Merge branch 'beta' into convert_hive_to_spark_actions
# Conflicts: # dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step15.sql # dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step15_5.sql # dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step16_1-definitions.sql # dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step16_5.sql # dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step2.sql # dhp-workflows/dhp-stats-update/src/main/resources/eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step7.sql
This commit is contained in:
commit
e0ac494859
|
|
@ -8,6 +8,8 @@ fi
|
|||
|
||||
export HADOOP_USER_NAME=$2
|
||||
|
||||
SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR=0
|
||||
|
||||
|
||||
# Set the active HDFS node of OCEAN and IMPALA cluster.
|
||||
OCEAN_HDFS_NODE='hdfs://nameservice1'
|
||||
|
|
@ -30,7 +32,9 @@ while [ $COUNTER -lt 3 ]; do
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|||
done
|
||||
if [ -z "$IMPALA_HDFS_NODE" ]; then
|
||||
echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
|
||||
exit 1
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 1
|
||||
fi
|
||||
fi
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||||
echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
|
||||
|
||||
|
|
@ -39,26 +43,25 @@ IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
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|||
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IMPALA_HDFS_DB_BASE_PATH="${IMPALA_HDFS_NODE}/user/hive/warehouse"
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||||
|
||||
|
||||
# Set sed arguments.
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||||
LOCATION_HDFS_NODE_SED_ARG="s|${OCEAN_HDFS_NODE}|${IMPALA_HDFS_NODE}|g" # This requires to be used with "sed -e" in order to have the "|" delimiter (as the "/" conflicts with the URIs)
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||||
|
||||
# Set the SED command arguments for column-names with reserved words:
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||||
DATE_SED_ARG_1='s/[[:space:]]\date[[:space:]]/\`date\`/g'
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||||
DATE_SED_ARG_2='s/\.date,/\.\`date\`,/g' # the "date" may be part of a larger field name like "datestamp" or "date_aggregated", so we need to be careful with what we are replacing.
|
||||
DATE_SED_ARG_3='s/\.date[[:space:]]/\.\`date\` /g'
|
||||
|
||||
HASH_SED_ARG_1='s/[[:space:]]\hash[[:space:]]/\`hash\`/g'
|
||||
HASH_SED_ARG_2='s/\.hash,/\.\`hash\`,/g'
|
||||
HASH_SED_ARG_3='s/\.hash[[:space:]]/\.\`hash\` /g'
|
||||
|
||||
LOCATION_SED_ARG_1='s/[[:space:]]\location[[:space:]]/\`location\`/g'
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||||
LOCATION_SED_ARG_2='s/\.location,/\.\`location\`,/g'
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||||
LOCATION_SED_ARG_3='s/\.location[[:space:]]/\.\`location\` /g'
|
||||
function print_elapsed_time()
|
||||
{
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||||
start_time=$1
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||||
end_time=$(date +%s)
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||||
elapsed_time=$(($end_time-$start_time))
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||||
hours=$((elapsed_time / 3600))
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||||
minutes=$(((elapsed_time % 3600) / 60))
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||||
seconds=$((elapsed_time % 60))
|
||||
printf "\nElapsed time: %02d:%02d:%02d\n\n" $hours $minutes $seconds
|
||||
}
|
||||
|
||||
|
||||
function copydb() {
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||||
db=$1
|
||||
start_db_time=$(date +%s)
|
||||
echo -e "\nStart processing db: '${db}'..\n"
|
||||
|
||||
# Delete the old DB from Impala cluster (if exists).
|
||||
|
|
@ -67,7 +70,9 @@ function copydb() {
|
|||
if [ -n "$log_errors" ]; then
|
||||
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
|
||||
rm -f error.log
|
||||
exit 2
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 2
|
||||
fi
|
||||
fi
|
||||
|
||||
echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
|
||||
|
|
@ -91,7 +96,9 @@ function copydb() {
|
|||
else
|
||||
echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT EXIT STATUS: $?\n\n"
|
||||
rm -f error.log
|
||||
exit 3
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 3
|
||||
fi
|
||||
fi
|
||||
|
||||
# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
|
||||
|
|
@ -109,17 +116,13 @@ function copydb() {
|
|||
num_tables=0
|
||||
|
||||
entities_on_ocean=`hive -e "show tables in ${db};" | sed 's/WARN:.*//g'` # Get the tables and views without any potential the "WARN" logs.
|
||||
for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elemetns are single-words.
|
||||
for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elements are single-words.
|
||||
# Check if this is a view by showing the create-statement where it should print "create view" for a view, not the "create table". Unfortunately, there is no "show views" command.
|
||||
create_entity_statement=`hive -e "show create table ${db}.${i};"` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
|
||||
|
||||
create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'`
|
||||
create_entity_statement=`hive --database ${db} -e "show create table ${i};"` # We need to use the "--database", instead of including it inside the query, in order to return the statements with the '`' chars being in the right place to be used by impala-shell. However, we need to add the db-name in the "CREATE VIEW view_name" statement.
