| fc7e1e45 |
1 | #!/bin/bash |
| 2 | # this script runs the CPass0/CPass1 train |
| 3 | # produced OCDB updates are local |
| 4 | |
| 5 | main() |
| 6 | { |
| 7 | #run in proper mode depending on the selection |
| 8 | runMode=$1 |
| 9 | if [[ $# -gt 0 ]]; then |
| 10 | echo "# $0 $*" |
| 11 | fi |
| 12 | umask 0002 |
| 13 | shift |
| 14 | case $runMode in |
| 15 | "CPass0") goCPass0 "$@";; |
| 16 | "CPass1") goCPass1 "$@";; |
| 17 | "ConfOCDB") goConfigureOCDBforCPass1 "$@";; |
| 18 | "MergeCPass0") goMergeCPass0 "$@";; |
| 19 | "MergeCPass1") goMergeCPass1 "$@";; |
| 20 | "CreateQAplots") goCreateQAplots "$@";; |
| 21 | "WaitForOutput") goWaitForOutput "$@";; |
| 22 | "makeSummary") goMakeSummary "$@";; |
| 23 | "submit") goSubmit "$@";; |
| 24 | "submitQA") goSubmitQA "$@";; |
| 25 | "test") goTest "$@";; |
| 26 | "generateMakeflow") goGenerateMakeflow "$@";; |
| 27 | "makeflow") goMakeflow "$@";; |
| 28 | #and the default: unless sourced print some info |
| 29 | *) if [[ ! "$0" =~ "bash" ]]; then |
| 30 | echo " batch: $0 \"submit\" inputList productionID [configFile=benchmark.config] [runNumber]" |
| 31 | echo " makeflow: $0 \"makeflow\" inputList productionID [configFile=benchmark.config] [runNumber]" |
| 32 | fi |
| 33 | ;; |
| 34 | esac |
| 35 | } |
| 36 | |
| 37 | goCPass0() |
| 38 | { |
| 39 | umask 0002 |
| 40 | |
| 41 | configFile=$5 |
| 42 | source $configFile |
| 36b5de1a |
43 | [[ -f ${setupAliROOTenvInCurrentShell} && -z ${alirootEnv} ]] && source $setupAliROOTenvInCurrentShell |
| fc7e1e45 |
44 | |
| 45 | targetDirectory=$1 |
| 46 | inputList=$2 |
| 47 | nEvents=$3 |
| 48 | ocdbPath=$4 |
| 49 | configFile=$5 |
| 50 | runNumber=$6 |
| 51 | jobindex=$7 |
| 52 | |
| 53 | #use the jobindex only if set and non-negative |
| 54 | if [[ -z $jobindex || $jobindex -lt 0 ]]; then |
| 55 | [[ -n "$LSB_JOBINDEX" ]] && jobindex=$LSB_JOBINDEX |
| 56 | [[ -n "$SGE_TASK_ID" ]] && jobindex=$SGE_TASK_ID |
| 57 | fi |
| 58 | |
| 59 | [[ ! -f ${inputList} && -z ${pretend} ]] && echo "input file $inputList not found, exiting..." && exit 1 |
| 60 | if [[ "${inputList}" =~ \.root$ ]]; then |
| 61 | infile=$inputList |
| 62 | else |
| 63 | infile=`sed -ne "${jobindex}p" $inputList` |
| 64 | fi |
| 65 | |
| 66 | chunkName=${infile##*/} |
| 67 | outputDir=${targetDirectory}/${jobindex} |
| 68 | mkdir -p $outputDir |
| 69 | [[ ! -d $outputDir ]] && echo "cannot make $outputDir" && exit 1 |
| 70 | |
| 71 | runpath=${PWD}/rundir_cpass0_${runNumber}_${jobindex} |
| 72 | [[ -z $commonOutputPath ]] && commonOutputPath=$PWD |
| 73 | [[ $reconstructInTemporaryDir -eq 1 && -n $TMPDIR ]] && runpath=$TMPDIR |
| 74 | [[ $reconstructInTemporaryDir -eq 1 && -z $TMPDIR ]] && runpath=$(mktemp -d) |
| 75 | |
| 76 | mkdir -p $runpath |
| 77 | [[ ! -d ${runpath} ]] && echo "cannot make runpath ${runpath}" && exit 1 |
| 78 | cd $runpath |
| 79 | |
| 80 | logOutputDir=$runpath |
| 81 | [[ -n $logToFinalDestination ]] && logOutputDir=$outputDir |
| 5ed7c82c |
82 | [[ -z $dontRedirectStdOutToLog ]] && exec 1> $logOutputDir/stdout |
| 83 | [[ -z $dontRedirectStdOutToLog ]] && exec 2> $logOutputDir/stderr |
| fc7e1e45 |
84 | echo "$0 $*" |
| 85 | |
| 86 | calibDoneFile="$commonOutputPath/cpass0.job${jobindex}.run${runNumber}.done" |
| 87 | |
| 88 | echo "#####################" |
| 89 | echo CPass0: |
| 90 | echo JOB setup |
| 91 | echo nEvents $nEvents |
| 92 | echo runNumber $runNumber |
| 93 | echo ocdbPath $ocdbPath |
| 94 | echo infile $infile |
| 95 | echo chunkName $chunkName |
| 96 | echo jobindex $jobindex |
| 97 | echo recoTriggerOptions $recoTriggerOptions |
| 98 | echo targetDirectory $targetDirectory |
| 99 | echo commonOutputPath $commonOutputPath |
| 100 | echo calibDoneFile $calibDoneFile |
| 101 | echo runpath $runpath |
| 102 | echo outputDir $outputDir |
| 103 | echo ALICE_ROOT $ALICE_ROOT |
| 104 | echo PWD $PWD |
| 105 | echo "########## ###########" |
| 106 | |
| 107 | alirootInfo > ALICE_ROOT_svn.log |
| 108 | |
| 109 | filesCPass0=( |
| 110 | "$commonOutputPath/runCPass0.sh" |
| 111 | "$commonOutputPath/recCPass0.C" |
| 112 | "$commonOutputPath/runCalibTrain.C" |
| 113 | "$commonOutputPath/localOCDBaccessConfig.C" |
| 36b5de1a |
114 | "$commonOutputPath/OCDB.root" |
| fc7e1e45 |
115 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass0/runCPass0.sh" |
| 116 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass0/recCPass0.C" |
| 117 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass0/runCalibTrain.C" |
| 118 | ) |
| 119 | |
| 120 | for file in ${filesCPass0[*]}; do |
| 121 | [[ ! -f ${file##*/} && -f ${file} ]] && echo "copying ${file}" && cp -f ${file} . |
| 122 | done |
| 123 | |
| 124 | ln -s $infile $runpath/$chunkName |
| 125 | |
| 126 | echo "this directory ($PWD) contents:" |
| 127 | ls -lh |
| 128 | echo |
| 129 | chmod u+x runCPass0.sh |
| 130 | |
| 131 | if [[ -n $postSetUpActionCPass0 ]]; then |
| 132 | echo "running $postSetUpActionCPass0" |
| 133 | eval $postSetUpActionCPass0 |
| 134 | fi |
| 135 | |
| 136 | #run CPass0 |
| 137 | echo "$runpath/runCPass0.sh $infile $nEvents $runNumber $ocdbPath $recoTriggerOptions" |
| 138 | if [[ -n $pretend ]]; then |
| 139 | touch AliESDfriends_v1.root |
| 140 | touch rec.log |
| 141 | touch calib.log |
| 142 | else |
| 143 | ./runCPass0.sh "$infile" "$nEvents" "$runNumber" "$ocdbPath" "$recoTriggerOptions" |
| 144 | fi |
| 145 | |
| fc7e1e45 |
146 | #move stuff to final destination |
| 147 | echo "this directory ($PWD) contents:" |
| 148 | ls -lh |
| 149 | echo |
| 150 | |
| 151 | echo rm -f ./$chunkName |
| 152 | rm -f ./$chunkName |
| 153 | echo "cp --recursive $runpath/* ${outputDir}" |
| 154 | cp --recursive $runpath/* $outputDir |
| 155 | echo |
| 5ed7c82c |
156 | |
| 157 | #validate CPass0 |
| 158 | cd ${outputDir} |
| 159 | touch ${calibDoneFile} |
| 160 | [[ -f AliESDfriends_v1.root ]] && echo "calibfile ${outputDir}/AliESDfriends_v1.root" > ${calibDoneFile} |
| 161 | summarizeLogs >> ${calibDoneFile} |
| fc7e1e45 |
162 | |
| 163 | rm -rf ${runpath} |
| 164 | } |
| 165 | |
| 166 | goCPass1() |
| 167 | { |
| 168 | umask 0002 |
| 169 | |
| 170 | configFile=$5 |
| 171 | source $configFile |
| 36b5de1a |
172 | [[ -f ${setupAliROOTenvInCurrentShell} && -z ${alirootEnv} ]] && source $setupAliROOTenvInCurrentShell |
| fc7e1e45 |
173 | |
| 174 | targetDirectory=$1 |
| 175 | inputList=$2 |
| 176 | nEvents=$3 |
| 177 | ocdbPath=$4 |
| 178 | configFile=$5 |
| 179 | runNumber=$6 |
| 180 | jobindex=$7 |
| 181 | |
| 182 | #use the jobindex only if set and non-negative |
| 183 | if [[ -z $jobindex || $jobindex -lt 0 ]]; then |
| 184 | [[ -n "$LSB_JOBINDEX" ]] && jobindex=$LSB_JOBINDEX |
| 185 | [[ -n "$SGE_TASK_ID" ]] && jobindex=$SGE_TASK_ID |
| 186 | fi |
| 187 | |
| 188 | [[ ! -f ${inputList} && -z ${pretend} ]] && echo "input file $inputList not found, exiting..." && exit 1 |
| 189 | if [[ "${inputList}" =~ \.root$ ]]; then |
| 190 | infile=$inputList |
| 191 | else |
| 192 | infile=`sed -ne "${jobindex}p" $inputList` |
| 193 | fi |
| 194 | |
| 195 | chunkName=${infile##*/} |
| 196 | outputDir=${targetDirectory}/${jobindex} |
| 197 | mkdir -p $outputDir |
| 198 | [[ ! -d $outputDir ]] && echo "cannot make $outputDir" && exit 1 |
| 199 | |
| 200 | runpath=${PWD}/rundir_cpass1_${runNumber}_${jobindex} |
| 201 | [[ -z $commonOutputPath ]] && commonOutputPath=$PWD |
| 202 | [[ $reconstructInTemporaryDir -eq 1 && -n $TMPDIR ]] && runpath=$TMPDIR |
| 203 | [[ $reconstructInTemporaryDir -eq 1 && -z $TMPDIR ]] && runpath=$(mktemp -d) |
| 204 | |
| 205 | #init the running path |
| 206 | mkdir -p $runpath |
| 207 | [[ ! -d ${runpath} ]] && echo "cannot make runpath ${runpath}" && exit 1 |
| 208 | cd $runpath |
| 209 | |
| 210 | |
| 211 | calibDoneFile="${commonOutputPath}/cpass1.job${jobindex}.run${runNumber}.done" |
| 212 | |
| 213 | logOutputDir=$runpath |
| 214 | [[ -n $logToFinalDestination ]] && logOutputDir=$outputDir |
| 5ed7c82c |
215 | [[ -z $dontRedirectStdOutToLog ]] && exec 1> $logOutputDir/stdout |
| 216 | [[ -z $dontRedirectStdOutToLog ]] && exec 2> $logOutputDir/stderr |
