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rt.sh
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rt.sh
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#!/bin/bash
set -eu
set -o errexit #Lets trap exit info as error for logging
echo "******Regression Testing Script Started******"
SECONDS=0
hostname
die() { echo "$@" >&2; exit 1; }
usage() {
set +x #No reason to print out a bunch of echo statements here
echo
echo "Usage: $0 -a <account> | -b <file> | -c | -d | -e | -h | -k | -l <file> | -m | -n <name> | -o | -r | -v | -w"
echo
echo " -a <account> to use on for HPC queue"
echo " -b create new baselines only for tests listed in <file>"
echo " -c create new baseline results"
echo " -d delete run direcotries that are not used by other tests"
echo " -e use ecFlow workflow manager"
echo " -h display this help"
echo " -k keep run directory after rt.sh is completed"
echo " -l runs test specified in <file>"
echo " -m compare against new baseline results"
echo " -n run single test <name>"
echo " -o compile only, skip tests"
echo " -r use Rocoto workflow manager"
echo " -v verbose output"
echo " -w for weekly_test, skip comparing baseline results"
echo
set -x
}
[[ $# -eq 0 ]] && usage
update_rtconf() {
echo "rt.sh: Checking & Updating test configuration..."
find_match() {
# This function finds if a test in $TESTS_FILE matches one
# in our list of tests to be run.
THIS_TEST_WITH_COMPILER=$1
shift
TWC=("$@")
FOUND=false
for i in "${!TWC[@]}"; do
if [[ "${TWC[${i}]}" == "${THIS_TEST_WITH_COMPILER}" ]]; then
FOUND=true
echo "${i}"
return
fi
done
if [[ ${FOUND} == false ]]; then
echo "-1"
fi
}
# This script will update the rt.conf ($TESTS_FILE) if needed by the
# -b or -n options being called/used.
# THE USER CHOSE THE -b OPTION
if [[ ${NEW_BASELINES_FILE} != '' ]]; then
[[ -s "${NEW_BASELINES_FILE}" ]] || die "${NEW_BASELINES_FILE} is empty, exiting..."
TEST_WITH_COMPILE=()
readarray -t TEST_WITH_COMPILE < "${NEW_BASELINES_FILE}"
# else USER CHOSE THE -n OPTION
elif [[ ${RUN_SINGLE_TEST} == true ]]; then
TEST_WITH_COMPILE=("${SRT_NAME} ${SRT_COMPILER}")
else
echo "No update needed to rt.conf"
return
fi
RT_TEMP_CONF="rt_temp.conf"
rm -f "${RT_TEMP_CONF}" && touch "${RT_TEMP_CONF}"
local compile_line=''
while read -r line || [[ -n "${line}" ]]; do
line="${line#"${line%%[![:space:]]*}"}"
[[ -n "${line}" ]] || continue
[[ ${#line} == 0 ]] && continue
[[ ${line} == \#* ]] && continue
if [[ ${line} =~ COMPILE ]] ; then
MACHINES=$(cut -d'|' -f5 <<< "${line}")
MACHINES=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${MACHINES}")
RT_COMPILER_IN=$(cut -d'|' -f3 <<< "${line}")
RT_COMPILER_IN=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${RT_COMPILER_IN}")
if [[ ${MACHINES} == '' ]]; then
compile_line=${line}
COMPILE_LINE_USED=false
elif [[ ${MACHINES} == -* ]]; then
[[ ${MACHINES} =~ ${MACHINE_ID} ]] || compile_line=${line}; COMPILE_LINE_USED=false
elif [[ ${MACHINES} == +* ]]; then
[[ ${MACHINES} =~ ${MACHINE_ID} ]] && compile_line=${line}; COMPILE_LINE_USED=false
fi
fi
if [[ ${line} =~ RUN ]]; then
to_run_test=false
tmp_test=$(cut -d'|' -f2 <<< "${line}")
tmp_test=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${tmp_test}")
MACHINES=$(cut -d'|' -f3 <<< "${line}")
MACHINES=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${MACHINES}")
if [[ ${MACHINES} == '' ]]; then
to_run_test=true
elif [[ ${MACHINES} == -* ]]; then
[[ ${MACHINES} =~ ${MACHINE_ID} ]] || to_run_test=true
elif [[ ${MACHINES} == +* ]]; then
[[ ${MACHINES} =~ ${MACHINE_ID} ]] && to_run_test=true
fi
if [[ ${to_run_test} == true ]]; then
TEST_IDX=$(set -e; find_match "${tmp_test} ${RT_COMPILER_IN}" "${TEST_WITH_COMPILE[@]}")
if [[ ${TEST_IDX} != -1 ]]; then
if [[ ${COMPILE_LINE_USED} == false ]]; then
echo -en '\n' >> "${RT_TEMP_CONF}"
echo "${compile_line}" >> "${RT_TEMP_CONF}"
COMPILE_LINE_USED=true
fi
dep_test=$(grep -w "${tmp_test}" <<< "${line}")
dep_test=$(cut -d'|' -f5 <<< "${dep_test}")
dep_test=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${dep_test}")
if [[ ${dep_test} != '' ]]; then
find_match_result=$(set -e; find_match "${dep_test} ${RT_COMPILER_IN}" "${TEST_WITH_COMPILE[@]}")
if [[ ${find_match_result} == -1 ]]; then
dep_line=$(grep -w "${dep_test}" rt.conf)
dep_line=$(grep -v "${tmp_test}" <<< "${dep_line}")
dep_line="${dep_line#"${dep_line%%[![:space:]]*}"}"
dep_line=$(tr -d '\n' <<< "${dep_line}")
CORRECT_LINE[1]=$(awk -F'RUN|RUN' '{print $2}' <<< "${dep_line}")
CORRECT_LINE[2]=$(awk -F'RUN|RUN' '{print $3}' <<< "${dep_line}")
if [[ ${RT_COMPILER_IN} == "intel" ]]; then
echo "RUN ${CORRECT_LINE[1]}" >> "${RT_TEMP_CONF}"
elif [[ ${RT_COMPILER_IN} == "gnu" ]]; then
echo "RUN ${CORRECT_LINE[2]}" >> "${RT_TEMP_CONF}"
fi
fi
fi
echo "${line}" >> "${RT_TEMP_CONF}"
fi
fi
fi
done < "${TESTS_FILE}"
if [[ ! -s ${RT_TEMP_CONF} ]]; then
echo "The tests listed/chosen do not exist or cannot be run on ${MACHINE_ID}"
exit 1
else
TESTS_FILE=${RT_TEMP_CONF}
fi
}
generate_log() {
echo "rt.sh: Generating Regression Testing Log..."