|
||||
create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
|
||||
if [ -n "$create_view_statement_test" ]; then
|
||||
echo -e "\n'${i}' is a view, so we will save its 'create view' statement and execute it on Impala, after all tables have been created.\n"
|
||||
create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/\`//g' \
|
||||
| sed 's/"$/;/' | sed 's/^"//' | sed 's/\\"\\"/\"/g' | sed -e "${LOCATION_HDFS_NODE_SED_ARG}" | sed "${DATE_SED_ARG_1}" | sed "${HASH_SED_ARG_1}" | sed "${LOCATION_SED_ARG_1}" \
|
||||
| sed "${DATE_SED_ARG_2}" | sed "${HASH_SED_ARG_2}" | sed "${LOCATION_SED_ARG_2}" \
|
||||
| sed "${DATE_SED_ARG_3}" | sed "${HASH_SED_ARG_3}" | sed "${LOCATION_SED_ARG_3}"`
|
||||
create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/"$/;/' | sed 's/^"//' | sed 's/\\"\\"/\"/g' | sed -e "${LOCATION_HDFS_NODE_SED_ARG}" | sed "s/CREATE VIEW /CREATE VIEW ${db}./"`
|
||||
all_create_view_statements+=("$create_view_statement")
|
||||
else
|
||||
echo -e "\n'${i}' is a table, so we will check for its parquet files and create the table on Impala cluster.\n"
|
||||
|
|
@ -127,12 +130,17 @@ function copydb() {
|
|||
CURRENT_PRQ_FILE=`hdfs dfs -conf ${IMPALA_CONFIG_FILE} -ls -C "${IMPALA_HDFS_DB_BASE_PATH}/${db}.db/${i}/" | grep -v 'Found' | grep -v '_impala_insert_staging' | head -1`
|
||||
if [ -z "$CURRENT_PRQ_FILE" ]; then # If there is not parquet-file inside.
|
||||
echo -e "\nERROR: THE TABLE \"${i}\" HAD NO FILES TO GET THE SCHEMA FROM! IT'S EMPTY!\n\n"
|
||||
exit 4 # Comment out when testing a DB which has such a table, just for performing this exact test-check.
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 4
|
||||
fi
|
||||
else
|
||||
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create table ${db}.${i} like parquet '${CURRENT_PRQ_FILE}' stored as parquet;" |& tee error.log
|
||||
log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
|
||||
if [ -n "$log_errors" ]; then
|
||||
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN CREATING TABLE '${i}'!\n\n"
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 5
|
||||
fi
|
||||
fi
|
||||
fi
|
||||
fi
|
||||
|
|
@ -176,7 +184,9 @@ function copydb() {
|
|||
|
||||
if [[ $new_num_of_views_to_retry -eq $previous_num_of_views_to_retry ]]; then
|
||||
echo -e "\n\nERROR: THE NUMBER OF VIEWS TO RETRY HAS NOT BEEN REDUCED! THE SCRIPT IS LIKELY GOING TO AN INFINITE-LOOP! EXITING..\n\n"
|
||||
exit 5
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 6
|
||||
fi
|
||||
elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
|
||||
echo -e "\nTo be retried \"create_view_statements\" (${new_num_of_views_to_retry}):\n\n${all_create_view_statements[@]}\n"
|
||||
else
|
||||
|
|
@ -204,11 +214,14 @@ function copydb() {
|
|||
else
|
||||
echo -e "\n\nERROR: 1 OR MORE ENTITIES OF DB '${db}' FAILED TO BE COPIED TO IMPALA CLUSTER!\n\n"
|
||||
rm -f error.log
|
||||
exit 6
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 7
|
||||
fi
|
||||
fi
|
||||
|
||||
rm -f error.log
|
||||
echo -e "\n\nFinished processing db: ${db}\n\n"
|
||||
echo -e "\n\nFinished processing db: ${db}\n"
|
||||
print_elapsed_time start_db_time
|
||||
}
|
||||
|
||||
|
||||
|
|
|
|||
|
|
@ -8,6 +8,9 @@ fi
|
|||
|
||||
export HADOOP_USER_NAME=$2
|
||||
|
||||
SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR=0
|
||||
|
||||
|
||||
# Set the active HDFS node of OCEAN and IMPALA cluster.
|
||||
OCEAN_HDFS_NODE='hdfs://nameservice1'
|
||||
echo -e "\nOCEAN HDFS virtual-name which resolves automatically to the active-node: ${OCEAN_HDFS_NODE}"
|
||||
|
|
@ -29,7 +32,9 @@ while [ $COUNTER -lt 3 ]; do
|
|||
done
|
||||
if [ -z "$IMPALA_HDFS_NODE" ]; then
|
||||
echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
|
||||
exit 1
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 1
|
||||
fi
|
||||
fi
|
||||
echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
|
||||
|
||||
|
|
@ -38,26 +43,25 @@ IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
|
|||
|
||||
IMPALA_HDFS_DB_BASE_PATH="${IMPALA_HDFS_NODE}/user/hive/warehouse"
|
||||
|
||||
|
||||
# Set sed arguments.
|
||||
LOCATION_HDFS_NODE_SED_ARG="s|${OCEAN_HDFS_NODE}|${IMPALA_HDFS_NODE}|g" # This requires to be used with "sed -e" in order to have the "|" delimiter (as the "/" conflicts with the URIs)
|
||||
|
||||
# Set the SED command arguments for column-names with reserved words:
|
||||
DATE_SED_ARG_1='s/[[:space:]]\date[[:space:]]/\`date\`/g'
|
||||
DATE_SED_ARG_2='s/\.date,/\.\`date\`,/g' # the "date" may be part of a larger field name like "datestamp" or "date_aggregated", so we need to be careful with what we are replacing.
