Mauricio Carneiro 0c17709223 First implementation of a generic 'bundled' Data Processing Pipeline for germline and cancer. ... not ready for prime time yet!		2012-10-10 13:19:03 -04:00
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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	First implementation of a generic 'bundled' Data Processing Pipeline for germline and cancer.	2012-10-10 13:19:03 -04:00
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