| fc7e1e45 |
217 | echo "$0 $*" |
| 218 | |
| 219 | echo "#####################" |
| 220 | echo CPass1: |
| 221 | echo JOB setup |
| 222 | echo nEvents $nEvents |
| 223 | echo runNumber $runNumber |
| 224 | echo ocdbPath $ocdbPath |
| 225 | echo infile $infile |
| 226 | echo chunkName $chunkName |
| 227 | echo jobindex $jobindex |
| 228 | echo recoTriggerOptions $recoTriggerOptions |
| 229 | echo targetDirectory $targetDirectory |
| 230 | echo commonOutputPath $commonOutputPath |
| 231 | echo calibDoneFile $calibDoneFile |
| 232 | echo runpath $runpath |
| 233 | echo outputDir $outputDir |
| 234 | echo ALICE_ROOT $ALICE_ROOT |
| 235 | echo PWD $PWD |
| 236 | echo "########## ###########" |
| 237 | |
| 238 | alirootInfo > ALICE_ROOT_svn.log |
| 239 | |
| 240 | filesCPass1=( |
| 241 | "$commonOutputPath/runCPass1.sh" |
| 242 | "$commonOutputPath/recCPass1.C" |
| 243 | "$commonOutputPath/recCPass1_OuterDet.C" |
| 244 | "$commonOutputPath/runCalibTrain.C" |
| 245 | "$commonOutputPath/QAtrain_duo.C" |
| 246 | "$commonOutputPath/localOCDBaccessConfig.C" |
| 247 | "$commonOutputPath/cpass0.localOCDB.${runNumber}.tgz" |
| 36b5de1a |
248 | "$commonOutputPath/OCDB.root" |
| fc7e1e45 |
249 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/runCPass1.sh" |
| 250 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/recCPass1.C" |
| 251 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/recCPass1_OuterDet.C" |
| 252 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/runCalibTrain.C" |
| 253 | "$ALICE_ROOT/ANALYSIS/macros/QAtrain_duo.C" |
| 254 | ) |
| 255 | |
| 256 | for file in ${filesCPass1[*]}; do |
| 257 | [[ ! -f ${file##*/} && -f ${file} ]] && echo "copying ${file}" && cp -f ${file} . |
| 258 | done |
| 259 | |
| 260 | ln -s $infile $runpath/$chunkName |
| 261 | |
| 262 | echo "this directory ($PWD) contents:" |
| 263 | ls -lh |
| 264 | echo |
| 265 | |
| 266 | if [[ -n $postSetUpActionCPass1 ]]; then |
| 267 | echo "running $postSetUpActionCPass1" |
| 268 | eval $postSetUpActionCPass1 |
| 269 | echo |
| 270 | fi |
| 271 | |
| 272 | #configure local OCDB storage from CPass0 (creates the localOCDBaccessConfig.C script) |
| 273 | if [[ -f cpass0.localOCDB.${runNumber}.tgz ]]; then |
| 274 | echo goConfigureOCDBforCPass1 "cpass0.localOCDB.${runNumber}.tgz" |
| 275 | goConfigureOCDBforCPass1 "cpass0.localOCDB.${runNumber}.tgz" |
| 276 | else |
| 277 | echo "WARNING: file cpass0.localOCDB.${runNumber}.tgz not found!" |
| 278 | fi |
| 279 | |
| 280 | #run CPass1 |
| 281 | chmod u+x runCPass1.sh |
| 282 | echo "$runpath/runCPass1.sh $infile $nEvents $runNumber $ocdbPath $recoTriggerOptions" |
| 283 | if [[ -n $pretend ]]; then |
| 284 | touch AliESDfriends_v1.root |
| 285 | touch QAresults_Barrel.root |
| 286 | touch QAresults_Outer.root |
| 287 | touch rec.log |
| 288 | touch calib.log |
| 289 | touch qa.log |
| 290 | else |
| 291 | ./runCPass1.sh "$infile" "$nEvents" "$runNumber" "$ocdbPath" "$recoTriggerOptions" |
| 292 | fi |
| 293 | |
| fc7e1e45 |
294 | #move stuff to final destination |
| 295 | echo "this directory ($PWD) contents:" |
| 296 | ls |
| 297 | echo |
| 298 | |
| 299 | echo rm -f ./$chunkName |
| 300 | rm -f ./$chunkName |
| 301 | echo "cp --recursive ${runpath}/* ${outputDir}" |
| 302 | cp --recursive ${runpath}/* ${outputDir} |
| 303 | echo |
| 304 | |
| 5ed7c82c |
305 | #validate CPass1 |
| 306 | cd ${outputDir} |
| 307 | touch ${calibDoneFile} |
| 308 | [[ -f AliESDfriends_v1.root ]] && echo "calibfile ${outputDir}/AliESDfriends_v1.root" > ${calibDoneFile} |
| 309 | [[ -f QAresults_Barrel.root ]] && echo "qafile ${outputDir}/QAresults_Barrel.root" >> ${calibDoneFile} |
| 310 | [[ -f QAresults_Outer.root ]] && echo "qafile ${outputDir}/QAresults_Outer.root" >> ${calibDoneFile} |
| dd755372 |
311 | echo "dir ${outputDir}" >> ${calibDoneFile} |
| 5ed7c82c |
312 | summarizeLogs >> ${calibDoneFile} |
| 313 | |
| fc7e1e45 |
314 | rm -rf ${runpath} |
| 315 | } |
| 316 | |
| 317 | |
| 318 | goMergeCPass0() |
| 319 | { |
| 320 | umask 0002 |
| 321 | # |
| 322 | # find the output files and merge them |
| 323 | # |
| 324 | |
| 325 | outputDir=$1 |
| 326 | defaultOCDB=$2 |
| 327 | configFile=$3 |
| 328 | runNumber=$4 |
| 329 | calibrationFilesToMergeExternal=$5 |
| 330 | |
| 331 | source $configFile |
| 36b5de1a |
332 | [[ -f ${setupAliROOTenvInCurrentShell} && -z ${alirootEnv} ]] && source $setupAliROOTenvInCurrentShell |
| fc7e1e45 |
333 | |
| 334 | runpath=${PWD}/rundir_cpass0_Merge_${runNumber} |
| 335 | [[ -z $commonOutputPath ]] && commonOutputPath=$PWD |
| 336 | [[ $reconstructInTemporaryDir -eq 1 && -n $TMPDIR ]] && runpath=$TMPDIR |
| 337 | [[ $reconstructInTemporaryDir -eq 1 && -z $TMPDIR ]] && runpath=$(mktemp -d) |
| 338 | |
| 339 | mkdir -p $runpath |
| 340 | [[ ! -d $runpath ]] && echo "not able to make the runpath $runpath" && exit 1 |
| 341 | cd $runpath |
| 342 | |
| 343 | logOutputDir=$runpath |
| 344 | [[ -n $logToFinalDestination ]] && logOutputDir=$outputDir |
| 345 | [[ -z $dontRedirectStdOutToLog ]] && exec 2>&1 > $logOutputDir/mergeMakeOCDB.log |
| 346 | echo "$0 $*" |
| 347 | |
| 348 | calibrationFilesToMerge=$calibrationFilesToMergeExternal |
| 349 | [[ -z $calibrationFilesToMerge ]] && calibrationFilesToMerge="calibrationFilesToMerge.list" |
| 350 | calibrationOutputFileName="AliESDfriends_v1.root" |
| 351 | mergingScript="mergeMakeOCDB.byComponent.sh" |
| 352 | qaFilesToMerge="qaFilesToMerge.list" |
| 353 | qaOutputFileName="QAresults*.root" |
| 354 | qaMergedOutputFileName="QAresults_merged.root" |
| 355 | |
| 356 | echo goMergeCPass0 SETUP: |
| 357 | echo runNumber=$runNumber |
| 358 | echo outputDir=$outputDir |
| 359 | echo defaultOCDB=$defaultOCDB |
| 360 | echo calibrationFilesToMerge=$calibrationFilesToMerge |
| 361 | echo calibrationOutputFileName=$calibrationOutputFileName |
| 362 | echo mergingScript=$mergingScript |
| 363 | |
| 364 | # copy files in case they are not already there |
| 365 | filesMergeCPass0=( |
| 36b5de1a |
366 | "$commonOutputPath/${calibrationFilesToMerge}" |
| 367 | "$commonOutputPath/OCDB.root" |
| 368 | "$commonOutputPath/localOCDBaccessConfig.C" |
| fc7e1e45 |
369 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass0/mergeMakeOCDB.byComponent.sh" |
| 370 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass0/mergeByComponent.C" |
| 371 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass0/makeOCDB.C" |
| 372 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass0/merge.C" |
| 373 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass0/mergeMakeOCDB.sh" |
| fc7e1e45 |
374 | ) |
| 375 | for file in ${filesMergeCPass0[*]}; do |
| 376 | [[ ! -f ${file##*/} && -f ${file} ]] && echo "copying ${file}" && cp -f ${file} . |
| 377 | done |
| 378 | |
| 379 | alirootInfo > ALICE_ROOT_svn.log |
| 380 | |
| 381 | # |
| 382 | ls -lh |
| 383 | |
| 384 | #merge calibration |
| 385 | chmod u+x $mergingScript |
| 386 | mkdir -p ./OCDB |
| 387 | if [[ -z ${calibrationFilesToMergeExternal} ]]; then |
| 388 | echo "find $outputDir -name $calibrationOutputFileName > $calibrationFilesToMerge" |
| 389 | find $outputDir -name $calibrationOutputFileName > $calibrationFilesToMerge |
| 390 | fi |
| 391 | |
| 392 | echo "$mergingScript $calibrationFilesToMerge ${runNumber} local://./OCDB $defaultOCDB" |
| 393 | if [[ -n $pretend ]]; then |
| 394 | touch CalibObjects.root |
| 395 | touch ocdb.log |
| 396 | touch merge.log |
| 397 | mkdir -p ./OCDB/someDetector/ |
| 398 | mkdir -p ./OCDB/otherDetector/ |
| 399 | touch ./OCDB/someDetector/someCalibObject_0-999999_cpass0.root |
| 400 | touch ./OCDB/otherDetector/otherCalibObject_0-999999_cpass0.root |
| 401 | else |
| 402 | ./$mergingScript $calibrationFilesToMerge ${runNumber} "local://./OCDB" $defaultOCDB |
| 403 | fi |
| 404 | |
| 405 | ### produce the output |
| 406 | #tar the produced OCDB for reuse |
| 407 | tar czf $commonOutputPath/cpass0.localOCDB.${runNumber}.tgz ./OCDB |
| 408 | |
| 5ed7c82c |
409 | ls -ltrh |
| 410 | |
| 411 | #copy all to output dir |
| 412 | cp --recursive ${runpath}/* $outputDir |
| 413 | |
| fc7e1e45 |