|
||||
DATE_SED_ARG_3='s/\.date[[:space:]]/\.\`date\` /g'
|
||||
|
||||
HASH_SED_ARG_1='s/[[:space:]]\hash[[:space:]]/\`hash\`/g'
|
||||
HASH_SED_ARG_2='s/\.hash,/\.\`hash\`,/g'
|
||||
HASH_SED_ARG_3='s/\.hash[[:space:]]/\.\`hash\` /g'
|
||||
|
||||
LOCATION_SED_ARG_1='s/[[:space:]]\location[[:space:]]/\`location\`/g'
|
||||
LOCATION_SED_ARG_2='s/\.location,/\.\`location\`,/g'
|
||||
LOCATION_SED_ARG_3='s/\.location[[:space:]]/\.\`location\` /g'
|
||||
function print_elapsed_time()
|
||||
{
|
||||
start_time=$1
|
||||
end_time=$(date +%s)
|
||||
elapsed_time=$(($end_time-$start_time))
|
||||
hours=$((elapsed_time / 3600))
|
||||
minutes=$(((elapsed_time % 3600) / 60))
|
||||
seconds=$((elapsed_time % 60))
|
||||
printf "\nElapsed time: %02d:%02d:%02d\n\n" $hours $minutes $seconds
|
||||
}
|
||||
|
||||
|
||||
function copydb() {
|
||||
db=$1
|
||||
start_db_time=$(date +%s)
|
||||
echo -e "\nStart processing db: '${db}'..\n"
|
||||
|
||||
# Delete the old DB from Impala cluster (if exists).
|
||||
|
|
@ -66,7 +70,9 @@ function copydb() {
|
|||
if [ -n "$log_errors" ]; then
|
||||
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
|
||||
rm -f error.log
|
||||
exit 2
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 2
|
||||
fi
|
||||
fi
|
||||
|
||||
echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
|
||||
|
|
@ -90,7 +96,9 @@ function copydb() {
|
|||
else
|
||||
echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT EXIT STATUS: $?\n\n"
|
||||
rm -f error.log
|
||||
exit 3
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 3
|
||||
fi
|
||||
fi
|
||||
|
||||
# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
|
||||
|
|
@ -108,17 +116,13 @@ function copydb() {
|
|||
num_tables=0
|
||||
|
||||
entities_on_ocean=`hive -e "show tables in ${db};" | sed 's/WARN:.*//g'` # Get the tables and views without any potential the "WARN" logs.
|
||||
for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elemetns are single-words.
|
||||
for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elements are single-words.
|
||||
# Check if this is a view by showing the create-statement where it should print "create view" for a view, not the "create table". Unfortunately, there is no "show views" command.
|
||||
create_entity_statement=`hive -e "show create table ${db}.${i};"` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
|
||||
|
||||
create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'`
|
||||
create_entity_statement=`hive --database ${db} -e "show create table ${i};"` # We need to use the "--database", instead of including it inside the query, in order to return the statements with the '`' chars being in the right place to be used by impala-shell. However, we need to add the db-name in the "CREATE VIEW view_name" statement.
|
||||
create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
|
||||
if [ -n "$create_view_statement_test" ]; then
|
||||
echo -e "\n'${i}' is a view, so we will save its 'create view' statement and execute it on Impala, after all tables have been created.\n"
|
||||
create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/\`//g' \
|
||||
| sed 's/"$/;/' | sed 's/^"//' | sed 's/\\"\\"/\"/g' | sed -e "${LOCATION_HDFS_NODE_SED_ARG}" | sed "${DATE_SED_ARG_1}" | sed "${HASH_SED_ARG_1}" | sed "${LOCATION_SED_ARG_1}" \
|
||||
| sed "${DATE_SED_ARG_2}" | sed "${HASH_SED_ARG_2}" | sed "${LOCATION_SED_ARG_2}" \
|
||||
| sed "${DATE_SED_ARG_3}" | sed "${HASH_SED_ARG_3}" | sed "${LOCATION_SED_ARG_3}"`
|
||||
create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/"$/;/' | sed 's/^"//' | sed 's/\\"\\"/\"/g' | sed -e "${LOCATION_HDFS_NODE_SED_ARG}" | sed "s/CREATE VIEW /CREATE VIEW ${db}./"`
|
||||
all_create_view_statements+=("$create_view_statement")
|
||||
else
|
||||
echo -e "\n'${i}' is a table, so we will check for its parquet files and create the table on Impala cluster.\n"
|
||||
|
|
@ -126,12 +130,17 @@ function copydb() {
|
|||
CURRENT_PRQ_FILE=`hdfs dfs -conf ${IMPALA_CONFIG_FILE} -ls -C "${IMPALA_HDFS_DB_BASE_PATH}/${db}.db/${i}/" | grep -v 'Found' | grep -v '_impala_insert_staging' | head -1`
|
||||
if [ -z "$CURRENT_PRQ_FILE" ]; then # If there is not parquet-file inside.
|
||||
echo -e "\nERROR: THE TABLE \"${i}\" HAD NO FILES TO GET THE SCHEMA FROM! IT'S EMPTY!\n\n"
|
||||
exit 4 # Comment out when testing a DB which has such a table, just for performing this exact test-check.