COMPILE_COUNTER=0
FAILED_COMPILES=()
TEST_COUNTER=0
FAILED_TESTS=()
FAILED_TEST_ID=()
FAILED_COMPILE_LOGS=()
FAILED_TEST_LOGS=()
TEST_CHANGES_LOG="test_changes.list"
TEST_END_TIME="$(date '+%Y%m%d %T')"
GIT_HASHES=$(git rev-parse HEAD)
cat << EOF > "${REGRESSIONTEST_LOG}"
====START OF ${MACHINE_ID^^} REGRESSION TESTING LOG====
UFSWM hash used in testing:
${GIT_HASHES}
Submodule hashes used in testing:
EOF
cd ..
if [[ ${MACHINE_ID} != hera ]]; then
git submodule status --recursive >> "${REGRESSIONTEST_LOG}"
else
git submodule status >> "${REGRESSIONTEST_LOG}"
fi
echo; echo >> "${REGRESSIONTEST_LOG}"
cd tests
cat << EOF >> "${REGRESSIONTEST_LOG}"
NOTES:
[Times](Memory) are at the end of each compile/test in format [MM:SS](Size).
The first time is for the full script (prep+run+finalize).
The second time is specifically for the run phase.
Times/Memory will be empty for failed tests.
BASELINE DIRECTORY: ${RTPWD}
COMPARISON DIRECTORY: ${RUNDIR_ROOT}
RT.SH OPTIONS USED:
EOF
[[ -n ${ACCNR} ]] && echo "* (-a) - HPC PROJECT ACCOUNT: ${ACCNR}" >> "${REGRESSIONTEST_LOG}"
[[ -n ${NEW_BASELINES_FILE} ]] && echo "* (-b) - NEW BASELINES FROM FILE: ${NEW_BASELINES_FILE}" >> "${REGRESSIONTEST_LOG}"
[[ ${CREATE_BASELINE} == true ]] && echo "* (-c) - CREATE NEW BASELINES" >> "${REGRESSIONTEST_LOG}"
[[ ${DEFINE_CONF_FILE} == true ]] && echo "* (-l) - USE CONFIG FILE: ${TESTS_FILE}" >> "${REGRESSIONTEST_LOG}"
[[ ${RTPWD_NEW_BASELINE} == true ]] && echo "* (-m) - COMPARE AGAINST CREATED BASELINES" >> "${REGRESSIONTEST_LOG}"
[[ ${RUN_SINGLE_TEST} == true ]] && echo "* (-n) - RUN SINGLE TEST: ${SINGLE_OPTS}" >> "${REGRESSIONTEST_LOG}"
[[ ${COMPILE_ONLY} == true ]]&& echo "* (-o) - COMPILE ONLY, SKIP TESTS" >> "${REGRESSIONTEST_LOG}"
[[ ${delete_rundir} == true ]] && echo "* (-d) - DELETE RUN DIRECTORY" >> "${REGRESSIONTEST_LOG}"
[[ ${skip_check_results} == true ]] && echo "* (-w) - SKIP RESULTS CHECK" >> "${REGRESSIONTEST_LOG}"
[[ ${KEEP_RUNDIR} == true ]] && echo "* (-k) - KEEP RUN DIRECTORY" >> "${REGRESSIONTEST_LOG}"
[[ ${ROCOTO} == true ]] && echo "* (-r) - USE ROCOTO" >> "${REGRESSIONTEST_LOG}"
[[ ${ECFLOW} == true ]] && echo "* (-e) - USE ECFLOW" >> "${REGRESSIONTEST_LOG}"
[[ ${RTVERBOSE} == true ]] && echo "* (-v) - VERBOSE OUTPUT" >> "${REGRESSIONTEST_LOG}"
[[ -f "${TEST_CHANGES_LOG}" ]] && rm "${TEST_CHANGES_LOG}"
touch "${TEST_CHANGES_LOG}"
while read -r line; do
line="${line#"${line%%[![:space:]]*}"}"
[[ -n "${line}" ]] || continue
[[ ${#line} == 0 ]] && continue
[[ ${line} == \#* ]] && continue
local valid_compile=false
local valid_test=false
if [[ ${line} == COMPILE* ]] ; then
CMACHINES=$(cut -d'|' -f5 <<< "${line}")
CMACHINES=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${CMACHINES}")
COMPILER=$(cut -d'|' -f3 <<< "${line}")
COMPILER=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${COMPILER}")
COMPILE_NAME=$(cut -d'|' -f2 <<< "${line}")
COMPILE_NAME=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${COMPILE_NAME}")
COMPILE_ID=${COMPILE_NAME}_${COMPILER}
if [[ ${CMACHINES} == '' ]]; then
valid_compile=true
elif [[ ${CMACHINES} == -* ]]; then
