forked from D-Net/dnet-hadoop
Merge pull request 'changes in copy script' (#438) from antonis.lempesis/dnet-hadoop:beta into beta
Reviewed-on: D-Net/dnet-hadoop#438
This commit is contained in:
commit
66548e6a83
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@ -8,6 +8,8 @@ fi
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export HADOOP_USER_NAME=$2
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SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR=0
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# Set the active HDFS node of OCEAN and IMPALA cluster.
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OCEAN_HDFS_NODE='hdfs://nameservice1'
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@ -30,7 +32,9 @@ while [ $COUNTER -lt 3 ]; do
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done
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if [ -z "$IMPALA_HDFS_NODE" ]; then
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echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
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exit 1
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 1
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fi
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fi
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echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
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@ -39,26 +43,25 @@ IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
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IMPALA_HDFS_DB_BASE_PATH="${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.
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DATE_SED_ARG_3='s/\.date[[:space:]]/\.\`date\` /g'
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HASH_SED_ARG_1='s/[[:space:]]\hash[[:space:]]/\`hash\`/g'
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HASH_SED_ARG_2='s/\.hash,/\.\`hash\`,/g'
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HASH_SED_ARG_3='s/\.hash[[:space:]]/\.\`hash\` /g'
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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'
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function print_elapsed_time()
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{
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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))
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printf "\nElapsed time: %02d:%02d:%02d\n\n" $hours $minutes $seconds
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}
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function copydb() {
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db=$1
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start_db_time=$(date +%s)
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echo -e "\nStart processing db: '${db}'..\n"
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# Delete the old DB from Impala cluster (if exists).
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@ -67,7 +70,9 @@ function copydb() {
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if [ -n "$log_errors" ]; then
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echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
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rm -f error.log
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exit 2
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 2
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fi
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fi
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echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
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@ -91,7 +96,9 @@ function copydb() {
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else
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echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT EXIT STATUS: $?\n\n"
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rm -f error.log
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exit 3
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 3
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fi
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fi
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# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
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@ -109,17 +116,13 @@ function copydb() {
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num_tables=0
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entities_on_ocean=`hive -e "show tables in ${db};" | sed 's/WARN:.*//g'` # Get the tables and views without any potential the "WARN" logs.
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for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elemetns are single-words.
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for i in ${entities_on_ocean[@]}; do # Use un-quoted values, as the elements are single-words.
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# 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.
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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.
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create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'`
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create_entity_statement=`hive --database ${db} -e "show create table ${i};"` # We need to use the "--database", instead of including it inside the query, in order to return the statements with the '`' chars being in the right place to be used by impala-shell. However, we need to add the db-name in the "CREATE VIEW view_name" statement.
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create_view_statement_test=`echo -e "$create_entity_statement" | grep 'CREATE VIEW'` # It needs to happen in two stages, otherwise the "grep" is not able to match multi-line statement.
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if [ -n "$create_view_statement_test" ]; then
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echo -e "\n'${i}' is a view, so we will save its 'create view' statement and execute it on Impala, after all tables have been created.\n"
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create_view_statement=`echo -e "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/\`//g' \
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| sed 's/"$/;/' | 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}" \
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| sed "${DATE_SED_ARG_2}" | sed "${HASH_SED_ARG_2}" | sed "${LOCATION_SED_ARG_2}" \
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| sed "${DATE_SED_ARG_3}" | sed "${HASH_SED_ARG_3}" | sed "${LOCATION_SED_ARG_3}"`
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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 ${db}./"`
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all_create_view_statements+=("$create_view_statement")
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else
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echo -e "\n'${i}' is a table, so we will check for its parquet files and create the table on Impala cluster.\n"
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@ -127,12 +130,17 @@ function copydb() {
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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`
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if [ -z "$CURRENT_PRQ_FILE" ]; then # If there is not parquet-file inside.
