result_organization select * from SOURCE.result_organization orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_organization COMPUTE STATISTICS; - -INSERT INTO TARGET.result_peerreviewed select * from SOURCE.result_peerreviewed orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_peerreviewed COMPUTE STATISTICS; - -INSERT INTO TARGET.result_pids select * from SOURCE.result_pids orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_pids COMPUTE STATISTICS; - -INSERT INTO TARGET.result_projectcount select * from SOURCE.result_projectcount orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_projectcount COMPUTE STATISTICS; - -INSERT INTO TARGET.result_projects select * from SOURCE.result_projects orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_projects COMPUTE STATISTICS; - -INSERT INTO TARGET.result_refereed select * from SOURCE.result_refereed orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_refereed COMPUTE STATISTICS; - -INSERT INTO TARGET.result_sources select * from SOURCE.result_sources orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_sources COMPUTE STATISTICS; - -INSERT INTO TARGET.result_topics select * from SOURCE.result_topics orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_topics COMPUTE STATISTICS; - -INSERT INTO TARGET.result_fos select * from SOURCE.result_fos orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_fos COMPUTE STATISTICS; - -INSERT INTO TARGET.result_accessroute select * from SOURCE.result_accessroute orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.result_accessroute COMPUTE STATISTICS; - -create or replace view TARGET.foo1 as select * from SOURCE.result_result rr where rr.source in (select id from TARGET.result_new); -create or replace view TARGET.foo2 as select * from SOURCE.result_result rr where rr.target in (select id from TARGET.result_new); -insert into TARGET.result_result select distinct * from (select * from TARGET.foo1 union all select * from TARGET.foo2) foufou; -drop view TARGET.foo1; -drop view TARGET.foo2; -ANALYZE TABLE TARGET.result_result COMPUTE STATISTICS; - - --- indicators --- Sprint 1 ---- -INSERT INTO TARGET.indi_pub_green_oa select * from SOURCE.indi_pub_green_oa orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_green_oa COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_grey_lit select * from SOURCE.indi_pub_grey_lit orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_grey_lit COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_doi_from_crossref select * from SOURCE.indi_pub_doi_from_crossref orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_doi_from_crossref COMPUTE STATISTICS; --- Sprint 2 ---- -INSERT INTO TARGET.indi_result_has_cc_licence select * from SOURCE.indi_result_has_cc_licence orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_has_cc_licence COMPUTE STATISTICS; -INSERT INTO TARGET.indi_result_has_cc_licence_url select * from SOURCE.indi_result_has_cc_licence_url orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_has_cc_licence_url COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_has_abstract select * from SOURCE.indi_pub_has_abstract orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_has_abstract COMPUTE STATISTICS; -INSERT INTO TARGET.indi_result_with_orcid select * from SOURCE.indi_result_with_orcid orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_with_orcid COMPUTE STATISTICS; ----- Sprint 3 ---- -INSERT INTO TARGET.indi_funded_result_with_fundref select * from SOURCE.indi_funded_result_with_fundref orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_funded_result_with_fundref COMPUTE STATISTICS; - ----- Sprint 4 ---- -INSERT INTO TARGET.indi_pub_diamond select * from SOURCE.indi_pub_diamond orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_diamond COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_in_transformative select * from SOURCE.indi_pub_in_transformative orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_in_transformative COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_closed_other_open select * from SOURCE.indi_pub_closed_other_open orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_closed_other_open COMPUTE STATISTICS; ----- Sprint 5 ---- -INSERT INTO TARGET.indi_result_no_of_copies select * from SOURCE.indi_result_no_of_copies orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_no_of_copies COMPUTE STATISTICS; ----- Sprint 6 ---- -INSERT INTO TARGET.indi_pub_hybrid_oa_with_cc select * from SOURCE.indi_pub_hybrid_oa_with_cc orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_hybrid_oa_with_cc COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_bronze_oa select * from SOURCE.indi_pub_bronze_oa orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_bronze_oa COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_downloads select * from SOURCE.indi_pub_downloads orig where exists (select 