[[ ${CMACHINES} =~ ${MACHINE_ID} ]] || valid_compile=true
elif [[ ${CMACHINES} == +* ]]; then
[[ ${CMACHINES} =~ ${MACHINE_ID} ]] && valid_compile=true
fi
if [[ ${valid_compile} == true ]]; then
COMPILE_COUNTER=$((COMPILE_COUNTER+1))
FAIL_LOG=""
COMPILE_RESULT=""
TIME_FILE=""
COMPILE_TIME=""
RT_COMPILE_TIME=""
if [[ ! -f "${LOG_DIR}/compile_${COMPILE_ID}.log" ]]; then
COMPILE_RESULT="FAILED: UNABLE TO START COMPILE"
FAIL_LOG="N/A"
elif [[ -f fail_compile_${COMPILE_ID} ]]; then
COMPILE_RESULT="FAILED: UNABLE TO COMPILE"
FAIL_LOG="${LOG_DIR}/compile_${COMPILE_ID}.log"
if grep -q "quota" "${LOG_DIR}/compile_${COMPILE_ID}.log"; then
COMPILE_RESULT="FAILED: DISK QUOTA ISSUE"
FAIL_LOG="${LOG_DIR}/compile_${COMPILE_ID}.log"
elif grep -q "timeout" "${LOG_DIR}/compile_${COMPILE_ID}.log"; then
COMPILE_RESULT="FAILED: TEST TIMED OUT"
FAIL_LOG="${LOG_DIR}/compile_${COMPILE_ID}.log"
fi
else
COMPILE_RESULT="PASS"
TIME_FILE="${LOG_DIR}/compile_${COMPILE_ID}_timestamp.txt"
if [[ -f "${TIME_FILE}" ]]; then
while read -r times || [[ -n "${times}" ]]; do
times="${times#"${times%%[![:space:]]*}"}"
DATE1=$(cut -d ',' -f2 <<< "${times}")
DATE2=$(cut -d ',' -f3 <<< "${times}")
DATE3=$(cut -d ',' -f4 <<< "${times}")
DATE4=$(cut -d ',' -f5 <<< "${times}")
COMPILE_TIME=$(date --date=@$((DATE3 - DATE2)) +'%M:%S')
RT_COMPILE_TIME=$(date --date=@$((DATE4 - DATE1)) +'%M:%S')
done < "${TIME_FILE}"
fi
fi
echo >> "${REGRESSIONTEST_LOG}"
echo "${COMPILE_RESULT} -- COMPILE '${COMPILE_ID}' [${RT_COMPILE_TIME}, ${COMPILE_TIME}]" >> "${REGRESSIONTEST_LOG}"
[[ -n ${FAIL_LOG} ]] && FAILED_COMPILES+=("COMPILE ${COMPILE_ID}: ${COMPILE_RESULT}")
[[ -n ${FAIL_LOG} ]] && FAILED_COMPILE_LOGS+=("${FAIL_LOG}")
fi
elif [[ ${line} =~ RUN ]]; then
if [[ ${COMPILE_ONLY} == true ]]; then
continue
fi
RMACHINES=$(cut -d '|' -f3 <<< "${line}")
RMACHINES=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${RMACHINES}")
TEST_NAME=$(cut -d '|' -f2 <<< "${line}")
TEST_NAME=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${TEST_NAME}")
GEN_BASELINE=$(cut -d '|' -f4 <<< "${line}")
GEN_BASELINE=$(sed -e 's/^ *//' -e 's/ *$//' <<< "${GEN_BASELINE}")
if [[ ${RMACHINES} == '' ]]; then
valid_test=true
elif [[ ${RMACHINES} == -* ]]; then
[[ ${RMACHINES} =~ ${MACHINE_ID} ]] || valid_test=true
elif [[ ${RMACHINES} == +* ]]; then
[[ ${RMACHINES} =~ ${MACHINE_ID} ]] && valid_test=true
fi
if [[ ${valid_test} == true ]]; then
TEST_COUNTER=$((TEST_COUNTER+1))
GETMEMFROMLOG=""
FAIL_LOG=""
TEST_RESULT=""
TIME_FILE=""
TEST_TIME=""
RT_TEST_TIME=""
RT_TEST_MEM=""
if [[ ${CREATE_BASELINE} == true && ${GEN_BASELINE} != "baseline" ]]; then
TEST_RESULT="SKIPPED (TEST DOES NOT GENERATE BASELINE)"
elif [[ ! -f "${LOG_DIR}/run_${TEST_NAME}_${COMPILER}.log" ]]; then
TEST_RESULT="FAILED: UNABLE TO START RUN"
FAIL_LOG="N/A"
elif [[ -f fail_test_${TEST_NAME}_${COMPILER} ]]; then
if [[ -f "${LOG_DIR}/rt_${TEST_NAME}_${COMPILER}.log" ]]; then
if grep -q "FAIL" "${LOG_DIR}/rt_${TEST_NAME}_${COMPILER}.log"; then
TEST_RESULT="FAILED: UNABLE TO RUN COMPARISON"
FAIL_LOG="${LOG_DIR}/run_${TEST_NAME}_${COMPILER}.log"