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 4
|
||||
fi
|
||||
else
|
||||
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create table ${db}.${i} like parquet '${CURRENT_PRQ_FILE}' stored as parquet;" |& tee error.log
|
||||
log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
|
||||
if [ -n "$log_errors" ]; then
|
||||
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN CREATING TABLE '${i}'!\n\n"
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 5
|
||||
fi
|
||||
fi
|
||||
fi
|
||||
fi
|
||||
|
|
@ -175,7 +184,9 @@ function copydb() {
|
|||
|
||||
if [[ $new_num_of_views_to_retry -eq $previous_num_of_views_to_retry ]]; then
|
||||
echo -e "\n\nERROR: THE NUMBER OF VIEWS TO RETRY HAS NOT BEEN REDUCED! THE SCRIPT IS LIKELY GOING TO AN INFINITE-LOOP! EXITING..\n\n"
|
||||
exit 5
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 6
|
||||
fi
|
||||
elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
|
||||
echo -e "\nTo be retried \"create_view_statements\" (${new_num_of_views_to_retry}):\n\n${all_create_view_statements[@]}\n"
|
||||
else
|
||||
|
|
@ -203,11 +214,14 @@ function copydb() {
|
|||
else
|
||||
echo -e "\n\nERROR: 1 OR MORE ENTITIES OF DB '${db}' FAILED TO BE COPIED TO IMPALA CLUSTER!\n\n"
|
||||
rm -f error.log
|
||||
exit 6
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 7
|
||||
fi
|
||||
fi
|
||||
|
||||
rm -f error.log
|
||||
echo -e "\n\nFinished processing db: ${db}\n\n"
|
||||
echo -e "\n\nFinished processing db: ${db}\n"
|
||||
print_elapsed_time start_db_time
|
||||
}
|
||||
|
||||
|
||||
|
|
|
|||
|
|
@ -8,6 +8,9 @@ fi
|
|||
|
||||
export HADOOP_USER_NAME=$2
|
||||
|
||||
SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR=0
|
||||
|
||||
|
||||
# Set the active HDFS node of OCEAN and IMPALA cluster.
|
||||
OCEAN_HDFS_NODE='hdfs://nameservice1'
|
||||
echo -e "\nOCEAN HDFS virtual-name which resolves automatically to the active-node: ${OCEAN_HDFS_NODE}"
|
||||
|
|
@ -29,7 +32,9 @@ while [ $COUNTER -lt 3 ]; do
|
|||
done
|
||||
if [ -z "$IMPALA_HDFS_NODE" ]; then
|
||||
echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
|
||||
exit 1
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 1
|
||||
fi
|
||||
fi
|
||||
echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
|
||||
|
||||
|
|
@ -38,26 +43,25 @@ IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
|
|||
|
||||
IMPALA_HDFS_DB_BASE_PATH="${IMPALA_HDFS_NODE}/user/hive/warehouse"
|
||||
|
||||
|
||||
# Set sed arguments.
|
||||
LOCATION_HDFS_NODE_SED_ARG="s|${OCEAN_HDFS_NODE}|${IMPALA_HDFS_NODE}|g" # This requires to be used with "sed -e" in order to have the "|" delimiter (as the "/" conflicts with the URIs)
|
||||
|
||||
# Set the SED command arguments for column-names with reserved words:
|
||||
DATE_SED_ARG_1='s/[[:space:]]\date[[:space:]]/\`date\`/g'
|
||||
DATE_SED_ARG_2='s/\.date,/\.\`date\`,/g' # the "date" may be part of a larger field name like "datestamp" or "date_aggregated", so we need to be careful with what we are replacing.
|
||||
DATE_SED_ARG_3='s/\.date[[:space:]]/\.\`date\` /g'
|
||||
|
||||
HASH_SED_ARG_1='s/[[:space:]]\hash[[:space:]]/\`hash\`/g'
|
||||
HASH_SED_ARG_2='s/\.hash,/\.\`hash\`,/g'
|
||||
HASH_SED_ARG_3='s/\.hash[[:space:]]/\.\`hash\` /g'
|
||||
|
||||
LOCATION_SED_ARG_1='s/[[:space:]]\location[[:space:]]/\`location\`/g'
|
||||
LOCATION_SED_ARG_2='s/\.location,/\.\`location\`,/g'
|
||||
LOCATION_SED_ARG_3='s/\.location[[:space:]]/\.\`location\` /g'
|
||||
function print_elapsed_time()
|
||||
{
|
||||
start_time=$1
|
||||
end_time=$(date +%s)
|
||||
elapsed_time=$(($end_time-$start_time))
|
||||
hours=$((elapsed_time / 3600))
|
||||
minutes=$(((elapsed_time % 3600) / 60))
|
||||
seconds=$((elapsed_time % 60))
|
||||
printf "\nElapsed time: %02d:%02d:%02d\n\n" $hours $minutes $seconds
|
||||
}
|
||||
|
||||
|
||||
function copydb() {
|
||||
db=$1
|
||||
start_db_time=$(date +%s)
|
||||
echo -e "\nStart processing db: '${db}'..\n"
|
||||
|
||||
# Delete the old DB from Impala cluster (if exists).
|
||||
|
|
@ -66,7 +70,9 @@ function copydb() {
|
|||
if [ -n "$log_errors" ]; then
|
||||
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
|
||||
rm -f error.log
|
||||
exit 2
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 2
|
||||
fi
|
||||
fi
|
||||
|
||||
echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
|
||||
|
|
@ -90,7 +96,9 @@ function copydb() {
|
|||
else
|
||||
echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT EXIT STATUS: $?\n\n"
|
||||
rm -f error.log
|
||||
exit 3
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 3
|
||||
fi
|
||||
fi
|
||||
|
||||
# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
|
||||
|
|
@ -108,17 +116,13 @@ function copydb() {
|
|||
num_tables=0
|
||||
|
||||
entities_on_ocean=`hive -e "show tables in ${db};" | sed 's/WARN:.*//g'` # Get the tables and views without any potential the "WARN" logs.
|
||||
for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elemetns are single-words.
|
||||
for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elements are single-words.
|
||||
# Check if this is a view by showing the create-statement where it should print "create view" for a view, not the "create table". Unfortunately, there is no "show views" command.
