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Merge pull request '[pBETA] Improvements to copying data from ocean to impala' (#421) from antonis.lempesis/dnet-hadoop:beta into beta

Reviewed-on: D-Net/dnet-hadoop#421
This commit is contained in:
Claudio Atzori 2024-04-16 14:22:32 +02:00
commit 589bce3520
4 changed files with 692 additions and 189 deletions

View File

@ -8,9 +8,13 @@ fi
export HADOOP_USER_NAME=$2
# 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}"
IMPALA_HDFS_NODE=''
COUNTER=0
while [ $COUNTER -lt 3 ]; do
if hdfs dfs -test -e hdfs://impala-cluster-mn1.openaire.eu/tmp >/dev/null 2>&1; then
IMPALA_HDFS_NODE='hdfs://impala-cluster-mn1.openaire.eu:8020'
@ -24,71 +28,195 @@ while [ $COUNTER -lt 3 ]; do
fi
((COUNTER++))
done
if [ -z "$IMPALA_HDFS_NODE" ]; then
echo -e "\n\nPROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! $COUNTER\n\n"
echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
exit 1
fi
echo "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries."
echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
IMPALA_HOSTNAME='impala-cluster-dn1.openaire.eu'
IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
IMPALA_HDFS_DB_BASE_PATH="${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 copydb() {
db=$1
FILE=("hive_wf_tmp_"$RANDOM)
hdfs dfs -mkdir ${IMPALA_HDFS_NODE}/tmp/$FILE/
echo -e "\nStart processing db: '${db}'..\n"
# change ownership to impala
# hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/
# Delete the old DB from Impala cluster (if exists).
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "drop database if exists ${db} cascade" |& tee error.log # impala-shell prints all logs in stderr, so wee need to capture them and put them in a file, in order to perform "grep" on them later
log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
if [ -n "$log_errors" ]; then
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
rm -f error.log
return 1
fi
# Make Impala aware of the deletion of the old DB immediately.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
# 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 ${IMPALA_HDFS_NODE}/tmp/$FILE/
echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
# Using max-bandwidth of: 50 * 100 Mb/s = 5 Gb/s
# Using max memory of: 50 * 6144 = 300 Gb
# Using 1MB as a buffer-size.
# The " -Ddistcp.dynamic.recordsPerChunk=50" arg is not available in our version of hadoop
# The "ug" args cannot be used as we get a "User does not belong to hive" error.
# The "p" argument cannot be used, as it blocks the files from being used, giving a "sticky bit"-error, even after applying chmod and chown onm the files.
hadoop distcp -Dmapreduce.map.memory.mb=6144 -m 70 -bandwidth 150 \
-numListstatusThreads 40 \
-copybuffersize 1048576 \
-strategy dynamic \
-pb \
${OCEAN_HDFS_NODE}/user/hive/warehouse/${db}.db ${IMPALA_HDFS_DB_BASE_PATH}
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db
# Check the exit status of the "hadoop distcp" command.
if [ $? -eq 0 ]; then
echo -e "\nSuccessfully copied the files of '${db}'.\n"
else
echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT WITH EXIT STATUS: $?\n\n"
rm -f error.log
return 2
fi
# 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
# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
#hdfs dfs -conf ${IMPALA_CONFIG_FILE} -chmod -R 777 ${TEMP_SUBDIR_FULLPATH}/${db}.db
# 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 $i;"`;
done
echo -e "\nCreating schema for db: '${db}'\n"
# delete the database
impala-shell -i impala-cluster-dn1.openaire.eu -q "drop database if exists ${db} cascade";
# create the new database (with the same name)
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create database ${db}"
# create the databases
impala-shell -i impala-cluster-dn1.openaire.eu -q "create database ${db}";
# Make Impala aware of the creation of the new DB immediately.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
# Because "Hive" and "Impala" do not have compatible schemas, we cannot use the "show create table <name>" output from hive to create the exact same table in impala.
# So, we have to find at least one parquet file (check if it's there) from the table in the ocean cluster for impala to use it to extract the table-schema itself from that file.
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 -
all_create_view_statements=()
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.