# We need to catch a "PASS" in rt_*.log even if a fail_test_* files exists
# I'm not sure why this can happen.
elif grep -q "PASS" "${LOG_DIR}/rt_${TEST_NAME}_${COMPILER}.log"; then
TEST_RESULT="PASS"
else
TEST_RESULT="FAILED: BASELINE COMPARISON"
FAIL_LOG="${LOG_DIR}/rt_${TEST_NAME}_${COMPILER}.log"
fi
else
TEST_RESULT="FAILED: RUN DID NOT COMPLETE"
FAIL_LOG="${LOG_DIR}/run_${TEST_NAME}_${COMPILER}.log"
fi
if grep -q "quota" "${LOG_DIR}/run_${TEST_NAME}_${COMPILER}.log"; then
TEST_RESULT="FAILED: DISK QUOTA ISSUE"
FAIL_LOG="${LOG_DIR}/run_${TEST_NAME}_${COMPILER}.log"
elif grep -q "timeout" "${LOG_DIR}/run_${TEST_NAME}_${COMPILER}.log"; then
TEST_RESULT="FAILED: TEST TIMED OUT"
FAIL_LOG="${LOG_DIR}/run_${TEST_NAME}_${COMPILER}.log"
fi
else
TEST_RESULT="PASS"
fi
if [[ ${TEST_RESULT} == "PASS" ]]; then
TIME_FILE="${LOG_DIR}/run_${TEST_NAME}_${COMPILER}_timestamp.txt"
GETMEMFROMLOG=$(grep "The maximum resident set size" "${LOG_DIR}/rt_${TEST_NAME}_${COMPILER}.log")
RT_TEST_MEM=$(echo "${GETMEMFROMLOG:9:${#GETMEMFROMLOG}-1}" | tr -dc '0-9')
RT_TEST_MEM=$((RT_TEST_MEM/1000))
if [[ -f "${TIME_FILE}" ]]; then
while read -r times || [[ -n "${times}" ]]; do
times="${times#"${times%%[![:space:]]*}"}"
DATE1=$(cut -d ',' -f2 <<< "${times}")
DATE2=$(cut -d ',' -f3 <<< "${times}")
DATE3=$(cut -d ',' -f4 <<< "${times}")
DATE4=$(cut -d ',' -f5 <<< "${times}")
TEST_TIME=$(date --date=@$((DATE3 - DATE2)) +'%M:%S')
RT_TEST_TIME=$(date --date=@$((DATE4 - DATE1)) +'%M:%S')
done < "${TIME_FILE}"
fi
fi
echo "${TEST_RESULT} -- TEST '${TEST_NAME}_${COMPILER}' [${RT_TEST_TIME}, ${TEST_TIME}](${RT_TEST_MEM} MB)" >> "${REGRESSIONTEST_LOG}"
[[ -n ${FAIL_LOG} ]] && FAILED_TESTS+=("TEST ${TEST_NAME}_${COMPILER}: ${TEST_RESULT}")
[[ -n ${FAIL_LOG} ]] && FAILED_TEST_LOGS+=("${FAIL_LOG}")
[[ -n ${FAIL_LOG} ]] && FAILED_TEST_ID+=("${TEST_NAME} ${COMPILER}")
fi
fi
done < "${TESTS_FILE}"
elapsed_time=$( printf '%02dh:%02dm:%02ds\n' $((SECONDS%86400/3600)) $((SECONDS%3600/60)) $((SECONDS%60)) )
cat << EOF >> "${REGRESSIONTEST_LOG}"
SYNOPSIS:
Starting Date/Time: ${TEST_START_TIME}
Ending Date/Time: ${TEST_END_TIME}
Total Time: ${elapsed_time}
Compiles Completed: $((COMPILE_COUNTER-${#FAILED_COMPILES[@]}))/${COMPILE_COUNTER}
Tests Completed: $((TEST_COUNTER-${#FAILED_TESTS[@]}))/${TEST_COUNTER}
EOF
# PRINT FAILED COMPILES
if [[ "${#FAILED_COMPILES[@]}" -ne "0" ]]; then
echo "Failed Compiles:" >> "${REGRESSIONTEST_LOG}"
for i in "${!FAILED_COMPILES[@]}"; do
echo "* ${FAILED_COMPILES[${i}]}" >> "${REGRESSIONTEST_LOG}"
echo "-- LOG: ${FAILED_COMPILE_LOGS[${i}]}" >> "${REGRESSIONTEST_LOG}"
done
fi
# PRINT FAILED TESTS
if [[ "${#FAILED_TESTS[@]}" -ne "0" ]]; then
echo "Failed Tests:" >> "${REGRESSIONTEST_LOG}"
for j in "${!FAILED_TESTS[@]}"; do
echo "* ${FAILED_TESTS[${j}]}" >> "${REGRESSIONTEST_LOG}"
echo "-- LOG: ${FAILED_TEST_LOGS[${j}]}" >> "${REGRESSIONTEST_LOG}"
done
fi
# WRITE FAILED_TEST_ID LIST TO TEST_CHANGES_LOG
if [[ "${#FAILED_TESTS[@]}" -ne "0" ]]; then
for item in "${FAILED_TEST_ID[@]}"; do
echo "${item}" >> "${TEST_CHANGES_LOG}"
done
fi
if [[ "${#FAILED_COMPILES[@]}" -eq "0" && "${#FAILED_TESTS[@]}" -eq "0" ]]; then
cat << EOF >> "${REGRESSIONTEST_LOG}"
NOTES:
A file '${TEST_CHANGES_LOG}' was generated but is empty.
If you are using this log as a pull request verification, please commit '${TEST_CHANGES_LOG}'.