|
||||
create_entity_statement=`hive -e "show create table ${db}.${i};"` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
|
||||
|
||||
create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'`
|
||||
create_entity_statement=`hive --database ${db} -e "show create table ${i};"` # We need to use the "--database", instead of including it inside the query, in order to return the statements with the '`' chars being in the right place to be used by impala-shell. However, we need to add the db-name in the "CREATE VIEW view_name" statement.
|
||||
create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
|
||||
if [ -n "$create_view_statement_test" ]; then
|
||||
echo -e "\n'${i}' is a view, so we will save its 'create view' statement and execute it on Impala, after all tables have been created.\n"
|
||||
create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/\`//g' \
|
||||
| sed 's/"$/;/' | sed 's/^"//' | sed 's/\\"\\"/\"/g' | sed -e "${LOCATION_HDFS_NODE_SED_ARG}" | sed "${DATE_SED_ARG_1}" | sed "${HASH_SED_ARG_1}" | sed "${LOCATION_SED_ARG_1}" \
|
||||
| sed "${DATE_SED_ARG_2}" | sed "${HASH_SED_ARG_2}" | sed "${LOCATION_SED_ARG_2}" \
|
||||
| sed "${DATE_SED_ARG_3}" | sed "${HASH_SED_ARG_3}" | sed "${LOCATION_SED_ARG_3}"`
|
||||
create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/"$/;/' | sed 's/^"//' | sed 's/\\"\\"/\"/g' | sed -e "${LOCATION_HDFS_NODE_SED_ARG}" | sed "s/CREATE VIEW /CREATE VIEW ${db}./"`
|
||||
all_create_view_statements+=("$create_view_statement")
|
||||
else
|
||||
echo -e "\n'${i}' is a table, so we will check for its parquet files and create the table on Impala cluster.\n"
|
||||
|
|
@ -126,12 +130,17 @@ function copydb() {
|
|||
CURRENT_PRQ_FILE=`hdfs dfs -conf ${IMPALA_CONFIG_FILE} -ls -C "${IMPALA_HDFS_DB_BASE_PATH}/${db}.db/${i}/" | grep -v 'Found' | grep -v '_impala_insert_staging' | head -1`
|
||||
if [ -z "$CURRENT_PRQ_FILE" ]; then # If there is not parquet-file inside.
|
||||
echo -e "\nERROR: THE TABLE \"${i}\" HAD NO FILES TO GET THE SCHEMA FROM! IT'S EMPTY!\n\n"
|
||||
exit 4 # Comment out when testing a DB which has such a table, just for performing this exact test-check.
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 4
|
||||
fi
|
||||
else
|
||||
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create table ${db}.${i} like parquet '${CURRENT_PRQ_FILE}' stored as parquet;" |& tee error.log
|
||||
log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
|
||||
if [ -n "$log_errors" ]; then
|
||||
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN CREATING TABLE '${i}'!\n\n"
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 5
|
||||
fi
|
||||
fi
|
||||
fi
|
||||
fi
|
||||
|
|
@ -175,7 +184,9 @@ function copydb() {
|
|||
|
||||
if [[ $new_num_of_views_to_retry -eq $previous_num_of_views_to_retry ]]; then
|
||||
echo -e "\n\nERROR: THE NUMBER OF VIEWS TO RETRY HAS NOT BEEN REDUCED! THE SCRIPT IS LIKELY GOING TO AN INFINITE-LOOP! EXITING..\n\n"
|
||||
exit 5
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 6
|
||||
fi
|
||||
elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
|
||||
echo -e "\nTo be retried \"create_view_statements\" (${new_num_of_views_to_retry}):\n\n${all_create_view_statements[@]}\n"
|
||||
else
|
||||
|
|
@ -203,11 +214,14 @@ function copydb() {
|
|||
else
|
||||
echo -e "\n\nERROR: 1 OR MORE ENTITIES OF DB '${db}' FAILED TO BE COPIED TO IMPALA CLUSTER!\n\n"
|
||||
rm -f error.log
|
||||
exit 6
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 7
|
||||
fi
|
||||
fi
|
||||
|
||||
rm -f error.log
|
||||
echo -e "\n\nFinished processing db: ${db}\n\n"
|
||||
echo -e "\n\nFinished processing db: ${db}\n"
|
||||
print_elapsed_time start_db_time
|
||||
}
|
||||
|
||||
|
||||
|
|
|
|||
|
|
@ -6,6 +6,8 @@ then
|
|||
ln -sfn ${PYTHON_EGG_CACHE}${link_folder} ${link_folder}
|
||||
fi
|
||||
|
||||
SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR=0
|
||||
|
||||
|
||||
# Set the active HDFS node of OCEAN and IMPALA cluster.
|
||||
OCEAN_HDFS_NODE='hdfs://nameservice1'
|
||||
|
|
@ -28,7 +30,9 @@ while [ $COUNTER -lt 3 ]; do
|
|||
done
|
||||
if [ -z "$IMPALA_HDFS_NODE" ]; then
|
||||
echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
|
||||
exit 1
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 1
|
||||
fi
|
||||
fi
|
||||
echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
|
||||
|
||||
|
|
@ -40,26 +44,26 @@ IMPALA_HDFS_DB_BASE_PATH="${IMPALA_HDFS_NODE}/user/hive/warehouse"
|
|||
# Set sed arguments.
|
||||
LOCATION_HDFS_NODE_SED_ARG="s|${OCEAN_HDFS_NODE}|${IMPALA_HDFS_NODE}|g" # This requires to be used with "sed -e" in order to have the "|" delimiter (as the "/" conflicts with the URIs)
|
||||
|
||||
# Set the SED command arguments for column-names with reserved words:
|
||||
DATE_SED_ARG_1='s/[[:space:]]\date[[:space:]]/\`date\`/g'
|
||||
DATE_SED_ARG_2='s/\.date,/\.\`date\`,/g' # the "date" may be part of a larger field name like "datestamp" or "date_aggregated", so we need to be careful with what we are replacing.