# 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 "$create_entity_statement" | grep 'CREATE VIEW'`
if [ -n "$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 "${LOCATION_SED_ARG_3}"`
all_create_view_statements+=("$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"
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"
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"
fi
fi
fi
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 $i";
done
echo -e "\nAll tables have been created, going to create the views..\n"
# deleting the remaining directory from hdfs
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -rm -R /tmp/$FILE/${db}.db
# Time to loop through the views and create them.
# At this point all table-schemas should have been created.
previous_num_of_views_to_retry=${#all_create_view_statements}
if [[ $previous_num_of_views_to_retry -gt 0 ]]; then
echo -e "\nAll_create_view_statements:\n\n${all_create_view_statements[@]}\n" # DEBUG
# Make Impala aware of the new tables, so it knows them when creating the views.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
else
echo -e "\nDB '${db}' does not contain any views.\n"
fi
level_counter=0
while [[ ${#all_create_view_statements[@]} -gt 0 ]]; do
((level_counter++))
# The only accepted reason for a view to not be created, is if it depends on another view, which has not been created yet.
# In this case, we should retry creating this particular view again.
should_retry_create_view_statements=()
for create_view_statement in "${all_create_view_statements[@]}"; do # Here we use double quotes, as the elements are phrases, instead of single-words.
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "${create_view_statement}" |& tee error.log # impala-shell prints all logs in stderr, so wee need to capture them and put them in a file, in order to perform "grep" on them later
specific_errors=`cat error.log | grep -E "FAILED: ParseException line 1:13 missing TABLE at 'view'|ERROR: AnalysisException: Could not resolve table reference:"`
if [ -n "$specific_errors" ]; then
echo -e "\nspecific_errors: ${specific_errors}\n"
echo -e "\nView '$(cat error.log | grep "CREATE VIEW " | sed 's/CREATE VIEW //g' | sed 's/ as select .*//g')' failed to be created, possibly because it depends on another view.\n"
should_retry_create_view_statements+=("$create_view_statement")
else
sleep 1 # Wait a bit for Impala to register that the view was created, before possibly referencing it by another view.
fi
done
new_num_of_views_to_retry=${#should_retry_create_view_statements}
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"
return 3
elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
echo -e "\nTo be retried \"create_view_statements\":\n\n${should_retry_create_view_statements[@]}\n"
previous_num_of_views_to_retry=$new_num_of_views_to_retry
else
echo -e "\nFinished creating views, for db: '${db}', in level-${level_counter}.\n"
fi
all_create_view_statements=("${should_retry_create_view_statement[@]}") # This is needed in any case to either move forward with the rest of the views or stop at 0 remaining views.
done
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
echo -e "\nComputing stats for tables..\n"
entities_on_impala=`impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} --delimited -q "show tables in ${db}"`
for i in ${entities_on_impala[@]}; do # Use un-quoted values, as the elemetns are single-words.
# Taking the create table statement from the Ocean cluster, just to check if its a view, as the output is easier than using impala-shell from Impala cluster.
create_view_statement=`hive -e "show create table ${db}.${i};" | grep "CREATE VIEW"` # This grep works here, as we do not want to match multiple-lines.
if [ -z "$create_view_statement" ]; then # If it's a table, then go load the data to it.
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "compute stats ${db}.${i}";
fi
done
if [ "${entities_on_impala[@]}" == "${entities_on_ocean[@]}" ]; then
echo -e "\nAll entities have been copied to Impala cluster.\n"
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
return 4
fi
rm -f error.log
echo -e "\n\nFinished processing db: ${db}\n\n"
}
MONITOR_DB=$1
#HADOOP_USER_NAME=$2
copydb $MONITOR_DB

View File

@ -8,9 +8,12 @@ fi
export HADOOP_USER_NAME=$2
# 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}"
IMPALA_HDFS_NODE=''
COUNTER=0
while [ $COUNTER -lt 3 ]; do
if hdfs dfs -test -e hdfs://impala-cluster-mn1.openaire.eu/tmp >/dev/null 2>&1; then
IMPALA_HDFS_NODE='hdfs://impala-cluster-mn1.openaire.eu:8020'
@ -24,70 +27,195 @@ while [ $COUNTER -lt 3 ]; do
fi
((COUNTER++))
done
if [ -z "$IMPALA_HDFS_NODE" ]; then
echo -e "\n\nPROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! $COUNTER\n\n"
echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
exit 1
fi
echo "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries."
echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
IMPALA_HOSTNAME='impala-cluster-dn1.openaire.eu'
IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
IMPALA_HDFS_DB_BASE_PATH="${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 copydb() {
db=$1
FILE=("hive_wf_tmp_"$RANDOM)
hdfs dfs -mkdir ${IMPALA_HDFS_NODE}/tmp/$FILE/
echo -e "\nStart processing db: '${db}'..\n"
# change ownership to impala
# hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/
# Delete the old DB from Impala cluster (if exists).
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "drop database if exists ${db} cascade" |& tee error.log # impala-shell prints all logs in stderr, so wee need to capture them and put them in a file, in order to perform "grep" on them later
log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
if [ -n "$log_errors" ]; then
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
rm -f error.log
return 1
fi
# Make Impala aware of the deletion of the old DB immediately.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
# 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 ${IMPALA_HDFS_NODE}/tmp/$FILE/
echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
# Using max-bandwidth of: 50 * 100 Mb/s = 5 Gb/s
# Using max memory of: 50 * 6144 = 300 Gb
# Using 1MB as a buffer-size.
# The " -Ddistcp.dynamic.recordsPerChunk=50" arg is not available in our version of hadoop
# The "ug" args cannot be used as we get a "User does not belong to hive" error.
# The "p" argument cannot be used, as it blocks the files from being used, giving a "sticky bit"-error, even after applying chmod and chown onm the files.
hadoop distcp -Dmapreduce.map.memory.mb=6144 -m 70 -bandwidth 150 \
-numListstatusThreads 40 \
-copybuffersize 1048576 \
-strategy dynamic \
-pb \
${OCEAN_HDFS_NODE}/user/hive/warehouse/${db}.db ${IMPALA_HDFS_DB_BASE_PATH}
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db
# Check the exit status of the "hadoop distcp" command.
if [ $? -eq 0 ]; then
echo -e "\nSuccessfully copied the files of '${db}'.\n"
else
echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT WITH EXIT STATUS: $?\n\n"
rm -f error.log
return 2
fi
# 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
# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
#hdfs dfs -conf ${IMPALA_CONFIG_FILE} -chmod -R 777 ${TEMP_SUBDIR_FULLPATH}/${db}.db
# 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 $i;"`;
done
echo -e "\nCreating schema for db: '${db}'\n"
# delete the database
impala-shell -i impala-cluster-dn1.openaire.eu -q "drop database if exists ${db} cascade";
# create the new database (with the same name)
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create database ${db}"
# create the databases
impala-shell -i impala-cluster-dn1.openaire.eu -q "create database ${db}";
# Make Impala aware of the creation of the new DB immediately.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
# Because "Hive" and "Impala" do not have compatible schemas, we cannot use the "show create table <name>" output from hive to create the exact same table in impala.
# So, we have to find at least one parquet file (check if it's there) from the table in the ocean cluster for impala to use it to extract the table-schema itself from that file.
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 -
all_create_view_statements=()
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.
# 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 "$create_entity_statement" | grep 'CREATE VIEW'`
if [ -n "$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 "${LOCATION_SED_ARG_3}"`
all_create_view_statements+=("$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"
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"
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"
fi
fi
fi
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 $i";
done
echo -e "\nAll tables have been created, going to create the views..\n"
# deleting the remaining directory from hdfs
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -rm -R /tmp/$FILE/${db}.db
# Time to loop through the views and create them.
# At this point all table-schemas should have been created.
previous_num_of_views_to_retry=${#all_create_view_statements}
if [[ $previous_num_of_views_to_retry -gt 0 ]]; then
echo -e "\nAll_create_view_statements:\n\n${all_create_view_statements[@]}\n" # DEBUG
# Make Impala aware of the new tables, so it knows them when creating the views.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
else
echo -e "\nDB '${db}' does not contain any views.\n"
fi
level_counter=0
while [[ ${#all_create_view_statements[@]} -gt 0 ]]; do
((level_counter++))
# The only accepted reason for a view to not be created, is if it depends on another view, which has not been created yet.