Result: SUCCESS
====END OF ${MACHINE_ID^^} REGRESSION TESTING LOG====
EOF
echo "Performing Cleanup..."
rm -f fv3_*.x fv3_*.exe modules.fv3_* modulefiles/modules.fv3_* keep_tests.tmp
[[ ${KEEP_RUNDIR} == false ]] && rm -rf "${RUNDIR_ROOT}" && rm "${PATHRT}/run_dir"
[[ ${ROCOTO} == true ]] && rm -f "${ROCOTO_XML}" "${ROCOTO_DB}" "${ROCOTO_STATE}" ./*_lock.db
[[ ${TEST_35D} == true ]] && rm -f tests/cpld_bmark*_20*
echo "REGRESSION TEST RESULT: SUCCESS"
else
cat << EOF >> "${REGRESSIONTEST_LOG}"
NOTES:
A file '${TEST_CHANGES_LOG}' was generated with list of all failed tests.
You can use './rt.sh -c -b test_changes.list' to create baselines for the failed tests.
If you are using this log as a pull request verification, please commit '${TEST_CHANGES_LOG}'.
Result: FAILURE
====END OF ${MACHINE_ID^^} REGRESSION TESTING LOG====
EOF
echo "REGRESSION TEST RESULT: FAILURE"
fi
}
create_or_run_compile_task() {
cat << EOF > "${RUNDIR_ROOT}/compile_${COMPILE_ID}.env"
export COMPILE_ID=${COMPILE_ID}
export MACHINE_ID=${MACHINE_ID}
export RT_COMPILER=${RT_COMPILER}
export PATHRT=${PATHRT}
export PATHTR=${PATHTR}
export SCHEDULER=${SCHEDULER}
export ACCNR=${ACCNR}
export QUEUE=${COMPILE_QUEUE}
export PARTITION=${PARTITION}
export ROCOTO=${ROCOTO}
export ECFLOW=${ECFLOW}
export REGRESSIONTEST_LOG=${REGRESSIONTEST_LOG}
export LOG_DIR=${LOG_DIR}
export RTVERBOSE=${RTVERBOSE}
EOF
if [[ ${ROCOTO} == true ]]; then
rocoto_create_compile_task
elif [[ ${ECFLOW} == true ]]; then
ecflow_create_compile_task
else
echo "rt.sh: Running compile ${COMPILE_ID}"
./run_compile.sh "${PATHRT}" "${RUNDIR_ROOT}" "${MAKE_OPT}" "${COMPILE_ID}" > "${LOG_DIR}/compile_${COMPILE_ID}.log" 2>&1
echo "rt.sh: Compile ${COMPILE_ID} completed."
fi
RT_SUFFIX=""
BL_SUFFIX=""
}
rt_35d() {
echo "rt.sh: Running 35day Regression Test..."
local sy
local sm
if [[ ${TEST_NAME} =~ '35d' ]] ; then
sy=$(cut -c 1-4 <<< "${DATE_35D}")
sm=$(cut -c 5-6 <<< "${DATE_35D}")
local new_test_name="tests/${TEST_NAME}_${DATE_35D}"
rm -f "${new_test_name}"
cp tests/"${TEST_NAME}" "${new_test_name}"
sed -i -e "s/\(export SYEAR\)/\1=\"${sy}\"/" "${new_test_name}"
sed -i -e "s/\(export SMONTH\)/\1=\"${sm}\"/" "${new_test_name}"
TEST_NAME=${new_test_name#tests/}
fi
}
handle_error() {
echo "rt.sh: Getting error information..."
local exit_code=$1
local exit_line=$2
echo "Exited at line ${exit_line} having code ${exit_code}"
rt_trap
}
rt_trap() {
echo "rt.sh: Exited abnormally, killing workflow and cleaning up"
[[ ${ROCOTO:-false} == true ]] && rocoto_kill
[[ ${ECFLOW:-false} == true ]] && ecflow_kill
cleanup
}
cleanup() {
echo "rt.sh: Cleaning up..."
awk_info=$(awk '{print $2}' < "${LOCKDIR}/PID")
[[ ${awk_info} == "$$" ]] && rm -rf "${LOCKDIR}"
[[ ${ECFLOW:-false} == true ]] && ecflow_stop
trap 0
echo "rt.sh: Exiting."
exit
}
trap '{ echo "rt.sh interrupted"; rt_trap ; }' INT
trap '{ echo "rt.sh quit"; rt_trap ; }' QUIT
trap '{ echo "rt.sh terminated"; rt_trap ; }' TERM
trap '{ handle_error $? $LINENO ; }' ERR
trap '{ echo "rt.sh finished"; cleanup ; }' EXIT
# PATHRT - Path to regression tests directory
PATHRT="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd -P )"
readonly PATHRT
cd "${PATHRT}"
# PATHTR - Path to nmmb trunk directory
PATHTR=$( cd "${PATHRT}/.." && pwd )
readonly PATHTR
# make sure only one instance of rt.sh is running
readonly LOCKDIR="${PATHRT}"/lock
HOSTNAME_IN=$(hostname)
if mkdir "${LOCKDIR}" ; then
echo "${HOSTNAME_IN}" $$ > "${LOCKDIR}/PID"
else
echo "Only one instance of rt.sh can be running at a time"
exit 1
fi
source detect_machine.sh
source rt_utils.sh
# shellcheck disable=SC1091
source module-setup.sh
CREATE_BASELINE=false
ROCOTO=false
ECFLOW=false
KEEP_RUNDIR=false
TEST_35D=false
export skip_check_results=false
export delete_rundir=false
COMPILE_ONLY=false
RTPWD_NEW_BASELINE=false
TESTS_FILE='rt.conf'
NEW_BASELINES_FILE=''
DEFINE_CONF_FILE=false
RUN_SINGLE_TEST=false
RTVERBOSE=false
export RTVERBOSE
export STOP_ECFLOW_AT_END=false
ACCNR=${ACCNR:-""}
while getopts ":a:b:cl:mn:dwkreovh" opt; do
case ${opt} in
a)
ACCNR=${OPTARG}
;;
b)
NEW_BASELINES_FILE=${OPTARG}
;;
c)
CREATE_BASELINE=true
;;
l)
DEFINE_CONF_FILE=true
TESTS_FILE=${OPTARG}
grep -q '[^[:space:]]' < "${TESTS_FILE}" || die "${TESTS_FILE} empty, exiting..."