414 | #validate merging cpass0 |
| 5ed7c82c |
415 | cd ${outputDir} |
| fc7e1e45 |
416 | calibDoneFile="${commonOutputPath}/merge.cpass0.run${runNumber}.done" |
| 417 | touch ${calibDoneFile} |
| 418 | [[ -f CalibObjects.root ]] && echo "calibfile $outputDir/CalibObjects.root" > ${calibDoneFile} |
| 419 | summarizeLogs >> ${calibDoneFile} |
| 420 | |
| fc7e1e45 |
421 | rm -rf ${runpath} |
| 422 | } |
| 423 | |
| 424 | goMergeCPass1() |
| 425 | { |
| 426 | umask 0002 |
| 427 | # |
| 428 | # find the output files and merge them |
| 429 | # |
| 430 | |
| 431 | outputDir=$1 |
| 432 | defaultOCDB=$2 |
| 433 | configFile=$3 |
| 434 | runNumber=$4 |
| 435 | calibrationFilesToMergeExternal=$5 |
| 436 | qaFilesToMergeExternal=$6 |
| 437 | |
| 438 | #clean up first: |
| 439 | rm -f $outputDir/*.log |
| 440 | rm -f $outputDir/*.root |
| 441 | rm -f $outputDir/*done |
| 442 | |
| 443 | source $configFile |
| 36b5de1a |
444 | [[ -f ${setupAliROOTenvInCurrentShell} && -z ${alirootEnv} ]] && source $setupAliROOTenvInCurrentShell |
| fc7e1e45 |
445 | |
| 446 | runpath=${PWD}/rundir_cpass1_Merge_${runNumber} |
| 447 | [[ -z $commonOutputPath ]] && commonOutputPath=$PWD |
| 448 | [[ $reconstructInTemporaryDir -eq 1 && -n $TMPDIR ]] && runpath=$TMPDIR |
| 449 | [[ $reconstructInTemporaryDir -eq 1 && -z $TMPDIR ]] && runpath=$(mktemp -d) |
| 450 | |
| 451 | mkdir -p $runpath |
| 452 | [[ ! -d $runpath ]] && echo "not able to make the runpath $runpath" && exit 1 |
| 453 | cd $runpath |
| 454 | |
| 455 | logOutputDir=$runpath |
| 456 | [[ -n $logToFinalDestination ]] && logOutputDir=$outputDir |
| 457 | [[ -z $dontRedirectStdOutToLog ]] && exec 2>&1 > $logOutputDir/mergeMakeOCDB.log |
| 458 | echo "$0 $*" |
| 459 | |
| 460 | calibrationFilesToMerge=$calibrationFilesToMergeExternal |
| 461 | [[ -z $calibrationFilesToMerge ]] && calibrationFilesToMerge="calibrationFilesToMerge.list" |
| 462 | calibrationOutputFileName="AliESDfriends_v1.root" |
| 463 | mergingScript="mergeMakeOCDB.byComponent.sh" |
| 464 | qaFilesToMerge=$qaFilesToMergeExternal |
| 465 | [[ -z $qaFilesToMerge ]] && qaFilesToMerge="qaFilesToMerge.list" |
| 466 | qaOutputFileName="QAresults*.root" |
| 467 | qaMergedOutputFileName="QAresults_merged.root" |
| 468 | |
| 469 | echo goMergeCPass1 SETUP: |
| 470 | echo runNumber=$runNumber |
| 471 | echo outputDir=$outputDir |
| 472 | echo defaultOCDB=$defaultOCDB |
| 473 | echo calibrationFilesToMerge=filesToMerge.list |
| 474 | echo calibrationOutputFileName=$calibrationOutputFileName |
| 475 | echo mergingScript=$mergingScript |
| 476 | |
| 477 | # copy files in case they are not already there |
| 478 | filesMergeCPass1=( |
| 36b5de1a |
479 | "$commonOutputPath/${calibrationFilesToMerge}" |
| 480 | "$commonOutputPath/${qaFilesToMerge}" |
| 481 | "$commonOutputPath/OCDB.root" |
| 482 | "$commonOutputPath/localOCDBaccessConfig.C" |
| fc7e1e45 |
483 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/mergeMakeOCDB.byComponent.sh" |
| 484 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/mergeByComponent.C" |
| 485 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/makeOCDB.C" |
| 486 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/merge.C" |
| 487 | "$ALICE_ROOT/PWGPP/CalibMacros/CPass1/mergeMakeOCDB.sh" |
| fc7e1e45 |
488 | ) |
| 489 | for file in ${filesMergeCPass1[*]}; do |
| 490 | [[ ! -f ${file##*/} && -f ${file} ]] && echo "copying ${file}" && cp -f ${file} . |
| 491 | done |
| 492 | |
| 493 | alirootInfo > ALICE_ROOT_svn.log |
| 494 | |
| 495 | # |
| 496 | ls -lh |
| 497 | |
| 498 | #merge calibration |
| 499 | chmod u+x $mergingScript |
| 500 | mkdir -p OCDB |
| 501 | if [[ -z ${calibrationFilesToMergeExternal} ]]; then |
| 502 | echo "find $outputDir -name $calibrationOutputFileName > $calibrationFilesToMerge" |
| 503 | find $outputDir -name $calibrationOutputFileName > $calibrationFilesToMerge |
| 504 | fi |
| 505 | |
| 506 | echo "$mergingScript $calibrationFilesToMerge ${runNumber} local://./OCDB $defaultOCDB" |
| 507 | if [[ -n $pretend ]]; then |
| 508 | touch CalibObjects.root |
| 509 | touch ocdb.log |
| 510 | touch merge.log |
| 511 | else |
| 512 | ./$mergingScript $calibrationFilesToMerge ${runNumber} "local://./OCDB" $defaultOCDB |
| 513 | fi |
| 514 | |
| 515 | tar czf localCPass1_${runNumber}.tgz ./OCDB |
| 516 | |
| 517 | #merge QA |
| 5ed7c82c |
518 | [[ -n ${AliAnalysisTaskFilteredTree_fLowPtTrackDownscaligF} ]] && export AliAnalysisTaskFilteredTree_fLowPtTrackDownscaligF |
| 519 | [[ -n ${AliAnalysisTaskFilteredTree_fLowPtV0DownscaligF} ]] && export AliAnalysisTaskFilteredTree_fLowPtV0DownscaligF |
| 520 | |
| 521 | if [[ -z $qaFilesToMergeExternal ]]; then |
| fc7e1e45 |
522 | echo "find $outputDir -name $qaOutputFileName > $qaFilesToMerge" |
| 523 | find $outputDir -name $qaOutputFileName > $qaFilesToMerge |
| 524 | fi |
| 525 | |
| 526 | echo aliroot -l -b -q "merge.C(\"$qaFilesToMerge\",\"\",kFALSE,\"$qaMergedOutputFileName\")" |
| 527 | if [[ -n $pretend ]]; then |
| 528 | touch $qaMergedOutputFileName |
| 529 | touch merge.log |
| 530 | else |
| 531 | aliroot -l -b -q "merge.C(\"$qaFilesToMerge\",\"\",kFALSE,\"$qaMergedOutputFileName\")" |
| 532 | fi |
| 533 | |
| 5ed7c82c |
534 | ls -ltrh |
| 535 | |
| 536 | #copy all to output dir |
| 537 | cp --recursive ${runpath}/* ${outputDir} |
| 538 | |
| fc7e1e45 |
539 | #validate merge cpass1 |
| 5ed7c82c |
540 | cd ${outputDir} |
| fc7e1e45 |
541 | calibDoneFile="${commonOutputPath}/merge.cpass1.run${runNumber}.done" |
| 542 | touch ${calibDoneFile} |
| 543 | [[ -f CalibObjects.root ]] && echo "calibfile $outputDir/CalibObjects.root" > ${calibDoneFile} |
| 544 | [[ -f $qaMergedOutputFileName ]] && echo "qafile $outputDir/$qaMergedOutputFileName" >> ${calibDoneFile} |
| dd755372 |
545 | echo "dir ${outputDir}" >> ${calibDoneFile} |
| fc7e1e45 |
546 | summarizeLogs >> ${calibDoneFile} |
| 547 | |
| fc7e1e45 |
548 | rm -rf ${runpath} |
| 549 | } |
| 550 | |
| 5dfac970 |
551 | goMakeSummary() |
| fc7e1e45 |
552 | { |
| 5dfac970 |
553 | configFile=$1 |
| fc7e1e45 |
554 | source $configFile |
| 5dfac970 |
555 | |
| 556 | # log filtering, script needs to take the base dir as argument |
| 557 | if [[ -x $logFilteringScript ]]; then |
| 558 | commonOutputPath=${baseOutputDirectory}/${productionID} |
| 559 | ${logFilteringScript} $commonOutputPath |
| fc7e1e45 |
560 | fi |
| 561 | |
| 5dfac970 |
562 | awk 'BEGIN {nFiles=0;} /^calibfile/ {nFiles++;} END {print "cpass0 produced "nFiles" calib files";}' cpass0.job*done |
| 563 | awk 'BEGIN {nOK=0; nBAD=0;} /rec.*log OK/ {nOK++;} /rec.*log BAD/ {nBAD++;} END {print "cpass0 reco: OK: "nOK" BAD: "nBAD;}' cpass0.job*done |
| 564 | awk 'BEGIN {nOK=0; nBAD=0;} /calib.*log OK/ {nOK++;} /calib.*log BAD/ {nBAD++;} END {print "cpass0 calib: OK: "nOK" BAD: "nBAD;}' cpass0.job*done |
| 565 | |
| 566 | awk 'BEGIN {nOK=0; nBAD=0;} /merge.*log OK/ {nOK++;} /merge.*log BAD/ {nBAD++;} END {print "cpass0 merge: OK: "nOK" BAD: "nBAD;}' merge.cpass0*done |
| 567 | awk 'BEGIN {nOK=0; nBAD=0;} /ocdb.*log OK/ {nOK++;} /ocdb.*log BAD/ {nBAD++;} END {print "cpass0 OCDB: OK: "nOK" BAD: "nBAD;}' merge.cpass0*done |
| 568 | |
| 569 | awk 'BEGIN {nFiles=0;} /^calibfile/ {nFiles++;} END {print "cpass1 produced "nFiles" calib files";}' cpass1.job*done |
| 570 | awk 'BEGIN {nOK=0; nBAD=0;} /rec.*log OK/ {nOK++;} /rec.*log BAD/ {nBAD++;} END {print "cpass1 reco: OK: "nOK" BAD: "nBAD;}' cpass1.job*done |
| 571 | awk 'BEGIN {nOK=0; nBAD=0;} /calib.*log OK/ {nOK++;} /calib.*log BAD/ {nBAD++;} END {print "cpass1 calib: OK: "nOK" BAD: "nBAD;}' cpass1.job*done |
| fc7e1e45 |
572 | |
| 5dfac970 |
573 | awk 'BEGIN {nOK=0; nBAD=0;} /merge.*log OK/ {nOK++;} /merge.*log BAD/ {nBAD++;} END {print "cpass1 merge: OK: "nOK" BAD: "nBAD;}' merge.cpass1*done |
| 574 | awk 'BEGIN {nOK=0; nBAD=0;} /ocdb.*log OK/ {nOK++;} /ocdb.*log BAD/ {nBAD++;} END {print "cpass1 OCDB: OK: "nOK" BAD: "nBAD;}' merge.cpass1*done |
| 575 | |
| 576 | #if set email the summary |
| 577 | [[ -n $mailSummaryTo ]] && cat $log | mail -s "benchmark $productionID done" $mailSummaryTo |