# In this case, we should retry creating this particular view again.
should_retry_create_view_statements=()
for create_view_statement in "${all_create_view_statements[@]}"; do # Here we use double quotes, as the elements are phrases, instead of single-words.
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "${create_view_statement}" |& tee error.log # impala-shell prints all logs in stderr, so wee need to capture them and put them in a file, in order to perform "grep" on them later
specific_errors=`cat error.log | grep -E "FAILED: ParseException line 1:13 missing TABLE at 'view'|ERROR: AnalysisException: Could not resolve table reference:"`
if [ -n "$specific_errors" ]; then
echo -e "\nspecific_errors: ${specific_errors}\n"
echo -e "\nView '$(cat error.log | grep "CREATE VIEW " | sed 's/CREATE VIEW //g' | sed 's/ as select .*//g')' failed to be created, possibly because it depends on another view.\n"
should_retry_create_view_statements+=("$create_view_statement")
else
sleep 1 # Wait a bit for Impala to register that the view was created, before possibly referencing it by another view.
fi
done
new_num_of_views_to_retry=${#should_retry_create_view_statements}
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"
return 3
elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
echo -e "\nTo be retried \"create_view_statements\":\n\n${should_retry_create_view_statements[@]}\n"
previous_num_of_views_to_retry=$new_num_of_views_to_retry
else
echo -e "\nFinished creating views, for db: '${db}', in level-${level_counter}.\n"
fi
all_create_view_statements=("${should_retry_create_view_statement[@]}") # This is needed in any case to either move forward with the rest of the views or stop at 0 remaining views.
done
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
echo -e "\nComputing stats for tables..\n"
entities_on_impala=`impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} --delimited -q "show tables in ${db}"`
for i in ${entities_on_impala[@]}; do # Use un-quoted values, as the elemetns are single-words.
# Taking the create table statement from the Ocean cluster, just to check if its a view, as the output is easier than using impala-shell from Impala cluster.
create_view_statement=`hive -e "show create table ${db}.${i};" | grep "CREATE VIEW"` # This grep works here, as we do not want to match multiple-lines.
if [ -z "$create_view_statement" ]; then # If it's a table, then go load the data to it.
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "compute stats ${db}.${i}";
fi
done
if [ "${entities_on_impala[@]}" == "${entities_on_ocean[@]}" ]; then
echo -e "\nAll entities have been copied to Impala cluster.\n"
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
return 4
fi
rm -f error.log
echo -e "\n\nFinished processing db: ${db}\n\n"
}
MONITOR_DB=$1
#HADOOP_USER_NAME=$2
copydb $MONITOR_DB

View File

@ -6,11 +6,14 @@ then
ln -sfn ${PYTHON_EGG_CACHE}${link_folder} ${link_folder}
fi
#export HADOOP_USER_NAME=$2
export HADOOP_USER_NAME=$2
# 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}"
IMPALA_HDFS_NODE=''
COUNTER=0
while [ $COUNTER -lt 3 ]; do
if hdfs dfs -test -e hdfs://impala-cluster-mn1.openaire.eu/tmp >/dev/null 2>&1; then
IMPALA_HDFS_NODE='hdfs://impala-cluster-mn1.openaire.eu:8020'
@ -24,75 +27,196 @@ while [ $COUNTER -lt 3 ]; do
fi
((COUNTER++))
done
if [ -z "$IMPALA_HDFS_NODE" ]; then
echo -e "\n\nPROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! $COUNTER\n\n"
echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
exit 1
fi
echo "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries."
echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
IMPALA_HOSTNAME='impala-cluster-dn1.openaire.eu'
IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
IMPALA_HDFS_DB_BASE_PATH="${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 copydb() {
export HADOOP_USER="dimitris.pierrakos"
export HADOOP_USER_NAME='dimitris.pierrakos'
db=$1
FILE=("hive_wf_tmp_"$RANDOM)
hdfs dfs -mkdir ${IMPALA_HDFS_NODE}/tmp/$FILE
echo -e "\nStart processing db: '${db}'..\n"