;;
o)
COMPILE_ONLY=true
;;
m)
# redefine RTPWD to point to newly created baseline outputs
RTPWD_NEW_BASELINE=true
;;
n)
RUN_SINGLE_TEST=true
IFS=' ' read -r -a SINGLE_OPTS <<< "${OPTARG}"
if [[ ${#SINGLE_OPTS[@]} != 2 ]]; then
die 'The -n option needs [testname] AND [compiler] in quotes, i.e. -n "control_p8 intel"'
fi
SRT_NAME="${SINGLE_OPTS[0]}"
SRT_COMPILER="${SINGLE_OPTS[1]}"
if [[ "${SRT_COMPILER}" != "intel" ]] && [[ "${SRT_COMPILER}" != "gnu" ]]; then
die "COMPILER MUST BE 'intel' OR 'gnu'"
fi
;;
d)
export delete_rundir=true
AWK_OUT=$(awk -F "|" '{print $5}' rt.conf)
grep "\S" <<< "${AWK_OUT}" > keep_tests.tmp
;;
w)
export skip_check_results=true
;;
k)
KEEP_RUNDIR=true
;;
r)
ROCOTO=true
ECFLOW=false
;;
e)
ECFLOW=true
ROCOTO=false
;;
v)
RTVERBOSE=true
;;
h)
usage
die ""
;;
\?)
usage
die "Invalid option: -${OPTARG}"
;;
:)
usage
die "Option -${OPTARG} requires an argument."
;;
*)
usage
die "Arguments are required."
;;
esac
done
#Check to error out if incompatible options are chosen together
[[ ${KEEP_RUNDIR} == true && ${delete_rundir} == true ]] && die "-k and -d options cannot be used at the same time"
[[ ${ECFLOW} == true && ${ROCOTO} == true ]] && die "-r and -e options cannot be used at the same time"
[[ ${CREATE_BASELINE} == true && ${RTPWD_NEW_BASELINE} == true ]] && die "-c and -m options cannot be used at the same time"
#B&N not run together
[[ ${NEW_BASELINES_FILE} != '' && ${RUN_SINGLE_TEST} == true ]] && die "-b and -n options cannot be used at the same time"
[[ -o xtrace ]] && set_x='set -x' || set_x='set +x'
if [[ ${RTVERBOSE} == true ]]; then
set -x
fi
[[ -o xtrace ]] && set_x='set -x' || set_x='set +x'
if [[ -z "${ACCNR}" ]]; then
echo "Please use -a <account> to set group account to use on HPC"
exit 1
fi
# Display the machine and account using the format detect_machine.sh used:
echo "Machine: ${MACHINE_ID}"
echo "Account: ${ACCNR}"
case ${MACHINE_ID} in
wcoss2|acorn)
echo "rt.sh: Setting up WCOSS2/Acorn"
set -x
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.6.0.13
fi
module load intel/19.1.3.304 python/3.8.6
if [[ "${ECFLOW:-false}" == true ]] ; then
# ECF_ROOT=${ECF_ROOT:-}
# ECFLOW_START="${ECF_ROOT}/scripts/server_check.sh"
# ECFLOW_STOP="${ECF_ROOT}/bin/ecflow_stop.sh"
export ECF_OUTPUTDIR="${PATHRT}/ecf_outputdir"
export ECF_COMDIR="${PATHRT}/ecf_comdir"
rm -rf "${ECF_OUTPUTDIR}" "${ECF_COMDIR}"
mkdir -p "${ECF_OUTPUTDIR}"
mkdir -p "${ECF_COMDIR}"
# export ECFLOW_START ECFLOW_STOP
fi
export colonifnco=":output" # hack
DISKNM="/lfs/h2/emc/nems/noscrub/emc.nems/RT"
QUEUE="dev"
COMPILE_QUEUE="dev"
if [[ "${ROCOTO:-false}" == true ]] ; then
ROCOTO_SCHEDULER="pbs"
fi
PARTITION=
STMP="/lfs/h2/emc/ptmp"
PTMP="/lfs/h2/emc/ptmp"
SCHEDULER="pbs"
;;
gaea)
echo "rt.sh: Setting up gaea..."