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echo -e "\nERROR: THE TABLE \"${i}\" HAD NO FILES TO GET THE SCHEMA FROM! IT'S EMPTY!\n\n"
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exit 4 # Comment out when testing a DB which has such a table, just for performing this exact test-check.
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 4
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fi
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else
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impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create table ${db}.${i} like parquet '${CURRENT_PRQ_FILE}' stored as parquet;" |& tee error.log
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log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
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if [ -n "$log_errors" ]; then
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echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN CREATING TABLE '${i}'!\n\n"
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 5
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fi
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fi
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fi
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fi
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@ -176,7 +184,9 @@ function copydb() {
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if [[ $new_num_of_views_to_retry -eq $previous_num_of_views_to_retry ]]; then
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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"
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exit 5
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 6
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fi
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elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
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echo -e "\nTo be retried \"create_view_statements\" (${new_num_of_views_to_retry}):\n\n${all_create_view_statements[@]}\n"
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else
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@ -204,11 +214,14 @@ function copydb() {
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else
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echo -e "\n\nERROR: 1 OR MORE ENTITIES OF DB '${db}' FAILED TO BE COPIED TO IMPALA CLUSTER!\n\n"
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rm -f error.log
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exit 6
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 7
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fi
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fi
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rm -f error.log
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echo -e "\n\nFinished processing db: ${db}\n\n"
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echo -e "\n\nFinished processing db: ${db}\n"
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print_elapsed_time start_db_time
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}
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@ -8,6 +8,9 @@ fi
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export HADOOP_USER_NAME=$2
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SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR=0
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# Set the active HDFS node of OCEAN and IMPALA cluster.
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OCEAN_HDFS_NODE='hdfs://nameservice1'
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echo -e "\nOCEAN HDFS virtual-name which resolves automatically to the active-node: ${OCEAN_HDFS_NODE}"
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@ -29,7 +32,9 @@ while [ $COUNTER -lt 3 ]; do
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done
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if [ -z "$IMPALA_HDFS_NODE" ]; then
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echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
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exit 1
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 1
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fi
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fi
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echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
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@ -38,26 +43,25 @@ IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
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IMPALA_HDFS_DB_BASE_PATH="${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.
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DATE_SED_ARG_3='s/\.date[[:space:]]/\.\`date\` /g'
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HASH_SED_ARG_1='s/[[:space:]]\hash[[:space:]]/\`hash\`/g'
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HASH_SED_ARG_2='s/\.hash,/\.\`hash\`,/g'
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HASH_SED_ARG_3='s/\.hash[[:space:]]/\.\`hash\` /g'
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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'
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function print_elapsed_time()
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{
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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))
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printf "\nElapsed time: %02d:%02d:%02d\n\n" $hours $minutes $seconds
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}
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function copydb() {
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db=$1
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start_db_time=$(date +%s)
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echo -e "\nStart processing db: '${db}'..\n"
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# Delete the old DB from Impala cluster (if exists).
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|
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@ -66,7 +70,9 @@ function copydb() {
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if [ -n "$log_errors" ]; then
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echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
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rm -f error.log
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exit 2
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 2
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fi
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fi
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echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
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|
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@ -90,7 +96,9 @@ function copydb() {
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else
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echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT EXIT STATUS: $?\n\n"
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rm -f error.log
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exit 3
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if [[ SHOULD_EXIT_WHOLE_SCRIPT_UPON_ERROR -eq 1 ]]; then
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exit 3
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fi
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fi
|
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|
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# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
|
||||
|
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@ -108,17 +116,13 @@ function copydb() {
|
|||
num_tables=0
|
||||
|
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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 "$create_entity_statement" | sed 's/WARN:.*//g' | sed 's/\`//g' \
|
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| sed 's/"$/;/' | 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 ${db}./"`
|
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all_create_view_statements+=("$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
|
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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
|
||||
|
|
@ -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 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 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);
|
||||
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;
|
||||
|
||||
|
|
|
|||
Loading…
Reference in New Issue