|
||||
DATE_SED_ARG_3='s/\.date[[:space:]]/\.\`date\` /g'
|
||||
|
||||
HASH_SED_ARG_1='s/[[:space:]]\hash[[:space:]]/\`hash\`/g'
|
||||
HASH_SED_ARG_2='s/\.hash,/\.\`hash\`,/g'
|
||||
HASH_SED_ARG_3='s/\.hash[[:space:]]/\.\`hash\` /g'
|
||||
|
||||
LOCATION_SED_ARG_1='s/[[:space:]]\location[[:space:]]/\`location\`/g'
|
||||
LOCATION_SED_ARG_2='s/\.location,/\.\`location\`,/g'
|
||||
LOCATION_SED_ARG_3='s/\.location[[:space:]]/\.\`location\` /g'
|
||||
|
||||
|
||||
export HADOOP_USER_NAME=$6
|
||||
export PROD_USAGE_STATS_DB="openaire_prod_usage_stats"
|
||||
|
||||
|
||||
function print_elapsed_time()
|
||||
{
|
||||
start_time=$1
|
||||
end_time=$(date +%s)
|
||||
elapsed_time=$(($end_time-$start_time))
|
||||
hours=$((elapsed_time / 3600))
|
||||
minutes=$(((elapsed_time % 3600) / 60))
|
||||
seconds=$((elapsed_time % 60))
|
||||
printf "\nElapsed time: %02d:%02d:%02d\n\n" $hours $minutes $seconds
|
||||
}
|
||||
|
||||
|
||||
function copydb() {
|
||||
db=$1
|
||||
start_db_time=$(date +%s)
|
||||
echo -e "\nStart processing db: '${db}'..\n"
|
||||
|
||||
# Delete the old DB from Impala cluster (if exists).
|
||||
|
|
@ -68,7 +72,9 @@ function copydb() {
|
|||
if [ -n "$log_errors" ]; then
|
||||
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
|
||||
rm -f error.log
|
||||
exit 2
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 2
|
||||
fi
|
||||
fi
|
||||
|
||||
echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
|
||||
|
|
@ -92,7 +98,9 @@ function copydb() {
|
|||
else
|
||||
echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT EXIT STATUS: $?\n\n"
|
||||
rm -f error.log
|
||||
exit 3
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 3
|
||||
fi
|
||||
fi
|
||||
|
||||
# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
|
||||
|
|
@ -110,17 +118,13 @@ function copydb() {
|
|||
num_tables=0
|
||||
|
||||
entities_on_ocean=`hive -e "show tables in ${db};" | sed 's/WARN:.*//g'` # Get the tables and views without any potential the "WARN" logs.
|
||||
for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elemetns are single-words.
|
||||
for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elements are single-words.
|
||||
# Check if this is a view by showing the create-statement where it should print "create view" for a view, not the "create table". Unfortunately, there is no "show views" command.
|
||||
create_entity_statement=`hive -e "show create table ${db}.${i};"` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
|
||||
|
||||
create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'`
|
||||
create_entity_statement=`hive --database ${db} -e "show create table ${i};"` # We need to use the "--database", instead of including it inside the query, in order to return the statements with the '`' chars being in the right place to be used by impala-shell. However, we need to add the db-name in the "CREATE VIEW view_name" statement.
|
||||
create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
|
||||
if [ -n "$create_view_statement_test" ]; then
|
||||
echo -e "\n'${i}' is a view, so we will save its 'create view' statement and execute it on Impala, after all tables have been created.\n"
|
||||
create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/\`//g' \
|
||||
| sed 's/"$/;/' | sed 's/^"//' | sed 's/\\"\\"/\"/g' | sed -e "${LOCATION_HDFS_NODE_SED_ARG}" | sed "${DATE_SED_ARG_1}" | sed "${HASH_SED_ARG_1}" | sed "${LOCATION_SED_ARG_1}" \
|
||||
| sed "${DATE_SED_ARG_2}" | sed "${HASH_SED_ARG_2}" | sed "${LOCATION_SED_ARG_2}" \
|
||||
| sed "${DATE_SED_ARG_3}" | sed "${HASH_SED_ARG_3}" | sed "${LOCATION_SED_ARG_3}"`
|
||||
create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/"$/;/' | sed 's/^"//' | sed 's/\\"\\"/\"/g' | sed -e "${LOCATION_HDFS_NODE_SED_ARG}" | sed "s/CREATE VIEW /CREATE VIEW ${db}./"`
|
||||
all_create_view_statements+=("$create_view_statement")
|
||||
else
|
||||
echo -e "\n'${i}' is a table, so we will check for its parquet files and create the table on Impala cluster.\n"
|
||||
|
|
@ -128,12 +132,17 @@ function copydb() {
|
|||
CURRENT_PRQ_FILE=`hdfs dfs -conf ${IMPALA_CONFIG_FILE} -ls -C "${IMPALA_HDFS_DB_BASE_PATH}/${db}.db/${i}/" | grep -v 'Found' | grep -v '_impala_insert_staging' | head -1`
|
||||
if [ -z "$CURRENT_PRQ_FILE" ]; then # If there is not parquet-file inside.
|
||||
echo -e "\nERROR: THE TABLE \"${i}\" HAD NO FILES TO GET THE SCHEMA FROM! IT'S EMPTY!\n\n"
|
||||
exit 4 # Comment out when testing a DB which has such a table, just for performing this exact test-check.