set -x
if [[ "${ROCOTO:-false}" == true ]] ; then
module use /ncrc/proj/epic/rocoto/modulefiles
module load rocoto
# ROCOTORUN=$(command -v rocotorun)
# ROCOTOSTAT=$(command -v rocotostat)
# ROCOTOCOMPLETE=$(command -v rocotocomplete)
ROCOTO_SCHEDULER="slurm"
fi
export LD_PRELOAD=/opt/cray/pe/gcc/12.2.0/snos/lib64/libstdc++.so.6
module load PrgEnv-intel/8.3.3
module load intel-classic/2023.1.0
module load cray-mpich/8.1.25
module load python/3.9.12
module use /ncrc/proj/epic/spack-stack/modulefiles
module load gcc/12.2.0
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.8.4
# ECFLOW_START=/ncrc/proj/epic/spack-stack/ecflow-5.8.4/bin/ecflow_start.sh
# ECFLOW_STOP=/ncrc/proj/epic/spack-stack/ecflow-5.8.4/bin/ecflow_stop.sh
ECF_HOST=$(hostname)
ECF_PORT=$(( $(id -u) + 1500 ))
export ECF_PORT ECF_HOST
fi
DISKNM=/gpfs/f5/epic/world-shared/UFS-WM_RT
QUEUE=normal
COMPILE_QUEUE=normal
PARTITION=c5
dprefix=${dprefix:-/gpfs/f5/${ACCNR}/scratch/${USER}}
STMP=${STMP:-${dprefix}/RT_BASELINE}
PTMP=${PTMP:-${dprefix}/RT_RUNDIRS}
SCHEDULER="slurm"
;;
hera)
echo "rt.sh: Setting up hera..."
set -x
if [[ "${ROCOTO:-false}" == true ]] ; then
module load rocoto
# ROCOTORUN=$(command -v rocotorun)
# ROCOTOSTAT=$(command -v rocotostat)
# ROCOTOCOMPLETE=$(command -v rocotocomplete)
ROCOTO_SCHEDULER=slurm
fi
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.11.4
# ECFLOW_START="$(command -v ecflow_start.sh)"
# ECFLOW_STOP="$(command -v ecflow_stop.sh)"
# export ECFLOW_START ECFLOW_STOP
fi
QUEUE="batch"
COMPILE_QUEUE="batch"
PARTITION=
dprefix="/scratch1/NCEPDEV"
DISKNM="/scratch2/NAGAPE/epic/UFS-WM_RT"
STMP="${dprefix}/stmp4"
PTMP="${dprefix}/stmp2"
SCHEDULER=slurm
;;
orion)
echo "rt.sh: Setting up orion..."
set -x
module load git/2.28.0
module load gcc/10.2.0
module load python/3.9.2
if [[ "${ROCOTO:-false}" == true ]] ; then
module load contrib rocoto
# ROCOTORUN=$(command -v rocotorun)
# ROCOTOSTAT=$(command -v rocotostat)
# ROCOTOCOMPLETE=$(command -v rocotocomplete)
ROCOTO_SCHEDULER="slurm"
fi
module use /work/noaa/epic/role-epic/spack-stack/orion/modulefiles
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.8.4
# ECFLOW_START="/work/noaa/epic/role-epic/spack-stack/orion/ecflow-5.8.4/bin/ecflow_start.sh"
# ECFLOW_STOP="/work/noaa/epic/role-epic/spack-stack/orion/ecflow-5.8.4/bin/ecflow_stop.sh"
ECF_HOST=$(hostname)
ECF_PORT="$(( $(id -u) + 1500 ))"
export ECF_PORT ECF_HOST
fi
QUEUE="batch"
COMPILE_QUEUE="batch"
PARTITION="orion"
dprefix="/work/noaa/stmp/${USER}"
DISKNM=/"work/noaa/epic/UFS-WM_RT"
STMP="${dprefix}/stmp"
PTMP="${dprefix}/stmp"
SCHEDULER="slurm"
;;
hercules)
echo "rt.sh: Setting up hercules..."
set -x
if [[ "${ROCOTO:-false}" == true ]] ; then
module load contrib rocoto
# ROCOTORUN=$(command -v rocotorun)
# ROCOTOSTAT=$(command -v rocotostat)
# ROCOTOCOMPLETE=$(command -v rocotocomplete)
ROCOTO_SCHEDULER="slurm"
fi
module use /work/noaa/epic/role-epic/spack-stack/hercules/modulefiles
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.8.4
# ECFLOW_START="/work/noaa/epic/role-epic/spack-stack/hercules/ecflow-5.8.4/bin/ecflow_start.sh"
# ECFLOW_STOP="/work/noaa/epic/role-epic/spack-stack/hercules/ecflow-5.8.4/bin/ecflow_stop.sh"
ECF_HOST=$(hostname)
ECF_PORT="$(( $(id -u) + 1500 ))"
export ECF_PORT ECF_HOST
fi
QUEUE="batch"
COMPILE_QUEUE="batch"
PARTITION="hercules"
dprefix="/work2/noaa/stmp/${USER}"
DISKNM="/work/noaa/epic/hercules/UFS-WM_RT"
STMP="${dprefix}/stmp"
PTMP="${dprefix}/stmp"
SCHEDULER="slurm"
cp fv3_conf/fv3_slurm.IN_hercules fv3_conf/fv3_slurm.IN
cp fv3_conf/compile_slurm.IN_hercules fv3_conf/compile_slurm.IN
;;
jet)
echo "rt.sh: Setting up jet..."
