gatk-3.8/public/scala/src/org/broadinstitute/sting/queue/util
Mark DePristo 9eec33ec3b Complete GSA-497: Let Queue write out runInfo on the fly, after each job group finishes running
-- Queue will incrementally now write out its jobReport.txt file whenever jobs finish running (FAIL or DONE)
-- This makes it far easier to track what's going on, or to analyze incrementally performance results coming out of Queue
-- Generally cleaned up the QJobsReporting code, creating a new clean class QJobsReporter that holds all of the information on what to do log and where to put into, which was previously scattered in QCommandLine and QJobReport
2012-08-21 14:44:18 -04:00
..
CollectionUtils.scala Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
EmailMessage.scala No more "Q-<pid>@<host>". Generated log file names now use the first output + ".out" (ex. my.vcf.out) or the name of the first QScript plus the order the function was added (ex. MyScript-1.out). The same function added twice with the same outputs will now have the same default logs, meaning the 2nd instance of the function won't be added to the graph twice. 2012-01-08 12:11:55 -05:00
EmailSettings.scala Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
Logging.scala Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
PrimitiveOptionConversions.scala Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
QJobReport.scala Complete GSA-497: Let Queue write out runInfo on the fly, after each job group finishes running 2012-08-21 14:44:18 -04:00
QJobsReporter.scala Complete GSA-497: Let Queue write out runInfo on the fly, after each job group finishes running 2012-08-21 14:44:18 -04:00
QScriptUtils.scala fixing bug with fastq extension 2012-01-24 11:02:15 -05:00
ReflectionUtils.scala No more "Q-<pid>@<host>". Generated log file names now use the first output + ".out" (ex. my.vcf.out) or the name of the first QScript plus the order the function was added (ex. MyScript-1.out). The same function added twice with the same outputs will now have the same default logs, meaning the 2nd instance of the function won't be added to the graph twice. 2012-01-08 12:11:55 -05:00
Retry.scala Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
RetryException.scala Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ScalaCompoundArgumentTypeDescriptor.scala Refactored parsing of Rod/IntervalBinding. Queue S/G now uses all interval arguments passed to CommandLineGATK QFunctions including support for BED/tribble types, XL, ISR, and padding. 2012-06-27 01:15:22 -04:00
ShellUtils.scala Queue now properly escapes all shell arguments in generated shell scripts 2011-12-01 18:13:44 -05:00
StringFileConversions.scala No more "Q-<pid>@<host>". Generated log file names now use the first output + ".out" (ex. my.vcf.out) or the name of the first QScript plus the order the function was added (ex. MyScript-1.out). The same function added twice with the same outputs will now have the same default logs, meaning the 2nd instance of the function won't be added to the graph twice. 2012-01-08 12:11:55 -05:00
SystemUtils.scala No more "Q-<pid>@<host>". Generated log file names now use the first output + ".out" (ex. my.vcf.out) or the name of the first QScript plus the order the function was added (ex. MyScript-1.out). The same function added twice with the same outputs will now have the same default logs, meaning the 2nd instance of the function won't be added to the graph twice. 2012-01-08 12:11:55 -05:00
TextFormatUtils.scala Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
VCF_BAM_utilities.scala Implemented getSamplesFromVCF. 2012-05-03 21:57:57 -04:00