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 4
|
||||
fi
|
||||
else
|
||||
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create table ${db}.${i} like parquet '${CURRENT_PRQ_FILE}' stored as parquet;" |& tee error.log
|
||||
log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
|
||||
if [ -n "$log_errors" ]; then
|
||||
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN CREATING TABLE '${i}'!\n\n"
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 5
|
||||
fi
|
||||
fi
|
||||
fi
|
||||
fi
|
||||
|
|
@ -177,7 +186,9 @@ function copydb() {
|
|||
|
||||
if [[ $new_num_of_views_to_retry -eq $previous_num_of_views_to_retry ]]; then
|
||||
echo -e "\n\nERROR: THE NUMBER OF VIEWS TO RETRY HAS NOT BEEN REDUCED! THE SCRIPT IS LIKELY GOING TO AN INFINITE-LOOP! EXITING..\n\n"
|
||||
exit 5
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 6
|
||||
fi
|
||||
elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
|
||||
echo -e "\nTo be retried \"create_view_statements\" (${new_num_of_views_to_retry}):\n\n${all_create_view_statements[@]}\n"
|
||||
else
|
||||
|
|
@ -205,11 +216,14 @@ function copydb() {
|
|||
else
|
||||
echo -e "\n\nERROR: 1 OR MORE ENTITIES OF DB '${db}' FAILED TO BE COPIED TO IMPALA CLUSTER!\n\n"
|
||||
rm -f error.log
|
||||
exit 6
|
||||
if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
|
||||
exit 7
|
||||
fi
|
||||
fi
|
||||
|
||||
rm -f error.log
|
||||
echo -e "\n\nFinished processing db: ${db}\n\n"
|
||||
echo -e "\n\nFinished processing db: ${db}\n"
|
||||
print_elapsed_time start_db_time
|
||||
}
|
||||
|
||||
STATS_DB=$1
|
||||
|
|
@ -233,6 +247,6 @@ copydb $MONITOR_DB'_ris_tail'
|
|||
contexts="knowmad::other dh-ch::other enermaps::other gotriple::other neanias-atmospheric::other rural-digital-europe::other covid-19::other aurora::other neanias-space::other north-america-studies::other north-american-studies::other eutopia::other"
|
||||
for i in ${contexts}
|
||||
do
|
||||
tmp=`echo "$i" | sed 's/'-'/'_'/g' | sed 's/'::'/'_'/g'`
|
||||
tmp=`echo "$i" | sed 's/'-'/'_'/g' | sed 's/'::'/'_'/g'`
|
||||
copydb ${MONITOR_DB}'_'${tmp}
|
||||
done
|
||||
|
|
@ -1,3 +1,4 @@
|
|||
set mapred.job.queue.name=analytics;
|
||||
------------------------------------------------------
|
||||
------------------------------------------------------
|
||||
-- Additional relations
|
||||
|
|
|
|||
|
|
@ -1,3 +1,5 @@
|
|||
set mapred.job.queue.name=analytics;
|
||||
|
||||
------------------------------------------------------
|
||||
------------------------------------------------------
|
||||
-- Additional relations
|
||||
|
|
@ -104,4 +106,4 @@ rel.properties[1].value apc_currency
|
|||
from ${openaire_db_name}.relation rel
|
||||
join ${openaire_db_name}.organization o on o.id=rel.source
|
||||
join ${openaire_db_name}.result r on r.id=rel.target
|
||||
where rel.subreltype = 'affiliation' and rel.datainfo.deletedbyinference = false and size(rel.properties)>0; /*EOS*/
|
||||
where rel.subreltype = 'affiliation' and rel.datainfo.deletedbyinference = false and size(rel.properties)>0; /*EOS*/
|
||||
|
|
|
|||
|
|
@ -1,3 +1,5 @@
|
|||
set mapred.job.queue.name=analytics;
|
||||
|
||||
-------------------------------------------
|
||||
--- Extra tables, mostly used by indicators
|
||||
|
||||
|
|
|
|||
|
|
@ -249,7 +249,7 @@ create table if not exists ${stats_db_name}.indi_pub_gold_oa stored as parquet a
|
|||
left semi join dd on dd.id=pd.datasource
|
||||
union all
|
||||
select ra.id, 1 as is_gold
|
||||
from ${stats_db_name}.result_accessroute ra on ra.id = pd.id where ra.accessroute = 'gold') tmp on tmp.id=pd.id; /*EOS*/
|
||||
from ${stats_db_name}.result_accessroute ra where ra.accessroute = 'gold') tmp on tmp.id=pd.id; /*EOS*/
|
||||
|
||||
drop table if exists ${stats_db_name}.indi_pub_hybrid_oa_with_cc purge; /*EOS*/
|
||||
create table if not exists ${stats_db_name}.indi_pub_hybrid_oa_with_cc stored as parquet as
|
||||
|
|
@ -294,7 +294,7 @@ left outer join (
|
|||
join ${stats_db_name}.indi_pub_gold_oa indi_gold on indi_gold.id=p.id
|
||||
left outer join ${stats_db_name}.result_accessroute ra on ra.id=p.id
|
||||
where indi_gold.is_gold=0 and
|
||||
((d.type like '%Journal%' and ri.accessright not in ('Closed Access', 'Restricted', 'Not Available') and ri.license is not null) or ra.accessroute='hybrid')) tmp on pd.i=tmp.id; /*EOS*/
|
||||
((d.type like '%Journal%' and ri.accessright not in ('Closed Access', 'Restricted', 'Not Available') and ri.license is not null) or ra.accessroute='hybrid')) tmp on p.id=tmp.id; /*EOS*/