# change ownership to impala
# hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/
# Delete the old DB from Impala cluster (if exists).
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "drop database if exists ${db} cascade" |& tee error.log # impala-shell prints all logs in stderr, so wee need to capture them and put them in a file, in order to perform "grep" on them later
log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
if [ -n "$log_errors" ]; then
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
rm -f error.log
return 1
fi
# Make Impala aware of the deletion of the old DB immediately.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
# 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 ${IMPALA_HDFS_NODE}/tmp/$FILE/
echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
# Using max-bandwidth of: 50 * 100 Mb/s = 5 Gb/s
# Using max memory of: 50 * 6144 = 300 Gb
# Using 1MB as a buffer-size.
# The " -Ddistcp.dynamic.recordsPerChunk=50" arg is not available in our version of hadoop
# The "ug" args cannot be used as we get a "User does not belong to hive" error.
# The "p" argument cannot be used, as it blocks the files from being used, giving a "sticky bit"-error, even after applying chmod and chown onm the files.
hadoop distcp -Dmapreduce.map.memory.mb=6144 -m 70 -bandwidth 150 \
-numListstatusThreads 40 \
-copybuffersize 1048576 \
-strategy dynamic \
-pb \
${OCEAN_HDFS_NODE}/user/hive/warehouse/${db}.db ${IMPALA_HDFS_DB_BASE_PATH}
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db
# Check the exit status of the "hadoop distcp" command.
if [ $? -eq 0 ]; then
echo -e "\nSuccessfully copied the files of '${db}'.\n"
else
echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT WITH EXIT STATUS: $?\n\n"
rm -f error.log
return 2
fi
# 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
# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
#hdfs dfs -conf ${IMPALA_CONFIG_FILE} -chmod -R 777 ${TEMP_SUBDIR_FULLPATH}/${db}.db
# 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 $i;"`;
done
echo -e "\nCreating schema for db: '${db}'\n"
# delete the database
impala-shell -i impala-cluster-dn1.openaire.eu -q "drop database if exists ${db} cascade";
# create the new database (with the same name)
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create database ${db}"
# create the databases
impala-shell -i impala-cluster-dn1.openaire.eu -q "create database ${db}";
# Make Impala aware of the creation of the new DB immediately.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
# Because "Hive" and "Impala" do not have compatible schemas, we cannot use the "show create table <name>" output from hive to create the exact same table in impala.
# So, we have to find at least one parquet file (check if it's there) from the table in the ocean cluster for impala to use it to extract the table-schema itself from that file.
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 -
all_create_view_statements=()
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.
# 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 "$create_entity_statement" | grep 'CREATE VIEW'`
if [ -n "$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 "${LOCATION_SED_ARG_3}"`
all_create_view_statements+=("$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"
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"
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"
fi
fi
fi
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 $i";
done
echo -e "\nAll tables have been created, going to create the views..\n"
# deleting the remaining directory from hdfs
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -rm -R /tmp/$FILE/${db}.db
# Time to loop through the views and create them.
# At this point all table-schemas should have been created.
previous_num_of_views_to_retry=${#all_create_view_statements}
if [[ $previous_num_of_views_to_retry -gt 0 ]]; then
echo -e "\nAll_create_view_statements:\n\n${all_create_view_statements[@]}\n" # DEBUG
# Make Impala aware of the new tables, so it knows them when creating the views.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
else
echo -e "\nDB '${db}' does not contain any views.\n"
fi
level_counter=0
while [[ ${#all_create_view_statements[@]} -gt 0 ]]; do
((level_counter++))
# The only accepted reason for a view to not be created, is if it depends on another view, which has not been created yet.
# In this case, we should retry creating this particular view again.
should_retry_create_view_statements=()
for create_view_statement in "${all_create_view_statements[@]}"; do # Here we use double quotes, as the elements are phrases, instead of single-words.