1 from TARGET.result_new r where r.id=orig.result_id); -ANALYZE TABLE TARGET.indi_pub_downloads COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_downloads_datasource select * from SOURCE.indi_pub_downloads_datasource orig where exists (select 1 from TARGET.result_new r where r.id=orig.result_id); -ANALYZE TABLE TARGET.indi_pub_downloads_datasource COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_downloads_year select * from SOURCE.indi_pub_downloads_year orig where exists (select 1 from TARGET.result_new r where r.id=orig.result_id); -ANALYZE TABLE TARGET.indi_pub_downloads_year COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_downloads_datasource_year select * from SOURCE.indi_pub_downloads_datasource_year orig where exists (select 1 from TARGET.result_new r where r.id=orig.result_id); -ANALYZE TABLE TARGET.indi_pub_downloads_datasource_year COMPUTE STATISTICS; ----- Sprint 7 ---- -INSERT INTO TARGET.indi_pub_gold_oa select * from SOURCE.indi_pub_gold_oa orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_gold_oa COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_hybrid select * from SOURCE.indi_pub_hybrid orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_hybrid COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_has_preprint select * from SOURCE.indi_pub_has_preprint orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_has_preprint COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_in_subscribed select * from SOURCE.indi_pub_in_subscribed orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_in_subscribed COMPUTE STATISTICS; -INSERT INTO TARGET.indi_result_with_pid select * from SOURCE.indi_result_with_pid orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_result_with_pid COMPUTE STATISTICS; -INSERT INTO TARGET.indi_impact_measures select * from SOURCE.indi_impact_measures orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_impact_measures COMPUTE STATISTICS; -INSERT INTO TARGET.indi_pub_interdisciplinarity select * from SOURCE.indi_pub_interdisciplinarity orig where exists (select 1 from TARGET.result_new r where r.id=orig.id); -ANALYZE TABLE TARGET.indi_pub_interdisciplinarity COMPUTE STATISTICS; - -DROP TABLE IF EXISTS TARGET.result_new; diff --git a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDB_institutions.sql b/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDB_institutions.sql deleted file mode 100644 index 236f3733f..000000000 --- a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/scripts/updateMonitorDB_institutions.sql +++ /dev/null @@ -1,12 +0,0 @@ -DROP TABLE IF EXISTS TARGET.result_new; - -create table TARGET.result_new as - select distinct * from ( - select * from SOURCE.result r where exists (select 1 from SOURCE.result_organization ro where ro.id=r.id and ro.organization in ( - 'openorgs____::4d4051b56708688235252f1d8fddb8c1', --Iscte - Instituto Universitário de Lisboa - 'openorgs____::ab4ac74c35fa5dada770cf08e5110fab' -- Universidade Católica Portuguesa - ) )) foo; - -INSERT INTO TARGET.result select * from TARGET.result_new; -ANALYZE TABLE TARGET.result_new COMPUTE STATISTICS; - diff --git a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/workflow.xml b/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/workflow.xml deleted file mode 100644 index 7b999a843..000000000 --- a/dhp-workflows/dhp-stats-monitor-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats-monitor/oozie_app/workflow.xml +++ /dev/null @@ -1,110 +0,0 @@ - - - - stats_db_name - the target stats database name - - - monitor_db_name - the target monitor db name - - - monitor_db_shadow_name - the name of the shadow monitor db - - - hive_metastore_uris - hive server metastore URIs - - - hive_jdbc_url - hive server jdbc url - - - hive_timeout - 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. - - - hadoop_user_name - user name of the wf owner - - - - - ${jobTracker} - ${nameNode} - - - hive.metastore.uris - ${hive_metastore_uris} - - - hive.txn.timeout - ${hive_timeout} - - - mapred.job.queue.name - analytics - - - - - - - - ${wf:conf('resumeFrom') eq 'Step1-updateMonitorDB'} - ${wf:conf('resumeFrom') eq 'Step2-copyDataToImpalaCluster'} - ${wf:conf('resumeFrom') eq 'Step3-finalizeImpalaCluster'} - - - - - - Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}] - - - - - ${jobTracker} - ${nameNode} - monitor.sh - ${stats_db_name} - ${monitor_db_name} - ${monitor_db_shadow_name} - ${wf:appPath()}/scripts/updateMonitorDB_institutions.sql - ${wf:appPath()}/scripts/updateMonitorDB.sql - ${wf:appPath()}/scripts/updateMonitorDBAll.sql - monitor.sh - - - - - - - - ${jobTracker} - ${nameNode} - copyDataToImpalaCluster.sh - ${monitor_db_name} - ${hadoop_user_name} - copyDataToImpalaCluster.sh - - - - - - - - ${jobTracker} - ${nameNode} - finalizeImpalaCluster.sh - ${monitor_db_name} - ${monitor_db_shadow_name} - finalizeImpalaCluster.sh - - - - - - -