|
||||
|
||||
drop table if exists ${stats_db_name}.indi_org_fairness purge; /*EOS*/
|
||||
create table if not exists ${stats_db_name}.indi_org_fairness stored as parquet as
|
||||
|
|
@ -1008,14 +1008,14 @@ left outer join (
|
|||
drop table if exists ${stats_db_name}.result_country purge; /*EOS*/
|
||||
|
||||
create table ${stats_db_name}.result_country stored as parquet as
|
||||
select distinct *
|
||||
select distinct id, country
|
||||
from (
|
||||
select ro.id, o.country
|
||||
from ${stats_db_name}.result_organization ro
|
||||
left outer join ${stats_db_name}.organization o on o.id=ro.organization
|
||||
union all
|
||||
select rp.id, f.country
|
||||
from ${stats_db_name}.result_projects
|
||||
from ${stats_db_name}.result_projects rp
|
||||
left outer join ${stats_db_name}.project p on p.id=rp.project
|
||||
left outer join ${stats_db_name}.funder f on f.name=p.funder
|
||||
) rc
|
||||
|
|
|
|||
|
|
@ -1,3 +1,5 @@
|
|||
set mapred.job.queue.name=analytics;
|
||||
|
||||
----------------------------------------------------
|
||||
-- Shortcuts for various definitions in stats db ---
|
||||
----------------------------------------------------
|
||||
|
|
|
|||
|
|
@ -1,3 +1,5 @@
|
|||
set mapred.job.queue.name=analytics;
|
||||
|
||||
-- replace the creation of the result view to include the boolean fields from the previous tables (green, gold,
|
||||
-- peer reviewed)
|
||||
drop table if exists ${stats_db_name}.result_tmp; /*EOS*/
|
||||
|
|
|
|||
|
|
@ -1,3 +1,5 @@
|
|||
set mapred.job.queue.name=analytics;
|
||||
|
||||
--------------------------------------------------------------
|
||||
--------------------------------------------------------------
|
||||
-- Publication table/view and Publication related tables/views
|
||||
|
|
@ -111,4 +113,4 @@ SELECT /*+ COALESCE(100) */ substr(p.id, 4) AS id, xpath_string(citation.value,
|
|||
FROM ${openaire_db_name}.publication p
|
||||
lateral view explode(p.extrainfo) citations AS citation
|
||||
WHERE xpath_string(citation.value, "//citation/id[@type='openaire']/@value") != ""
|
||||
and p.datainfo.deletedbyinference = false and p.datainfo.invisible=false; /*EOS*/
|
||||
and p.datainfo.deletedbyinference = false and p.datainfo.invisible=false;
|
||||
|
|
|
|||
|
|
@ -129,11 +129,14 @@ create table ${stats_db_name}.result_fos stored as parquet as
|
|||
with
|
||||
lvl1 as (select id, topic from ${stats_db_name}.result_topics where topic like '__ %' and type='Fields of Science and Technology classification'),
|
||||
lvl2 as (select id, topic from ${stats_db_name}.result_topics where topic like '____ %' and type='Fields of Science and Technology classification'),
|
||||
lvl3 as (select id, topic from ${stats_db_name}.result_topics where topic like '______ %' and type='Fields of Science and Technology classification')
|
||||
select /*+ COALESCE(100) */ lvl1.id, lvl1.topic as lvl1, lvl2.topic as lvl2, lvl3.topic as lvl3
|
||||
lvl3 as (select id, topic from ${stats_db_name}.result_topics where topic like '______ %' and type='Fields of Science and Technology classification'),
|
||||
lvl4 as (select id, topic from ${stats_db_name}.result_topics where topic like '________ %' and type='Fields of Science and Technology classification')
|
||||
select /*+ COALESCE(100) */ lvl1.id, lvl1.topic as lvl1, lvl2.topic as lvl2, lvl3.topic as lvl3, lvl4.topic as lvl4
|
||||
from lvl1
|
||||
join lvl2 on lvl1.id=lvl2.id and substr(lvl2.topic, 1, 2)=substr(lvl1.topic, 1, 2)
|
||||
join lvl3 on lvl3.id=lvl1.id and substr(lvl3.topic, 1, 4)=substr(lvl2.topic, 1, 4); /*EOS*/
|
||||
join lvl3 on lvl3.id=lvl1.id and substr(lvl3.topic, 1, 4)=substr(lvl2.topic, 1, 4)
|
||||
join lvl4 on lvl4.id=lvl1.id and substr(lvl4.topic, 1, 6)=substr(lvl3.topic, 1, 6);
|
||||
|
||||
|
||||
DROP TABLE IF EXISTS ${stats_db_name}.result_organization purge; /*EOS*/
|
||||
|
||||
|
|
|
|||
|
|
@ -568,6 +568,7 @@
|
|||
${sparkClusterOpts}
|
||||
${sparkResourceOpts}
|
||||
${sparkApplicationOpts}
|
||||
--queue analytics
|
||||
</spark-opts>
|
||||
<arg>--hiveMetastoreUris</arg><arg>${hive_metastore_uris}</arg>
|
||||
<arg>--sql</arg><arg>eu/dnetlib/dhp/oa/graph/stats/oozie_app/scripts/step16-createIndicatorsTables.sql</arg>
|
||||
|
|
@ -784,4 +785,4 @@
|
|||
</action>
|
||||
|
||||
<end name="End"/>
|
||||
</workflow-app>
|
||||
</workflow-app>
|
||||
|
|
|
|||
Loading…
Reference in New Issue