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "${create_view_statement}" |& tee error.log # impala-shell prints all logs in stderr, so wee need to capture them and put them in a file, in order to perform "grep" on them later
specific_errors=`cat error.log | grep -E "FAILED: ParseException line 1:13 missing TABLE at 'view'|ERROR: AnalysisException: Could not resolve table reference:"`
if [ -n "$specific_errors" ]; then
echo -e "\nspecific_errors: ${specific_errors}\n"
echo -e "\nView '$(cat error.log | grep "CREATE VIEW " | sed 's/CREATE VIEW //g' | sed 's/ as select .*//g')' failed to be created, possibly because it depends on another view.\n"
should_retry_create_view_statements+=("$create_view_statement")
else
sleep 1 # Wait a bit for Impala to register that the view was created, before possibly referencing it by another view.
fi
done
new_num_of_views_to_retry=${#should_retry_create_view_statements}
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"
return 3
elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
echo -e "\nTo be retried \"create_view_statements\":\n\n${should_retry_create_view_statements[@]}\n"
previous_num_of_views_to_retry=$new_num_of_views_to_retry
else
echo -e "\nFinished creating views, for db: '${db}', in level-${level_counter}.\n"
fi
all_create_view_statements=("${should_retry_create_view_statement[@]}") # This is needed in any case to either move forward with the rest of the views or stop at 0 remaining views.
done
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
echo -e "\nComputing stats for tables..\n"
entities_on_impala=`impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} --delimited -q "show tables in ${db}"`
for i in ${entities_on_impala[@]}; do # Use un-quoted values, as the elemetns are single-words.
# Taking the create table statement from the Ocean cluster, just to check if its a view, as the output is easier than using impala-shell from Impala cluster.
create_view_statement=`hive -e "show create table ${db}.${i};" | grep "CREATE VIEW"` # This grep works here, as we do not want to match multiple-lines.
if [ -z "$create_view_statement" ]; then # If it's a table, then go load the data to it.
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "compute stats ${db}.${i}";
fi
done
if [ "${entities_on_impala[@]}" == "${entities_on_ocean[@]}" ]; then
echo -e "\nAll entities have been copied to Impala cluster.\n"
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
return 4
fi
rm -f error.log
echo -e "\n\nFinished processing db: ${db}\n\n"
}
MONITOR_DB=$1
#HADOOP_USER_NAME=$2
copydb $MONITOR_DB'_institutions'
copydb $MONITOR_DB

View File

@ -6,9 +6,13 @@ then
ln -sfn ${PYTHON_EGG_CACHE}${link_folder} ${link_folder}
fi
# 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}"
IMPALA_HDFS_NODE=''
COUNTER=0
while [ $COUNTER -lt 3 ]; do
if hdfs dfs -test -e hdfs://impala-cluster-mn1.openaire.eu/tmp >/dev/null 2>&1; then
IMPALA_HDFS_NODE='hdfs://impala-cluster-mn1.openaire.eu:8020'
@ -22,76 +26,195 @@ while [ $COUNTER -lt 3 ]; do
fi
((COUNTER++))
done
if [ -z "$IMPALA_HDFS_NODE" ]; then
echo -e "\n\nPROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! $COUNTER\n\n"
echo -e "\n\nERROR: PROBLEM WHEN SETTING THE HDFS-NODE FOR IMPALA CLUSTER! | AFTER ${COUNTER} RETRIES.\n\n"
exit 1
fi
echo "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries."
echo -e "Active IMPALA HDFS Node: ${IMPALA_HDFS_NODE} , after ${COUNTER} retries.\n\n"
IMPALA_HOSTNAME='impala-cluster-dn1.openaire.eu'
IMPALA_CONFIG_FILE='/etc/impala_cluster/hdfs-site.xml'
IMPALA_HDFS_DB_BASE_PATH="${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'
export HADOOP_USER_NAME=$6
export PROD_USAGE_STATS_DB="openaire_prod_usage_stats"
function copydb() {
db=$1
FILE=("hive_wf_tmp_"$RANDOM)
hdfs dfs -mkdir ${IMPALA_HDFS_NODE}/tmp/$FILE/
# copy the databases from ocean to impala
echo -e "\nStart processing db: '${db}'..\n"
echo "copying $db"
hadoop distcp -Dmapreduce.map.memory.mb=6144 -pb hdfs://nameservice1/user/hive/warehouse/${db}.db ${IMPALA_HDFS_NODE}/tmp/$FILE/