| fc7e1e45 |
578 | |
| 5dfac970 |
579 | return 0 |
| 580 | } |
| fc7e1e45 |
581 | |
| 5dfac970 |
582 | goMakeflow() |
| 583 | { |
| 584 | #generate the makeflow file and run |
| 585 | inputFileList=$1 |
| 586 | productionID=$2 |
| 587 | configFile=$3 |
| 588 | runNumber=$4 |
| fc7e1e45 |
589 | |
| 5dfac970 |
590 | [[ -z ${configFile} ]] && configFile="benchmark.config" |
| 591 | [[ ! -f ${configFile} ]] && echo "no config file found (${configFile})" && return 1 |
| 592 | source $configFile |
| fc7e1e45 |
593 | |
| 5dfac970 |
594 | source $configFile |
| 595 | goGenerateMakeflow "$@" > benchmark.makeflow |
| 596 | makeflow ${makeflowOptions} benchmark.makeflow |
| 597 | } |
| fc7e1e45 |
598 | |
| 5dfac970 |
599 | goGenerateMakeflow() |
| 600 | { |
| 601 | #generate the makeflow file |
| 602 | inputFileList=$1 |
| 603 | productionID=$2 |
| 604 | configFile=$3 |
| 605 | runNumber=$4 |
| fc7e1e45 |
606 | |
| 5dfac970 |
607 | [[ -z ${configFile} ]] && configFile="benchmark.config" |
| 608 | [[ ! -f ${configFile} ]] && echo "no config file found (${configFile})" && return 1 |
| 609 | source $configFile |
| fc7e1e45 |
610 | |
| 5dfac970 |
611 | commonOutputPath=${baseOutputDirectory}/${productionID} |
| fc7e1e45 |
612 | |
| 5dfac970 |
613 | #these files will be made a dependency - will be copied to the working dir of the jobs |
| 614 | declare -a copyFiles |
| 615 | inputFiles=( |
| 616 | "OCDB.root" |
| 617 | "localOCDBaccessConfig.C" |
| 618 | ) |
| 619 | for file in ${inputFiles[*]}; do |
| 620 | [[ -f ${file} ]] && copyFiles+=("${file}") |
| 621 | done |
| 622 | |
| 623 | #create the makeflow file |
| 624 | declare -a arr_cpass1_final |
| 625 | declare -a arr_cpass1_QA_final |
| 626 | listOfRuns=${runNumber} |
| 627 | [[ -z ${runNumber} ]] && listOfRuns=($(while read x; do guessRunNumber $x; done < ${inputFileList} | sort | uniq)) |
| 628 | runindex=0 |
| fc7e1e45 |
629 | for runNumber in ${listOfRuns[*]}; do |
| 630 | [[ -z $runNumber ]] && continue |
| 631 | [[ ! ${runNumber} =~ ^[0-9]*[0-9]$ ]] && continue |
| 5dfac970 |
632 | jobindex=0 |
| fc7e1e45 |
633 | |
| 5dfac970 |
634 | unset arr_cpass0_outputs |
| 635 | unset arr_cpass1_outputs |
| 636 | declare -a arr_cpass0_outputs |
| 637 | declare -a arr_cpass1_outputs |
| 638 | unset arr_cpass0_outputs |
| fc7e1e45 |
639 | |
| 5dfac970 |
640 | while read inputFile; do |
| 641 | currentDefaultOCDB=${defaultOCDB} |
| 642 | [[ ${autoOCDB} -ne 0 ]] && currentDefaultOCDB=$(setYear $inputFile $defaultOCDB) |
| fc7e1e45 |
643 | |
| 5dfac970 |
644 | #CPass0 |
| 645 | arr_cpass0_outputs[$jobindex]="cpass0.job${jobindex}.run${runNumber}.done" |
| 646 | echo "${arr_cpass0_outputs[$jobindex]}: benchmark.sh ${configFile} ${copyFiles[@]}" |
| 647 | echo " ${alirootEnv} ./benchmark.sh CPass0 ${commonOutputPath}/cpass0/000${runNumber} $inputFile $nEvents $currentDefaultOCDB $configFile $runNumber $jobindex" |
| fc7e1e45 |
648 | echo |
| 5dfac970 |
649 | |
| 650 | #CPass1 |
| 651 | arr_cpass1_outputs[$jobindex]="cpass1.job${jobindex}.run${runNumber}.done" |
| 652 | echo "${arr_cpass1_outputs[$jobindex]} : benchmark.sh ${configFile} cpass0.localOCDB.${runNumber}.tgz ${copyFiles[@]}" |
| 653 | echo " ${alirootEnv} ./benchmark.sh CPass1 ${commonOutputPath}/cpass1/000${runNumber} $inputFile $nEvents $currentDefaultOCDB $configFile $runNumber $jobindex" |
| fc7e1e45 |
654 | echo |
| 5dfac970 |
655 | ((jobindex++)) |
| fc7e1e45 |
656 | |
| 5dfac970 |
657 | done< <(grep "/000$runNumber/" $inputFileList) |
| fc7e1e45 |
658 | |
| 5dfac970 |
659 | #CPass0 list of Calib files to merge |
| 660 | echo "cpass0.calib.run${runNumber}.list: ${arr_cpass0_outputs[*]}" |
| 661 | echo " awk '/^calibfile / {print "'\$2'"}' ${arr_cpass0_outputs[*]} > cpass0.calib.run${runNumber}.list" |
| 662 | echo |
| fc7e1e45 |
663 | |
| 5dfac970 |
664 | #CPass1 list of Calib/QA files to merge |
| 665 | echo "cpass1.calib.run${runNumber}.list cpass1.QA.run${runNumber}.list: ${arr_cpass1_outputs[*]}" |
| 666 | echo " awk '/^calibfile / {print "'\$'"2}' ${arr_cpass1_outputs[*]} > cpass1.calib.run${runNumber}.list; awk '/^qafile / {print "'\$'"2}' ${arr_cpass1_outputs[*]} > cpass1.QA.run${runNumber}.list" |
| 667 | echo |
| fc7e1e45 |
668 | |
| 5dfac970 |
669 | #CPass0 merging |
| 670 | arr_cpass0_final[$runindex]="merge.cpass0.run${runNumber}.done" |
| 671 | echo "cpass0.localOCDB.${runNumber}.tgz ${arr_cpass0_final[$runindex]}: cpass0.calib.run${runNumber}.list benchmark.sh ${configFile} ${copyFiles[@]}" |
| 672 | echo " ${alirootEnv} ./benchmark.sh MergeCPass0 ${commonOutputPath}/cpass0/000${runNumber} $currentDefaultOCDB ${configFile} $runNumber cpass0.run${runNumber}.list" |
| 673 | echo |
| fc7e1e45 |
674 | |
| 5dfac970 |
675 | #CPass1 Calib/QA merging |
| 676 | arr_cpass1_final[$runindex]="merge.cpass1.run${runNumber}.done" |
| 677 | echo "${arr_cpass1_final[$runindex]}: cpass1.calib.run${runNumber}.list cpass1.QA.run${runNumber}.list benchmark.sh ${configFile} ${copyFiles[@]}" |
| 678 | echo " ${alirootEnv} ./benchmark.sh MergeCPass1 ${commonOutputPath}/cpass1/000${runNumber} $currentDefaultOCDB ${configFile} $runNumber cpass1.calib.run${runNumber}.list cpass1.QA.run${runNumber}.list" |
| 679 | echo |
| 680 | ((runindex++)) |
| 681 | done |
| fc7e1e45 |
682 | |
| 5dfac970 |
683 | #CPass1 list of final Calib/QA files |
| 684 | echo "cpass1.QA.list cpass1.calib.list: ${arr_cpass1_final[*]}" |
| 685 | echo " awk '/^calibfile / {print "'\$'"2}' ${arr_cpass1_final[*]} > cpass1.calib.list; awk '/^qafile / {print "'\$'"2}' ${arr_cpass1_final[*]} > cpass1.QA.list" |
| 686 | echo |
| fc7e1e45 |
687 | |
| 5dfac970 |
688 | #Summary |
| 689 | echo "summary.log : ${arr_cpass0_outputs[*]} ${arr_cpass1_outputs[*]} ${arr_cpass1_final[*]} ${arr_cpass0_final[*]} benchmark.sh ${configFile}" |
| 690 | echo " LOCAL ./benchmark.sh makeSummary ${configFile} |tee summary.log" |
| 691 | } |
| fc7e1e45 |
692 | |
| 5dfac970 |
693 | goCreateQAplots() |
| 694 | { |
| 695 | umask 0002 |
| 696 | [[ $# -lt 5 ]] && echo "goCreateQAplots productionID pass outputDir qaFilesDirectory qaPlotScript" && exit 1 |
| 697 | productionID=$1 |
| 698 | pass=$2 |
| 699 | outputDir=$3 |
| 700 | qaFilesDirectory=$4 |
| 701 | qaPlotsScript=$5 |
| 702 | configFile=$6 |
| fc7e1e45 |
703 | |
| 5dfac970 |
704 | source $configFile |
| 705 | [[ -f ${setupAliROOTenvInCurrentShell} ]] && source $setupAliROOTenvInCurrentShell |
| fc7e1e45 |
706 | |
| 5dfac970 |
707 | runpath=${PWD}/rundir_cpass0_Merge_${runNumber} |
| 708 | [[ -z $commonOutputPath ]] && commonOutputPath=$PWD |
| 709 | [[ $reconstructInTemporaryDir -eq 1 && -n $TMPDIR ]] && runpath=$TMPDIR |
| 710 | [[ $reconstructInTemporaryDir -eq 1 && -z $TMPDIR ]] && runpath=$(mktemp -d) |
| fc7e1e45 |
711 | |
| 5dfac970 |
712 | mkdir -p $runpath |
| 713 | [[ ! -d $runpath ]] && echo "not able to make the runpath $runpath" && exit 1 |
| 714 | cd $runpath |
| fc7e1e45 |
715 | |
| 5dfac970 |
716 | [[ -z $logOutputDir ]] && logOutputDir=$runpath |
| 717 | [[ -z $dontRedirectStdOutToLog ]] && exec 2>&1 > $logOutputDir/makeQAplots.log |
| 718 | echo "$0 $*" |
| fc7e1e45 |
719 | |
| 5dfac970 |
720 | [[ -z "$qaPlotsScript" ]] && echo "qaPlotsScript not defined"&&exit 1 |
| 721 | |
| 722 | mergedQAfileList=$outputDir/mergedQAfiles.list |
| 723 | echo "MakeListOfQAresults $qaFilesDirectory QAresults.root | grep CPass1 > $mergedQAfileList" |
| 724 | MakeListOfQAresults $qaFilesDirectory QAresults_merged.root | grep CPass1 |tee $mergedQAfileList |
| 725 | echo $qaPlotsScript "$productionID" "cpass1" $mergedQAfileList $outputDir |
| 726 | $qaPlotsScript "$productionID" "cpass1" $mergedQAfileList $outputDir |
| fc7e1e45 |
727 | |
| 5dfac970 |
728 | mkdir -p $outputDir |
| 729 | [[ ! -d $outputDir ]] && echo "cannot make the output dir $outputDir" && exit 1 |
| 730 | mv -f $runpath/* $outputDir |
| 731 | rm -rf $runpath |
| 732 | } |
| fc7e1e45 |
733 | |
| 5dfac970 |
734 | goWaitForOutput() |
| 735 | { |
| 736 | umask 0002 |
| 737 | [[ $# -lt 3 ]] && echo "goWaitForOutput() wrong number of arguments, exiting.." && exit 1 |
| 738 | echo searchPath=$1 |