set -x
CurJetOS=$(lsb_release -is)
echo "=======Running on ${CurJetOS}======="
if [[ ${CurJetOS} == "CentOS" ]]; then
echo "=======Please, move to Rocky8 node fe[5-8]======="
exit 1
fi
if [[ "${ROCOTO:-false}" == true ]] ; then
module load rocoto
# ROCOTORUN=$(command -v rocotorun)
# ROCOTOSTAT=$(command -v rocotostat)
# ROCOTOCOMPLETE=$(command -v rocotocomplete)
ROCOTO_SCHEDULER="slurm"
fi
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.11.4
# ECFLOW_START=/apps/ecflow/5.11.4/bin/ecflow_start.sh
# ECFLOW_STOP=/apps/ecflow/5.11.4/bin/ecflow_stop.sh
# export ECFLOW_START ECFLOW_STOP
fi
module use /mnt/lfs4/HFIP/hfv3gfs/role.epic/spack-stack/spack-stack-1.5.0/envs/unified-env-rocky8/install/modulefiles/Core
module load stack-intel/2021.5.0
module load stack-python/3.10.8
QUEUE="batch"
COMPILE_QUEUE="batch"
PARTITION="xjet"
DISKNM="/mnt/lfs4/HFIP/hfv3gfs/role.epic/RT"
dprefix="${dprefix:-/lfs4/HFIP/${ACCNR}/${USER}}"
STMP="${STMP:-${dprefix}/RT_BASELINE}"
PTMP="${PTMP:-${dprefix}/RT_RUNDIRS}"
SCHEDULER="slurm"
;;
s4)
echo "rt.sh: Setting up s4..."
set -x
if [[ "${ROCOTO:-false}" == true ]] ; then
module load rocoto/1.3.2
# ROCOTORUN=$(command -v rocotorun)
# ROCOTOSTAT=$(command -v rocotostat)
# ROCOTOCOMPLETE=$(command -v rocotocomplete)
ROCOTO_SCHEDULER=slurm
fi
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.6.0
fi
module load miniconda/3.8-s4
module use /data/prod/jedi/spack-stack/modulefiles
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.8.4
# ECFLOW_START="/data/prod/jedi/spack-stack/ecflow-5.8.4/bin/ecflow_start.sh"
# ECFLOW_STOP="/data/prod/jedi/spack-stack/ecflow-5.8.4/bin/ecflow_stop.sh"
ECF_HOST=$(hostname)
ECF_PORT="$(( $(id -u) + 1500 ))"
export ECF_PORT ECF_HOST
fi
QUEUE="s4"
COMPILE_QUEUE="s4"
PARTITION="s4"
dprefix="/data/prod"
DISKNM="${dprefix}/emc.nemspara/RT"
STMP="/scratch/short/users"
PTMP="/scratch/users"
SCHEDULER="slurm"
;;
derecho)
echo "rt.sh: Setting up derecho..."
set -x
if [[ "${ROCOTO:-false}" == true ]] ; then
module use /glade/work/epicufsrt/contrib/derecho/rocoto/modulefiles
module load rocoto
fi
module use /glade/work/epicufsrt/contrib/spack-stack/derecho/modulefiles
if [[ "${ECFLOW:-false}" == true ]] ; then
module load ecflow/5.8.4
fi
module unload ncarcompilers
module use /glade/work/epicufsrt/contrib/spack-stack/derecho/spack-stack-1.5.1/envs/unified-env/install/modulefiles/Core
module load stack-intel/2021.10.0
module load stack-python/3.10.8
# export PYTHONPATH=/glade/p/ral/jntp/tools/miniconda3/4.8.3/envs/ufs-weather-model/lib/python3.8/site-packages:/glade/p/ral/jntp/tools/miniconda3/4.8.3/lib/python3.8/site-packages
if [[ "${ECFLOW:-false}" == true ]] ; then
# ECFLOW_START=/glade/work/epicufsrt/contrib/spack-stack/derecho/ecflow-5.8.4/bin/ecflow_start.sh
# ECFLOW_STOP=/glade/work/epicufsrt/contrib/spack-stack/derecho/ecflow-5.8.4/bin/ecflow_stop.sh
ECF_HOST=$(hostname)
ECF_PORT=$(( $(id -u) + 1500 ))
export ECF_PORT ECF_HOST
fi
QUEUE="main"
COMPILE_QUEUE="main"
PARTITION=
dprefix="/glade/derecho/scratch"
DISKNM="/glade/derecho/scratch/epicufsrt/ufs-weather-model/RT/"
STMP="${dprefix}"
PTMP="${dprefix}"
SCHEDULER="pbs"
cp fv3_conf/fv3_qsub.IN_derecho fv3_conf/fv3_qsub.IN
cp fv3_conf/compile_qsub.IN_derecho fv3_conf/compile_qsub.IN
if [[ "${ROCOTO:-false}" == true ]] ; then
# ROCOTORUN=$(command -v rocotorun)
# ROCOTOSTAT=$(command -v rocotostat)
# ROCOTOCOMPLETE=$(command -v rocotocomplete)
ROCOTO_SCHEDULER="pbspro"
fi
;;
stampede)
echo "rt.sh: Setting up stampede..."
set -x
export PYTHONPATH=
if [[ "${ECFLOW:-false}" == true ]] ; then
ECFLOW_START=
fi
QUEUE=skx-normal
COMPILE_QUEUE=skx-dev
PARTITION=
dprefix="${SCRATCH}/ufs-weather-model/run"
DISKNM="/work2/07736/minsukji/stampede2/ufs-weather-model/RT"
STMP="${dprefix}"
PTMP="${dprefix}"
SCHEDULER="slurm"
export MPIEXEC="ibrun"
export MPIEXECOPTS=
;;
expanse)
echo "rt.sh: Setting up expanse..."
set -x
export PYTHONPATH=
if [[ "${ECFLOW:-false}" == true ]] ; then
export ECFLOW_START=
fi
QUEUE="compute"
COMPILE_QUEUE="shared"
PARTITION=
dprefix="/expanse/lustre/scratch/${USER}/temp_project/run"
DISKNM="/expanse/lustre/scratch/domh/temp_project/RT"
STMP="${dprefix}"
PTMP="${dprefix}"
SCHEDULER="slurm"
;;