# Delete the old DB from Impala cluster (if exists).
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "drop database if exists ${db} cascade" |& tee error.log # impala-shell prints all logs in stderr, so wee need to capture them and put them in a file, in order to perform "grep" on them later
log_errors=`cat error.log | grep -E "WARN|ERROR|FAILED"`
if [ -n "$log_errors" ]; then
echo -e "\n\nERROR: THERE WAS A PROBLEM WHEN DROPPING THE OLD DATABASE! EXITING...\n\n"
rm -f error.log
return 1
fi
# change ownership to impala
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -chmod -R 777 /tmp/$FILE/${db}.db
# Make Impala aware of the deletion of the old DB immediately.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
# drop tables from db
for i in `impala-shell --user $HADOOP_USER_NAME -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 $i;"`;
done
echo -e "\n\nCopying files of '${db}', from Ocean to Impala cluster..\n"
# Using max-bandwidth of: 50 * 100 Mb/s = 5 Gb/s
# Using max memory of: 50 * 6144 = 300 Gb
# Using 1MB as a buffer-size.
# The " -Ddistcp.dynamic.recordsPerChunk=50" arg is not available in our version of hadoop
# The "ug" args cannot be used as we get a "User does not belong to hive" error.
# The "p" argument cannot be used, as it blocks the files from being used, giving a "sticky bit"-error, even after applying chmod and chown onm the files.
hadoop distcp -Dmapreduce.map.memory.mb=6144 -m 70 -bandwidth 150 \
-numListstatusThreads 40 \
-copybuffersize 1048576 \
-strategy dynamic \
-pb \
${OCEAN_HDFS_NODE}/user/hive/warehouse/${db}.db ${IMPALA_HDFS_DB_BASE_PATH}
# drop views from db
for i in `impala-shell --user $HADOOP_USER_NAME -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
# Check the exit status of the "hadoop distcp" command.
if [ $? -eq 0 ]; then
echo -e "\nSuccessfully copied the files of '${db}'.\n"
else
echo -e "\n\nERROR: FAILED TO TRANSFER THE FILES OF '${db}', WITH 'hadoop distcp'. GOT WITH EXIT STATUS: $?\n\n"
rm -f error.log
return 2
fi
# delete the database
impala-shell --user $HADOOP_USER_NAME -i impala-cluster-dn1.openaire.eu -q "drop database if exists ${db} cascade";
# In case we ever use this script for a writable DB (using inserts/updates), we should perform the following costly operation as well..
#hdfs dfs -conf ${IMPALA_CONFIG_FILE} -chmod -R 777 ${TEMP_SUBDIR_FULLPATH}/${db}.db
# create the databases
impala-shell --user $HADOOP_USER_NAME -i impala-cluster-dn1.openaire.eu -q "create database ${db}";
echo -e "\nCreating schema for db: '${db}'\n"
impala-shell --user $HADOOP_USER_NAME -q "INVALIDATE METADATA"
echo "creating schema for ${db}"
for (( k = 0; k < 5; k ++ )); do
for i in `impala-shell --user $HADOOP_USER_NAME -d ${db} --delimited -q "show tables"`;
do
impala-shell --user $HADOOP_USER_NAME -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 -
# create the new database (with the same name)
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "create database ${db}"
# Make Impala aware of the creation of the new DB immediately.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
# Because "Hive" and "Impala" do not have compatible schemas, we cannot use the "show create table <name>" output from hive to create the exact same table in impala.
# So, we have to find at least one parquet file (check if it's there) from the table in the ocean cluster for impala to use it to extract the table-schema itself from that file.
all_create_view_statements=()
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.
# 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 "$create_entity_statement" | grep 'CREATE VIEW'`
if [ -n "$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 "${LOCATION_SED_ARG_3}"`
all_create_view_statements+=("$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"
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"
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"
fi
fi
fi
done
# for i in `impala-shell --user $HADOOP_USER_NAME -d ${db} --delimited -q "show tables"`;
# do
# impala-shell --user $HADOOP_USER_NAME -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 -
#
# # run the same command twice because we may have failures in the first run (due to views pointing to the same db)
# for i in `impala-shell --user $HADOOP_USER_NAME -d ${db} --delimited -q "show tables"`;
# do
# impala-shell --user $HADOOP_USER_NAME -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 -
echo -e "\nAll tables have been created, going to create the views..\n"
# load the data from /tmp in the respective tables
echo "copying data in tables and computing stats"
for i in `impala-shell --user $HADOOP_USER_NAME -i impala-cluster-dn1.openaire.eu -d ${db} --delimited -q "show tables"`;
do
impala-shell --user $HADOOP_USER_NAME -i impala-cluster-dn1.openaire.eu -d ${db} -q "load data inpath '/tmp/$FILE/${db}.db/$i' into table $i";
impala-shell --user $HADOOP_USER_NAME -i impala-cluster-dn1.openaire.eu -d ${db} -q "compute stats $i";