| 739 | echo fileName=$2 |
| 740 | echo numberOfFiles=$3 |
| 741 | echo maxSecondsToWait=$4 |
| 742 | searchPath=$1 |
| 743 | fileName=$2 |
| 744 | numberOfFiles=$3 |
| 745 | maxSecondsToWait=$4 |
| 746 | extraFindOptions=$5 |
| 747 | echo "command to be executed: find $searchPath -name "$fileName" ${extraFindOptions}" |
| 748 | [[ -z "$maxSecondsToWait" ]] && maxSecondsToWait=$(( 3600*12 )) |
| 749 | while sleep 60; do |
| 750 | n=$(find $searchPath -name "$fileName" ${extraFindOptions}| wc -l) |
| 751 | [[ $n -gt 0 ]] && echo "found $n X $fileName" |
| 752 | [[ $n -ge $numberOfFiles ]] && break |
| 753 | [[ $SECONDS -gt $maxSecondsToWait ]] && break |
| 754 | done |
| 755 | echo "DONE! exiting..." |
| 756 | } |
| fc7e1e45 |
757 | |
| 5dfac970 |
758 | submit() |
| 759 | { |
| 760 | umask 0002 |
| 761 | [[ $# -ne 6 ]] && echo "6 args needed, you supplied $#" && exit 1 |
| 762 | JobID=$1 |
| 763 | startID=$2 |
| 764 | endID=$3 |
| 765 | waitForJOBID=$4 |
| 766 | command=$5 |
| 767 | commandArgs=$6 |
| fc7e1e45 |
768 | |
| 5dfac970 |
769 | newFarm=$(which qsub|grep "^/usr/bin/qsub") |
| 770 | |
| 771 | batchSystem="SGE" |
| fc7e1e45 |
772 | |
| 5dfac970 |
773 | if [[ -z "$newFarm" ]] |
| 774 | then |
| 775 | #old LSF |
| 776 | # submit it (as job array) |
| 777 | nFiles=$(( $endID-$startID+1 )) |
| 778 | while [ $startID -le $nFiles ] ; do |
| 779 | if [ `expr $nFiles - $startID` -gt 999 ] ; then |
| 780 | endID=`expr $startID + 999` |
| 781 | else |
| 782 | endID=$nFiles |
| 783 | fi |
| 784 | if [[ -z "$waitForJOBID" ]]; then |
| 785 | echo $batchCommand -J "$JobID[$startID-$endID]" -e "$targetDirectory/logs/job_%I.err" -o "$targetDirectory/logs/job_%I.out" "$command" |
| 786 | $batchCommand -J "$JobID[$startID-$endID]" -e "$targetDirectory/logs/job_%I.err" -o "$targetDirectory/logs/job_%I.out" "$command" |
| 787 | else |
| 788 | echo $batchCommand -J "$JobID[$startID-$endID]" -w "ended($waitForJOBID)" -e "$targetDirectory/logs/job_%I.err" -o "$targetDirectory/logs/job_%I.out" "$command" |
| 789 | $batchCommand -J "$JobID[$startID-$endID]" -w "ended($waitForJOBID)" -e "$targetDirectory/logs/job_%I.err" -o "$targetDirectory/logs/job_%I.out" "$command" |
| 790 | fi |
| 791 | startID=`expr $endID + 1` |
| 792 | done |
| 793 | else |
| 794 | #new SGE farm |
| 795 | if [[ -z "$waitForJOBID" ]]; then |
| 796 | echo $batchCommand -wd ${targetDirectory} -b y -V -N "$JobID" -t "$startID-$endID" -e "$targetDirectory/logs/" -o "$targetDirectory/logs/" "$command" $commandArgs |
| 797 | $batchCommand -wd ${targetDirectory} -b y -V -N "$JobID" -t "$startID-$endID" -e "$targetDirectory/logs/" -o "$targetDirectory/logs/" "$command" $commandArgs |
| 798 | else |
| 799 | echo $batchCommand -wd ${targetDirectory} -b y -V -N "$JobID" -t "$startID-$endID" -hold_jid "$waitForJOBID" -e "$targetDirectory/logs/" -o "$targetDirectory/logs/" "$command" $commandArgs |
| 800 | $batchCommand -wd ${targetDirectory} -b y -V -N "$JobID" -t "$startID-$endID" -hold_jid "$waitForJOBID" -e "$targetDirectory/logs/" -o "$targetDirectory/logs/" "$command" $commandArgs |
| 801 | fi |
| 802 | fi |
| 803 | } |
| fc7e1e45 |
804 | |
| 5dfac970 |
805 | goTest() |
| 806 | { |
| 807 | umask 0002 |
| 808 | exec 2>&1 |
| 809 | exec > >(tee test.log) |
| 810 | echo "$@" |
| 811 | echo something |
| 812 | } |
| fc7e1e45 |
813 | |
| 5dfac970 |
814 | alirootInfo() |
| 815 | { |
| 816 | ( |
| 817 | umask 0002 |
| 818 | # save aliroot svn info |
| 819 | [[ -z "$ALICE_ROOT" ]] && exit 1 |
| 820 | prevdir=$PWD |
| 821 | cd $ALICE_ROOT |
| 822 | echo "\$ALICE_ROOT=$ALICE_ROOT" |
| 823 | echo |
| 824 | svn info 2>/dev/null |
| 825 | echo "" |
| 826 | echo "" |
| 827 | svn diff 2>/dev/null |
| 828 | cd $prevdir |
| 829 | ) |
| 830 | } |
| fc7e1e45 |
831 | |
| 5dfac970 |
832 | MakeListOfQAresults() |
| 833 | { |
| 834 | ( |
| 835 | umask 0002 |
| 836 | if [[ $# -eq 0 ]]; then |
| 837 | echo "make an input file list for the qa script" |
| 838 | echo "Usage: $0 path filename" |
| 839 | return 0 |
| 840 | fi |
| fc7e1e45 |
841 | |
| 5dfac970 |
842 | path=$1 |
| 843 | fileName=$2 |
| 844 | |
| 845 | while read entry; do |
| 846 | runNumber=$(guessRunNumber $entry) |
| 847 | echo "$runNumber 0 1 10 $entry" |
| 848 | done < <(find $path -name $fileName) |
| 849 | ) |
| 850 | } |
| fc7e1e45 |
851 | |
| 5dfac970 |
852 | setYear() |
| 853 | { |
| 854 | #set the year |
| 855 | # $1 - year to be set |
| 856 | # $2 - where to set the year |
| 857 | year1=$(guessYear $1) |
| 858 | year2=$(guessYear $2) |
| 859 | local path=$2 |
| 860 | [[ $year1 -ne $year2 && -n $year2 ]] && path=${2/\/$year2\//\/$year1\/} |
| 861 | echo $path |
| 862 | } |
| fc7e1e45 |
863 | |
| 5dfac970 |
864 | guessPeriod() |
| 865 | { |
| 866 | #guess the period from the path, pick the rightmost one |
| 867 | local IFS="/" |
| 868 | declare -a path=( $1 ) |
| 869 | local dirDepth=${#path[*]} |
| 870 | for ((x=${dirDepth}-1;x>=0;x--)); do |
| 871 | local field=${path[${x}]} |
| 872 | [[ ${field} =~ ^LHC[0-9][0-9][a-z]$ ]] && period=${field#000} && break |
| 873 | done |
| 874 | echo $period |
| 875 | } |
| fc7e1e45 |
876 | |
| 5dfac970 |
877 | guessYear() |
| 878 | { |
| 879 | #guess the year from the path, pick the rightmost one |
| 880 | local IFS="/" |
| 881 | declare -a path=( $1 ) |
| 882 | local dirDepth=${#path[*]} |
| 883 | for ((x=${dirDepth}-1;x>=0;x--)); do |
| 884 | local field=${path[${x}]} |
| 885 | [[ ${field} =~ ^20[0-9][0-9]$ ]] && year=${field#000} && break |
| 886 | done |
| 887 | echo $year |
| 888 | } |
| fc7e1e45 |
889 | |
| 5dfac970 |
890 | guessRunNumber() |
| 891 | { |
| 892 | #guess the run number from the path, pick the rightmost one |
| 893 | local IFS="/" |
| 894 | declare -a path=( $1 ) |
| 895 | local dirDepth=${#path[*]} |
| 896 | for ((x=${dirDepth}-1;x>=0;x--)); do |
| 897 | local field=${path[${x}]} |
| 898 | [[ ${field} =~ ^000[0-9][0-9][0-9][0-9][0-9][0-9]$ ]] && runNumber=${field#000} && break |
| 899 | done |
| 900 | echo $runNumber |
| 901 | } |
| fc7e1e45 |
902 | |
| 5dfac970 |
903 | summarizeLogs() |
| 904 | { |
| 905 | #print a summary of logs |
| 906 | logFiles=( |
| 907 | "*.log" |
| 908 | ) |
| fc7e1e45 |
909 | |
| 5dfac970 |
910 | errorConditions=( |
| 911 | "There was a crash" |
| 912 | "floating" |
| 913 | "error while loading shared libraries" |
| 914 | "std::bad_alloc" |
| 915 | "s_err_syswatch_" |
| 916 | "Thread [0-9]* (Thread" |
| 917 | ) |
| 918 | logstatus=0 |
| 919 | for log in ${logFiles[*]}; do |
| 920 | finallog=${outputDir%/}/${log} |
| 921 | [[ ! -f $log ]] && continue |
| 922 | errorSummary="" |
| 923 | for ((i=0; i<${#errorConditions[@]};i++)); do |
| 924 | local tmp=$(grep -m1 -e "${errorConditions[$i]}" $log) |
| 925 | [[ -n $tmp ]] && tmp+=" : " |
| 926 | errorSummary+=$tmp |
| 927 | done |
| 928 | if [[ -z $errorSummary ]]; then |
| 929 | #in pretend mode randomly report an error in rec.log some cases |
| 930 | if [[ -n $pretend && "$log" == "rec.log" ]]; then |
| 931 | [[ $(( $RANDOM%2 )) -ge 1 ]] && echo "$finallog BAD random error" || echo "$finallog OK" |
| fc7e1e45 |
932 | else |
| 5dfac970 |
933 | echo "$finallog OK" |
| fc7e1e45 |
934 | fi |
| 5dfac970 |
935 | else |
| 936 | local logstatus=1 |
| 937 | echo "$finallog BAD $errorSummary" |
| 938 | fi |
| 939 | done |
| 940 | return $logstatus |
| 941 | } |
| fc7e1e45 |
942 | |
| 5dfac970 |
943 | spitOutLocalOCDBaccessConfig() |
| 944 | { |
| 945 | umask 0002 |
| 946 | find $1 -name "*root" | \ |
| 947 | while read line |
| 948 | do |
| 949 | local tmp=${line#$1} |
| 950 | echo ${tmp%/*} | \ |
| 951 | awk -v ocdb=$1 '{print " man->SetSpecificStorage(\""$1"\",\"local://"ocdb"\");"}' |
| 952 | done |
| 953 | } |
| fc7e1e45 |
954 | |
| 5dfac970 |
955 | goConfigureOCDBforCPass1() |
| 956 | { |
| 957 | umask 0002 |
| 958 | # make a script that sets the specific storages form all the root files produced by CPass0 |
| 959 | # in this case the second argument is taken to be the path to the produced OCDB for specific storage |
| 960 | local localOCDBpathCPass0=$1 |
| 961 | local outputDir=$2 |