done
# Time to loop through the views and create them.
# At this point all table-schemas should have been created.
# deleting the remaining directory from hdfs
hdfs dfs -conf /etc/impala_cluster/hdfs-site.xml -rm -R /tmp/$FILE/${db}.db
previous_num_of_views_to_retry=${#all_create_view_statements}
if [[ $previous_num_of_views_to_retry -gt 0 ]]; then
echo -e "\nAll_create_view_statements:\n\n${all_create_view_statements[@]}\n" # DEBUG
# Make Impala aware of the new tables, so it knows them when creating the views.
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
else
echo -e "\nDB '${db}' does not contain any views.\n"
fi
level_counter=0
while [[ ${#all_create_view_statements[@]} -gt 0 ]]; do
((level_counter++))
# The only accepted reason for a view to not be created, is if it depends on another view, which has not been created yet.
# In this case, we should retry creating this particular view again.
should_retry_create_view_statements=()
for create_view_statement in "${all_create_view_statements[@]}"; do # Here we use double quotes, as the elements are phrases, instead of single-words.
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "${create_view_statement}" |& tee error.log # impala-shell prints all logs in stderr, so wee need to capture them and put them in a file, in order to perform "grep" on them later
specific_errors=`cat error.log | grep -E "FAILED: ParseException line 1:13 missing TABLE at 'view'|ERROR: AnalysisException: Could not resolve table reference:"`
if [ -n "$specific_errors" ]; then
echo -e "\nspecific_errors: ${specific_errors}\n"
echo -e "\nView '$(cat error.log | grep "CREATE VIEW " | sed 's/CREATE VIEW //g' | sed 's/ as select .*//g')' failed to be created, possibly because it depends on another view.\n"
should_retry_create_view_statements+=("$create_view_statement")
else
sleep 1 # Wait a bit for Impala to register that the view was created, before possibly referencing it by another view.
fi
done
new_num_of_views_to_retry=${#should_retry_create_view_statements}
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"
return 3
elif [[ $new_num_of_views_to_retry -gt 0 ]]; then
echo -e "\nTo be retried \"create_view_statements\":\n\n${should_retry_create_view_statements[@]}\n"
previous_num_of_views_to_retry=$new_num_of_views_to_retry
else
echo -e "\nFinished creating views, for db: '${db}', in level-${level_counter}.\n"
fi
all_create_view_statements=("${should_retry_create_view_statement[@]}") # This is needed in any case to either move forward with the rest of the views or stop at 0 remaining views.
done
sleep 1
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "INVALIDATE METADATA"
sleep 1
echo -e "\nComputing stats for tables..\n"
entities_on_impala=`impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} --delimited -q "show tables in ${db}"`
for i in ${entities_on_impala[@]}; do # Use un-quoted values, as the elemetns are single-words.
# Taking the create table statement from the Ocean cluster, just to check if its a view, as the output is easier than using impala-shell from Impala cluster.
create_view_statement=`hive -e "show create table ${db}.${i};" | grep "CREATE VIEW"` # This grep works here, as we do not want to match multiple-lines.
if [ -z "$create_view_statement" ]; then # If it's a table, then go load the data to it.
impala-shell --user ${HADOOP_USER_NAME} -i ${IMPALA_HOSTNAME} -q "compute stats ${db}.${i}";
fi
done
if [ "${entities_on_impala[@]}" == "${entities_on_ocean[@]}" ]; then
echo -e "\nAll entities have been copied to Impala cluster.\n"
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
return 4
fi
rm -f error.log
echo -e "\n\nFinished processing db: ${db}\n\n"
}
STATS_DB=$1