| 962 | [[ -d $outputDir ]] && cd $outputDir |
| fc7e1e45 |
963 | |
| 5dfac970 |
964 | if [[ -f $localOCDBpathCPass0 && $localOCDBpathCPass0 =~ \.tgz$ ]]; then |
| 965 | tar xzf $localOCDBpathCPass0 |
| 966 | local localOCDBpathCPass0="./OCDB" |
| 967 | fi |
| fc7e1e45 |
968 | |
| 5dfac970 |
969 | echo |
| 970 | echo creating the specific storage script |
| 971 | echo localOCDBaccessConfig.C |
| 972 | echo based on OCDB: $fileName |
| 973 | echo |
| fc7e1e45 |
974 | |
| 5dfac970 |
975 | local tempLocalOCDB="" |
| 976 | if [[ -f localOCDBaccessConfig.C ]]; then |
| 977 | tempLocalOCDB=$(mktemp) |
| 978 | echo "egrep "SetSpecificStorage" localOCDBaccessConfig.C > $tempLocalOCDB" |
| 979 | egrep "SetSpecificStorage" localOCDBaccessConfig.C > $tempLocalOCDB |
| 980 | fi |
| fc7e1e45 |
981 | |
| 5dfac970 |
982 | echo "localOCDBaccessConfig()" > localOCDBaccessConfig.C |
| 983 | echo "{" >> localOCDBaccessConfig.C |
| 984 | echo " AliCDBManager* man = AliCDBManager::Instance();" >> localOCDBaccessConfig.C |
| 985 | spitOutLocalOCDBaccessConfig $localOCDBpathCPass0|sort|uniq >> localOCDBaccessConfig.C |
| 986 | [[ -f "$tempLocalOCDB" ]] && cat $tempLocalOCDB >> localOCDBaccessConfig.C |
| 987 | echo "}" >> localOCDBaccessConfig.C |
| fc7e1e45 |
988 | |
| 5dfac970 |
989 | [[ -f "$tempLocalOCDB" ]] && rm -f $tempLocalOCDB |
| fc7e1e45 |
990 | |
| 5dfac970 |
991 | if ! grep SetSpecificStorage localOCDBaccessConfig.C; then |
| 992 | echo |
| 993 | echo "!!!!!!! CPass0 produced no OCDB entries" |
| 994 | return 1 |
| 995 | fi |
| 996 | } |
| fc7e1e45 |
997 | |
| 5dfac970 |
998 | goSubmit() |
| 999 | { |
| 1000 | inputList=$1 |
| 1001 | productionID=$2 |
| 1002 | configFile="benchmark.config" |
| 1003 | [[ -n "$3" ]] && configFile=$3 |
| 1004 | configFile=$(readlink -f $configFile) |
| 1005 | [[ -n $4 ]] && runNumber=$4 |
| fc7e1e45 |
1006 | |
| 5dfac970 |
1007 | #redirect all output to submit.log |
| 1008 | echo "redirecting all output to ${PWD}/submit_${productionID//"/"/_}.log" |
| 1009 | exec 7>&1 |
| 1010 | exec 1>submit_${productionID//"/"/_}.log 2>&1 |
| fc7e1e45 |
1011 | |
| 5dfac970 |
1012 | umask 0002 |
| 1013 | echo $0" submit $*" |
| 1014 | if [[ -z "$inputList" || -z "$productionID" ]] |
| 1015 | then |
| fc7e1e45 |
1016 | echo |
| 5dfac970 |
1017 | echo " Usage: $0 submit inputList productionID [configFile=benchmark.config]" |
| fc7e1e45 |
1018 | echo |
| 5dfac970 |
1019 | exit |
| fc7e1e45 |
1020 | fi |
| fc7e1e45 |
1021 | |
| 5dfac970 |
1022 | date=`date +%Y-%m-%d_%H%M%S` |
| fc7e1e45 |
1023 | |
| 5dfac970 |
1024 | # check if config file is there |
| 1025 | if [ ! -f $configFile ]; then |
| 1026 | echo "ERROR! Config File '$configFile' not found" >&2 |
| 1027 | exit |
| 1028 | else |
| 1029 | echo "Using Config File: '$configFile'" |
| fc7e1e45 |
1030 | fi |
| 1031 | |
| 5dfac970 |
1032 | # source the config file |
| 1033 | # and print the configuration |
| fc7e1e45 |
1034 | source $configFile |
| 5dfac970 |
1035 | [[ -f ${setupAliROOTenvInCurrentShell} && -z ${alirootEnv} ]] && source $setupAliROOTenvInCurrentShell |
| fc7e1e45 |
1036 | |
| 5dfac970 |
1037 | self=$(readlink -f "$0") |
| 1038 | configPath=`dirname $self` |
| 1039 | #exporting makes it available in the environment on the nodes - makes the summary output go there |
| 1040 | export commonOutputPath=${baseOutputDirectory}/${productionID} |
| fc7e1e45 |
1041 | |
| 5dfac970 |
1042 | #[[ -z ${ALIROOT_RELEASE} ]] && ALIROOT_RELEASE=${ALICE_ROOT//"/"/"_"} |
| 1043 | #ALIROOT_RELEASE_mod=${ALIROOT_RELEASE//"/"/"_"} |
| 1044 | #ALIROOT_BASEDIR_mod=${ALIROOT_BASEDIR//"/"/"_"} |
| 1045 | #productionID=${ALIROOT_BASEDIR_mod}_${ALIROOT_RELEASE_mod}/${productionID} |
| fc7e1e45 |
1046 | |
| 5dfac970 |
1047 | #convert to absolut pathnames |
| 1048 | inputList=$(readlink -f "$inputList") |
| 1049 | #make list of runs |
| 1050 | if [[ -z $runNumber ]]; then |
| 1051 | listOfRuns=($(while read x; do guessRunNumber $x; done < ${inputList} | sort | uniq)) |
| 1052 | else |
| 1053 | listOfRuns=$runNumber |
| 1054 | fi |
| fc7e1e45 |
1055 | |
| 5dfac970 |
1056 | setupAliROOTenvInCurrentShell=$(readlink -f "$setupAliROOTenvInCurrentShell") |
| fc7e1e45 |
1057 | |
| 5dfac970 |
1058 | echo "" |
| 1059 | echo "### BEGIN CONFIGURATION ###" |
| 1060 | echo "" |
| 1061 | echo "GENERAL:" |
| 1062 | echo "" |
| 1063 | echo " productionID: $productionID" |
| 1064 | echo " batchCommand: $batchCommand" |
| 1065 | echo " setupAliROOTenvInCurrentShell: $setupAliROOTenvInCurrentShell" |
| 1066 | echo " ALICE_ROOT: $ALICE_ROOT" |
| 1067 | echo " ALIROOT_RELEASE: $ALICE_RELEASE" |
| 1068 | echo " inputList: $inputList" |
| 1069 | echo " configPath: $configPath" |
| 1070 | echo " commonOutputPath: $commonOutputPath" |
| 1071 | echo " defaultOCDB: $defaultOCDB" |
| 1072 | echo " autoOCDB: $autoOCDB" |
| 1073 | echo " recoTriggerOptions: $recoTriggerOptions" |
| 1074 | echo " runs:" |
| 1075 | echo " ${listOfRuns[*]}" |
| 1076 | echo "" |
| 1077 | echo "THE TRAIN WILL RUN:" |
| fc7e1e45 |
1078 | |
| 5dfac970 |
1079 | if [ $runCPass0reco -eq 1 ]; then |
| 1080 | echo " Pass0 - Recontruction" |
| 1081 | fi |
| fc7e1e45 |
1082 | |
| 5dfac970 |
1083 | if [ $runCPass0MergeMakeOCDB -eq 1 ]; then |
| 1084 | echo " Pass0 - merging and OCDB export" |
| 1085 | fi |
| fc7e1e45 |
1086 | |
| 5dfac970 |
1087 | if [ $runCPass1reco -eq 1 ]; then |
| 1088 | echo " Pass1 - Recontruction" |
| 1089 | fi |
| 1090 | if [ $runCPass1MergeMakeOCDB -eq 1 ]; then |
| 1091 | echo " Pass1 - merging and OCDB export" |
| 1092 | fi |
| fc7e1e45 |
1093 | |
| 5dfac970 |
1094 | echo "" |
| 1095 | echo "LIMITS:" |
| 1096 | echo " max. Events/Chunk: $nEvents" |
| 1097 | echo " max. Number of Chunks per Run: $nMaxChunks" |
| 1098 | echo "" |
| 1099 | echo "### END CONFIGURATION ###" |
| 1100 | echo "" |
| fc7e1e45 |
1101 | |
| 36b5de1a |
1102 | |
| 5dfac970 |
1103 | # check if input file is there |
| 1104 | if [ ! -f $inputList ]; then |
| 1105 | echo "ERROR! Input List '$inputList' not found" >&2 |
| 1106 | exit |
| 1107 | fi |
| 1108 | |
| 1109 | # define jobid (for dependent jobs) |
| 1110 | JOBID1=p0_${productionID//"/"/_}_${date} |
| 1111 | JOBID1wait=w0_${productionID//"/"/_}_${date} |
| 1112 | JOBID2=m0_${productionID//"/"/_}_${date} |
| 1113 | JOBID2wait=wm0_${productionID//"/"/_}_${date} |
| 1114 | JOBID3=op0_${productionID//"/"/_}_${date} |
| 1115 | JOBID3wait=wop0_${productionID//"/"/_}_${date} |
| 1116 | JOBID4=p1_${productionID//"/"/_}_${date} |
| 1117 | JOBID4wait=w1_${productionID//"/"/_}_${date} |
| 1118 | JOBID5=m1_${productionID//"/"/_}_${date} |
| 1119 | JOBID5wait=wm1_${productionID//"/"/_}_${date} |
| 1120 | JOBID6=s1_${productionID//"/"/_}_${date} |
| 1121 | JOBID6wait=ws1_${productionID//"/"/_}_${date} |
| 1122 | JOBID7=QA_${productionID//"/"/_}_${date} |
| 1123 | LASTJOB="" |
| 1124 | |
| 1125 | #for each run we submit one jobarray: |
| 1126 | numberOfSubmittedCPass1MergingJobs=0 |
| fc7e1e45 |
1127 | for runNumber in ${listOfRuns[*]}; do |
| 1128 | [[ -z $runNumber ]] && continue |
| 1129 | [[ ! ${runNumber} =~ ^[0-9]*[0-9]$ ]] && continue |
| 5dfac970 |
1130 | oneInputFile=$(egrep -m1 "$runNumber\/" ${inputList}) |
| 1131 | currentDefaultOCDB=$defaultOCDB |
| 1132 | [[ $autoOCDB -ne 0 ]] && currentDefaultOCDB=$(setYear $oneInputFile $defaultOCDB) |
| 1133 | echo "submitting run $runNumber with OCDB $currentDefaultOCDB" |
| fc7e1e45 |
1134 | |
| 5dfac970 |
1135 | ################################################################################ |
| 1136 | ################################################################################ |
| 1137 | # run the CPass0 if requested |
| fc7e1e45 |
1138 | |
| 5dfac970 |
1139 | if [ $runCPass0reco -eq 1 ]; then |
| fc7e1e45 |
1140 | |
| fc7e1e45 |
1141 | echo |
| 5dfac970 |
1142 | echo "starting CPass0... for run $runNumber" |
| fc7e1e45 |
1143 | echo |
| fc7e1e45 |
1144 | |
| 5dfac970 |
1145 | # create directory and copy all files that are needed |
| 1146 | targetDirectory="${commonOutputPath}/000${runNumber}/CPass0" |
| 1147 | mkdir -p $targetDirectory |
| 1148 | mkdir -p $targetDirectory/logs |
| 1149 | |
| 1150 | localInputList=$targetDirectory/${inputList##*/} |
| 1151 | theScript="$targetDirectory/${self##*/}" |
| 1152 | cp -f $self $theScript |
| 1153 | chmod u+x $theScript |
| fc7e1e45 |
1154 | |
| 5dfac970 |
1155 | rm -f $localInputList |
| 1156 | egrep "\/000$runNumber\/" $inputList >> $localInputList |
| 1157 | cp -f $configFile $targetDirectory |
| 1158 | [[ -f $configPath/runCPass0.sh ]] && cp -f $configPath/runCPass0.sh $targetDirectory && echo "## using local runCPass0.sh" |
| 1159 | [[ -f $configPath/recCPass0.C ]] && cp -f $configPath/recCPass0.C $targetDirectory && echo "## using local recCPass0.C" |
| 1160 | [[ -f $configPath/runCalibTrain.C ]] && cp -f $configPath/runCalibTrain.C $targetDirectory && echo "## using local runCalibTrain.C" |
| 1161 | [[ -f $configPath/localOCDBaccessConfig.C ]] && cp -f $configPath/localOCDBaccessConfig.C $targetDirectory && echo "## using local localOCDBaccessConfig.C" |
| fc7e1e45 |
1162 | |
| 5dfac970 |
1163 | [[ -f $configPath/CPass0/runCPass0.sh ]] && cp -f $configPath/CPass0/runCPass0.sh $targetDirectory && echo "## using local runCPass0.sh" |
| 1164 | [[ -f $configPath/CPass0/recCPass0.C ]] && cp -f $configPath/CPass0/recCPass0.C $targetDirectory && echo "## using local recCPass0.C" |
| 1165 | [[ -f $configPath/CPass0/runCalibTrain.C ]] && cp -f $configPath/CPass0/runCalibTrain.C $targetDirectory && echo "## using local runCalibTrain.C" |
| 1166 | [[ -f $configPath/CPass0/localOCDBaccessConfig.C ]] && cp -f $configPath/CPass0/localOCDBaccessConfig.C $targetDirectory && echo "## using local localOCDBaccessConfig.C" |
| fc7e1e45 |
1167 | |
| 5dfac970 |
1168 | echo "... files copied." |
| 1169 | echo |
| fc7e1e45 |
1170 | |
| 5dfac970 |
1171 | # limit nFiles to nMaxChunks |
| 1172 | nFiles=`wc -l < $localInputList` |
| 1173 | [[ $nFiles -eq 0 ]] && echo "list contains ZERO files! exiting..." && exit 1 |
| 1174 | echo "raw files in list: $nFiles" |
| 1175 | if [[ $nMaxChunks -gt 0 && $nMaxChunks -le $nFiles ]]; then |
| 1176 | nFiles=$nMaxChunks |
| 1177 | fi |
| 1178 | echo "raw files to process: $nFiles" |
| 1179 | [[ -z "$percentProcessedFilesToContinue" ]] && percentProcessedFilesToContinue=100 |
| 1180 | if [[ $percentProcessedFilesToContinue -eq 100 ]]; then |
| 1181 | nFilesToWaitFor=$nFiles |
| 1182 | else |
| 1183 | nFilesToWaitFor=$(( $nFiles-$nFiles/(100/(100-$percentProcessedFilesToContinue)) )) |
| 1184 | fi |
| 1185 | echo "requested success rate is $percentProcessedFilesToContinue%" |
| 1186 | echo "merging will start after $nFilesToWaitFor jobs are done" |
| fc7e1e45 |
1187 | |
| 5dfac970 |
1188 | submit $JOBID1 1 $nFiles "" "$theScript" "CPass0 $targetDirectory $localInputList $nEvents $currentDefaultOCDB $configFile $runNumber" |
| fc7e1e45 |
1189 | |
| 5dfac970 |
1190 | ## submit a monitoring job that will run until a certain number of jobs are done with reconstruction |
| 1191 | submit "$JOBID1wait" 1 1 "" "$theScript" "WaitForOutput ${commonOutputPath} 'cpass0.job*.run$runNumber.done' $nFilesToWaitFor $maxSecondsToWait '-maxdepth 1'" |
| 1192 | LASTJOB=$JOBID1wait |
| fc7e1e45 |
1193 | |
| 5dfac970 |
1194 | fi #end running CPass0 |
| 1195 | ################################################################################ |
| fc7e1e45 |
1196 | |
| fc7e1e45 |
1197 | |
| 5dfac970 |
1198 | ################################################################################ |
| 1199 | # submit merging of CPass0, depends on the reconstruction |
| fc7e1e45 |
1200 | |
| 5dfac970 |
1201 | if [ $runCPass0MergeMakeOCDB -eq 1 ]; then |
| fc7e1e45 |
1202 | |
| 5dfac970 |
1203 | echo |
| 1204 | echo "submit CPass0 merging for run $runNumber" |
| 1205 | echo |
| fc7e1e45 |
1206 | |
| 5dfac970 |
1207 | targetDirectory="${commonOutputPath}/000${runNumber}/CPass0" |
| 1208 | mkdir -p $targetDirectory |
| fc7e1e45 |
1209 | |
| 5dfac970 |
1210 | # copy the scripts |
| 1211 | cp -f $self $targetDirectory |
| 1212 | [[ -f $configPath/mergeMakeOCDB.sh ]] && cp -f $configPath/mergeMakeOCDB.sh $targetDirectory && echo "## using local mergeMakeOCDB.sh" |
| 1213 | [[ -f $configPath/merge.C ]] && cp -f $configPath/merge.C $targetDirectory && echo "## using local merge.C" |
| 1214 | [[ -f $configPath/mergeMakeOCDB.byComponent.sh ]] && cp -f $configPath/mergeMakeOCDB.byComponent.sh $targetDirectory && echo "## using local mergeMakeOCDB.byComponent.sh" |
| 1215 | [[ -f $configPath/mergeByComponent.C ]] && cp -f $configPath/mergeByComponent.C $targetDirectory && echo "## using local mergeByComponent.C" |
| 1216 | [[ -f $configPath/makeOCDB.C ]] && cp -f $configPath/makeOCDB.C $targetDirectory && echo "## using local makeOCDB.C" |
| fc7e1e45 |
1217 | |
| 5dfac970 |
1218 | theScript="$targetDirectory/${self##*/}" |
| 1219 | chmod u+x $theScript |
| fc7e1e45 |
1220 | |
| 5dfac970 |
1221 | echo submit $JOBID2 1 1 "$LASTJOB" "$theScript" "MergeCPass0 $targetDirectory $currentDefaultOCDB $configFile $runNumber" |
| 1222 | submit $JOBID2 1 1 "$LASTJOB" "$theScript" "MergeCPass0 $targetDirectory $currentDefaultOCDB $configFile $runNumber" |
| 1223 | LASTJOB=$JOBID2 |
| fc7e1e45 |
1224 | |
| 5dfac970 |
1225 | cd $configPath |
| 1226 | echo |
| fc7e1e45 |
1227 | fi |
| 5dfac970 |
1228 | # end of merging CPass0 |
| 1229 | ################################################################################ |
| fc7e1e45 |
1230 | |
| 5dfac970 |
1231 | ################################################################################ |
| 1232 | ################################################################################ |
| 1233 | # run the CPass1 if requested |
| fc7e1e45 |
1234 | |
| 5dfac970 |
1235 | if [ $runCPass1reco -eq 1 ]; then |
| fc7e1e45 |
1236 | |
| 5dfac970 |
1237 | targetDirectory="${commonOutputPath}/000${runNumber}/CPass1" |
| fc7e1e45 |
1238 | |
| 5dfac970 |
1239 | # safety feature: if we are re-running for any reason we want to delete the previous output first. |
| 1240 | [[ -d $targetDirectory ]] && rm -rf $targetDirectory/* && echo "removed old output at $targetDirectory/*" |
| fc7e1e45 |
1241 | |
| 5dfac970 |
1242 | ################################################################################ |
| 1243 | # for the CPass1, based on the OCDB entries produced, we need to create the script |
| 1244 | # to set the specific storages to the output of CPass0 |
| 1245 | # submit a job that will execute after merging/OCDB export that will do it. |
| fc7e1e45 |
1246 | |
| 5dfac970 |
1247 | mkdir -p $targetDirectory |
| 1248 | mkdir -p $targetDirectory/logs |
| 1249 | cp -f $self $targetDirectory |
| 1250 | theScript="$targetDirectory/${self##*/}" |
| fc7e1e45 |
1251 | |
| 5dfac970 |
1252 | echo |
| 1253 | echo submitting the OCDB specific storage config making script for run $runNumber |
| 1254 | echo |
| fc7e1e45 |
1255 | |
| 5dfac970 |
1256 | [[ -f $configPath/localOCDBaccessConfig.C ]] && cp -f $configPath/localOCDBaccessConfig.C $targetDirectory && echo "## using local localOCDBaccessConfig.C" |
| fc7e1e45 |
1257 | |
| 5dfac970 |
1258 | submit $JOBID3 1 1 "$LASTJOB" "$theScript" "ConfOCDB ${commonOutputPath}/000${runNumber}/CPass0/OCDB ${targetDirectory} " |
| 1259 | LASTJOB=$JOBID3 |
| 1260 | ################################################################################ |
| fc7e1e45 |
1261 | |
| 5dfac970 |
1262 | echo |
| 1263 | echo "starting CPass1... for run $runNumber" |
| 1264 | echo |
| 1265 | |
| 1266 | # create directory and copy all files that are needed |
| 1267 | mkdir -p $targetDirectory |
| 1268 | mkdir -p $targetDirectory/logs |
| 1269 | |
| 1270 | localInputList=$targetDirectory/${inputList##*/} |
| 1271 | theScript="$targetDirectory/${self##*/}" |
| 1272 | cp -f $self $theScript |
| 1273 | chmod u+x $theScript |
| 1274 | |
| 1275 | rm -f $localInputList |
| 1276 | egrep "\/000$runNumber\/" $inputList >> $localInputList |
| 1277 | cp -f $configFile $targetDirectory |
| 1278 | [[ -f $configPath/runCPass1.sh ]] && cp -f $configPath/runCPass1.sh $targetDirectory && echo "## using local runCPass1.sh" |
| 1279 | [[ -f $configPath/recCPass1.C ]] && cp -f $configPath/recCPass1.C $targetDirectory && echo "## using local recCPass1.C" |
| 1280 | [[ -f $configPath/recCPass1_OuterDet.C ]] && cp -f $configPath/recCPass1_OuterDet.C $targetDirectory && echo "## using local recCPass1_OuterDet.C" |
| 1281 | [[ -f $configPath/runCalibTrain.C ]] && cp -f $configPath/runCalibTrain.C $targetDirectory && echo "## using local runCalibTrain.C" |
| 1282 | [[ -f $configPath/QAtrain.C ]] && cp -f $configPath/QAtrain.C $targetDirectory && echo "## using local QAtrain.C" |
| 1283 | [[ -f $configPath/QAtrain_duo.C ]] && cp -f $configPath/QAtrain_duo.C $targetDirectory && echo "## using local QAtrain_duo.C" |
| 1284 | |
| 1285 | [[ -f $configPath/CPass1/runCPass1.sh ]] && cp -f $configPath/CPass1/runCPass1.sh $targetDirectory && echo "## using local runCPass1.sh" |
| 1286 | [[ -f $configPath/CPass1/recCPass1.C ]] && cp -f $configPath/CPass1/recCPass1.C $targetDirectory && echo "## using local recCPass1.C" |
| 1287 | [[ -f $configPath/CPass1/recCPass1_OuterDet.C ]] && cp -f $configPath/CPass1/recCPass1_OuterDet.C $targetDirectory && echo "## using local recCPass1_OuterDet.C" |
| 1288 | [[ -f $configPath/CPass1/runCalibTrain.C ]] && cp -f $configPath/CPass1/runCalibTrain.C $targetDirectory && echo "## using local runCalibTrain.C" |
| 1289 | [[ -f $configPath/CPass1/QAtrain.C ]] && cp -f $configPath/CPass1/QAtrain.C $targetDirectory && echo "## using local QAtrain.C" |
| 1290 | [[ -f $configPath/CPass1/QAtrain_duo.C ]] && cp -f $configPath/CPass1/QAtrain_duo.C $targetDirectory && echo "## using local QAtrain_duo.C" |
| 1291 | |
| 1292 | echo "... files copied." |
| 1293 | echo |
| 1294 | |
| 1295 | # limit nFiles to nMaxChunks |
| 1296 | nFiles=`wc -l < $localInputList` |
| 1297 | [[ $nFiles -eq 0 ]] && echo "list contains ZERO files! exiting..." && exit 1 |
| 1298 | echo "raw files in list: $nFiles" |
| 1299 | if [[ $nMaxChunks -gt 0 && $nMaxChunks -le $nFiles ]]; then |
| 1300 | nFiles=$nMaxChunks |
| 1301 | fi |
| 1302 | echo "raw files to process: $nFiles" |
| 1303 | [[ -z "$percentProcessedFilesToContinue" ]] && percentProcessedFilesToContinue=100 |
| 1304 | if [[ $percentProcessedFilesToContinue -eq 100 ]]; then |
| 1305 | nFilesToWaitFor=$nFiles |
| fc7e1e45 |
1306 | else |
| 5dfac970 |
1307 | nFilesToWaitFor=$(( $nFiles-$nFiles/(100/(100-$percentProcessedFilesToContinue)) )) |
| fc7e1e45 |
1308 | fi |
| 5dfac970 |
1309 | echo "requested success rate is $percentProcessedFilesToContinue%" |
| 1310 | echo "merging will start after $nFilesToWaitFor jobs are done" |
| fc7e1e45 |
1311 | |
| 5dfac970 |
1312 | submit $JOBID4 1 $nFiles "$LASTJOB" "$theScript" "CPass1 $targetDirectory $localInputList $nEvents $currentDefaultOCDB $configFile $runNumber" |
| fc7e1e45 |
1313 | |
| 5dfac970 |
1314 | ################################################################################ |
| 1315 | ## submit a monitoring job that will run until a certain number of jobs are done with reconstruction |
| 1316 | submit "$JOBID4wait" 1 1 "$LASTJOB" "$theScript" "WaitForOutput ${commonOutputPath} 'cpass1.job*.run${runNumber}.done' $nFilesToWaitFor $maxSecondsToWait '-maxdepth 1'" |
| 1317 | LASTJOB=$JOBID4wait |
| 1318 | ################################################################################ |
| fc7e1e45 |
1319 | |
| 5dfac970 |
1320 | echo |
| 1321 | fi #end running CPass1 |
| fc7e1e45 |
1322 | |
| 5dfac970 |
1323 | ################################################################################ |
| 1324 | # submit merging of CPass1, depends on the reconstruction |
| 1325 | if [ $runCPass1MergeMakeOCDB -eq 1 ]; then |
| fc7e1e45 |
1326 | |
| 5dfac970 |
1327 | echo |
| 1328 | echo "submit CPass1 merging for run $runNumber" |
| 1329 | echo |
| fc7e1e45 |
1330 | |
| 5dfac970 |
1331 | targetDirectory="${commonOutputPath}/000${runNumber}/CPass1" |
| 1332 | mkdir -p $targetDirectory |
| fc7e1e45 |
1333 | |
| 5dfac970 |
1334 | # copy the scripts |
| 1335 | cp -f $self $targetDirectory |
| 1336 | [[ -f $configPath/mergeMakeOCDB.sh ]] && cp -f $configPath/mergeMakeOCDB.sh $targetDirectory && echo "## using local mergeMakeOCDB.sh" |
| 1337 | [[ -f $configPath/merge.C ]] && cp -f $configPath/merge.C $targetDirectory && echo "## using local merge.C" |
| 1338 | [[ -f $configPath/mergeMakeOCDB.byComponent.sh ]] && cp -f $configPath/mergeMakeOCDB.byComponent.sh $targetDirectory && echo "## using local mergeMakeOCDB.byComponent.sh" |
| 1339 | [[ -f $configPath/mergeByComponent.C ]] && cp -f $configPath/mergeByComponent.C $targetDirectory && echo "## using local mergeByComponent.C" |
| 1340 | [[ -f $configPath/makeOCDB.C ]] && cp -f $configPath/makeOCDB.C $targetDirectory && echo "## using local makeOCDB.C" |
| fc7e1e45 |
1341 | |
| 5dfac970 |
1342 | theScript="$targetDirectory/${self##*/}" |
| 1343 | chmod u+x $theScript |
| 1344 | |
| 1345 | echo submit "$JOBID5" 1 1 "$LASTJOB" "$theScript" "MergeCPass1 $targetDirectory $currentDefaultOCDB $configFile $runNumber" |
| 1346 | submit "$JOBID5" 1 1 "$LASTJOB" "$theScript" "MergeCPass1 $targetDirectory $currentDefaultOCDB $configFile $runNumber" |
| 1347 | ((numberOfSubmittedCPass1MergingJobs++)) |
| 1348 | LASTJOB=$JOBID5 |
| 1349 | echo |
| 1350 | fi |
| 1351 | |
| 1352 | done |
| 1353 | |
| 1354 | ################################################################################ |
| 1355 | ################################################################################ |
| 1356 | [[ -z $runMakeSummary ]] && runMakeSummary=0 |
| 1357 | if [ $runMakeSummary -eq 1 ]; then |
| fc7e1e45 |
1358 | echo |
| 5dfac970 |
1359 | echo "submit make a summary" |
| 1360 | echo |
| 1361 | |
| 1362 | targetDirectory="${commonOutputPath}" |
| 1363 | mkdir -p $targetDirectory |
| 1364 | mkdir -p $targetDirectory/logs |
| 1365 | [[ ! -f $targetDirectory/${self##*/} ]] && cp -f $self $targetDirectory |
| 1366 | theScript="$targetDirectory/${self##*/}" |
| 1367 | submit "$JOBID6" 1 1 "$LASTJOB" "$theScript" "MakeSummary $targetDirectory $configFile" |
| 1368 | fi |
| 1369 | ################################################################################ |
| 1370 | |
| 1371 | ################################################################################ |
| 1372 | ################################################################################ |
| 1373 | if [ $runMakeQAplots -eq 1 ]; then |
| 1374 | echo |
| 1375 | echo "submit make QA plots" |
| 1376 | echo |
| 1377 | |
| 1378 | ## submit a monitoring job that will wait for a specified number of files to appear somewhere |
| 1379 | targetDirectory="${commonOutputPath}" |
| 1380 | [[ ! -f $targetDirectory/${self##*/} ]] && cp -f $self $targetDirectory |
| 1381 | theScript="$targetDirectory/${self##*/}" |
| 1382 | echo submit "$JOBID5wait 1 1 $theScript WaitForOutput ${commonOutputPath} 'merge.cpass1.run*.done' $numberOfSubmittedCPass1MergingJobs $maxSecondsToWait '-maxdepth 1'" |
| 1383 | submit "$JOBID5wait" 1 1 "" "$theScript" "WaitForOutput ${commonOutputPath} 'merge.cpass1.run*.done' $numberOfSubmittedCPass1MergingJobs $maxSecondsToWait '-maxdepth 1'" |
| 1384 | LASTJOB=$JOBID5wait |
| 1385 | |
| 1386 | targetDirectory="${commonOutputPath}/QAplots/" |
| 1387 | [[ -d $targetDirectory ]] && rm -rf $targetDirectory/* |
| 1388 | mkdir -p $targetDirectory |
| 1389 | mkdir -p $targetDirectory/logs |
| 1390 | qaFilesDirectory="${commonOutputPath}" |
| 1391 | [[ ! -f $targetDirectory/${self##*/} ]] && cp -f $self $targetDirectory |
| 1392 | theScript="$targetDirectory/${self##*/}" |
| 1393 | |
| 1394 | echo submit "$JOBID7" 1 1 "$LASTJOB" "$theScript" "CreateQAplots QAplots CPass1 $targetDirectory $qaFilesDirectory $qaPlotsScript $configFile" |
| 1395 | submit "$JOBID7" 1 1 "$LASTJOB" "$theScript" "CreateQAplots QAplots CPass1 $targetDirectory $qaFilesDirectory $qaPlotsScript $configFile" |
| 1396 | LASTJOB=$JOBID7 |
| fc7e1e45 |
1397 | fi |
| 5dfac970 |
1398 | |
| 1399 | #restore stdout |
| 1400 | exec 1>&7 7>&- |
| 1401 | echo "jobs submitted." |
| fc7e1e45 |
1402 | } |
| 1403 | |
| 1404 | main "$@" |
git://git.uio.no / u / mrichter / AliRoot.git / blame