diff --git a/QoRTs-vignette.pdf b/QoRTs-vignette.pdf index ab5a89c..c397395 100644 Binary files a/QoRTs-vignette.pdf and b/QoRTs-vignette.pdf differ diff --git a/QoRTs.jar b/QoRTs.jar index c93bf72..0a960e9 100644 Binary files a/QoRTs.jar and b/QoRTs.jar differ diff --git a/QoRTs_1.3.0.tar.gz b/QoRTs_1.3.0.tar.gz new file mode 100644 index 0000000..816b290 Binary files /dev/null and b/QoRTs_1.3.0.tar.gz differ diff --git a/README.md b/README.md index 1d01656..63178a3 100644 --- a/README.md +++ b/README.md @@ -1,5 +1,5 @@ -# QoRTs v1.2.42 -(Compiled Fri Jun 2 12:23:55 EDT 2017) +# QoRTs v1.3.0 +(Compiled Fri Oct 20 11:56:37 EDT 2017) The [QoRTs software package](http://hartleys.github.io/QoRTs/) is a fast, efficient, and portable multifunction toolkit designed to assist in diff --git a/example-walkthrough.pdf b/example-walkthrough.pdf index 08bf239..0db6641 100644 Binary files a/example-walkthrough.pdf and b/example-walkthrough.pdf differ diff --git a/src/HartleyUtils/.cache-main b/src/HartleyUtils/.cache-main index 0f85539..19d3eee 100644 --- a/src/HartleyUtils/.cache-main +++ b/src/HartleyUtils/.cache-main @@ -27,7 +27,7 @@ name hashing: 1 items 0 -> false products: -1309 items +1313 items C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$1.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$10.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$11.class @@ -87,9 +87,14 @@ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamT C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom$$anonfun$countBlocks$2.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom$.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom.class -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig$$anonfun$writeOutput$1.class -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig$$anonfun$writeOutput$2.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig$$anonfun$writeOutput$5.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig$$anonfun$writeOutput$6.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$1.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$2.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$3.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$4.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$wiggleMaker.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\convertSoftToHardClipping.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\convertSoftToHardClipping$$anonfun$run$1$$anonfun$1.class @@ -500,16 +505,15 @@ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\fileUtils. C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\fileUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\fileUtils.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer.class -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$4.class -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$switchToChrom$5.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$5.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$switchToChrom$3.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$1.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$2.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$3.class +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$4.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$1.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$2.class -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$3.class -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$4.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets$$anonfun$printGenomicArrayToFile$1.class C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets$$anonfun$printGenomicArrayToFile$2.class @@ -1978,7 +1982,7 @@ inheritance internal dependencies: inheritance external dependencies: 0 items class names: -1309 items +1313 items C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> fileConversionUtils.addNovelSplices C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> fileConversionUtils.addNovelSplices$ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> fileConversionUtils.addNovelSplices$$anonfun$1 @@ -2040,8 +2044,13 @@ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamT C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$Chrom$$anonfun$countBlocks$1 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$Chrom$$anonfun$countBlocks$2 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWig -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWig$$anonfun$writeOutput$1 -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWig$$anonfun$writeOutput$2 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWig$$anonfun$writeOutput$5 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWig$$anonfun$writeOutput$6 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWigReservoirSample +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$1 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$2 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$3 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$4 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> fileConversionUtils.bamToWiggle$wiggleMaker C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\convertSoftToHardClipping.scala -> fileConversionUtils.convertSoftToHardClipping C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\convertSoftToHardClipping.scala -> fileConversionUtils.convertSoftToHardClipping$ @@ -2453,16 +2462,15 @@ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnn C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_FAList -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$4 -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$switchToChrom$5 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$5 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$switchToChrom$3 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$1 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$2 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$3 +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$4 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$1 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$2 -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$3 -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$4 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$GenomicArrayOfSets C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$GenomicArrayOfSets$ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> internalUtils.genomicAnnoUtils$GenomicArrayOfSets$$anonfun$printGenomicArrayToFile$1 @@ -3291,71 +3299,76 @@ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\runner\runner.scala -> r used names: 0 items product stamps: -1309 items -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$1.class -> lastModified(1492098055978) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$10.class -> lastModified(1492098055982) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$11.class -> lastModified(1492098055985) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$12$$anonfun$13.class -> lastModified(1492098055992) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$12.class -> lastModified(1492098055989) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$14.class -> lastModified(1492098055996) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$16.class -> lastModified(1492098055999) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$17.class -> lastModified(1492098056003) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$18.class -> lastModified(1492098056006) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$19.class -> lastModified(1492098056009) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$2.class -> lastModified(1492098056014) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$3.class -> lastModified(1492098056017) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$4.class -> lastModified(1492098056020) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$5.class -> lastModified(1492098056023) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6$$anonfun$apply$1.class -> lastModified(1492098056029) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6$$anonfun$apply$2.class -> lastModified(1492098056033) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6$$anonfun$apply$3.class -> lastModified(1492098056036) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6$$anonfun$apply$4.class -> lastModified(1492098056039) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6.class -> lastModified(1492098056026) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$7.class -> lastModified(1492098056042) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$8.class -> lastModified(1492098056045) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$9.class -> lastModified(1492098056048) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$buildGenomicArrayOfSets_fromGtf$1.class -> lastModified(1492098056053) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeJunctionCountsWithNovel$1.class -> lastModified(1492098056061) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeJunctionCountsWithNovel$2.class -> lastModified(1492098056064) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeJunctionCountsWithNovel$3.class -> lastModified(1492098056068) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeJunctionCountsWithNovel$4.class -> lastModified(1492098056071) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeOrphanJunctionCounts$1.class -> lastModified(1492098056074) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeOrphanJunctionCounts$2.class -> lastModified(1492098056078) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$1$$anonfun$apply$mcVI$sp$1.class -> lastModified(1492098056084) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$1.class -> lastModified(1492098056081) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$10$$anonfun$apply$6.class -> lastModified(1492098056089) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$10.class -> lastModified(1492098056087) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$11.class -> lastModified(1492098056092) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$2.class -> lastModified(1492098056096) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$3.class -> lastModified(1492098056098) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$4.class -> lastModified(1492098056101) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$5$$anonfun$15.class -> lastModified(1492098056106) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$5.class -> lastModified(1492098056104) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$6.class -> lastModified(1492098056109) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$7.class -> lastModified(1492098056111) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$8$$anonfun$apply$5.class -> lastModified(1492098056117) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$8.class -> lastModified(1492098056114) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$9.class -> lastModified(1492098056119) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$.class -> lastModified(1492098055975) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$mergeNovelSplices.class -> lastModified(1492098056123) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices.class -> lastModified(1492098055967) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$genChrom$1.class -> lastModified(1492098056138) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$getOverlappedPairBlocks$1.class -> lastModified(1492098056142) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$getReadBlocks$1.class -> lastModified(1492098056144) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$run$1.class -> lastModified(1492098056148) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$runOnFile2$1.class -> lastModified(1492098056151) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$runOnFile2$2.class -> lastModified(1492098056155) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$writeChrom$1.class -> lastModified(1492098056158) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$.class -> lastModified(1492098056133) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom$$anonfun$countBlocks$1.class -> lastModified(1492098056169) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom$$anonfun$countBlocks$2.class -> lastModified(1492098056172) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom$.class -> lastModified(1492098056166) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom.class -> lastModified(1492098056162) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig$$anonfun$writeOutput$1.class -> lastModified(1492098056179) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig$$anonfun$writeOutput$2.class -> lastModified(1492098056182) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig.class -> lastModified(1492098056176) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$wiggleMaker.class -> lastModified(1492098056185) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle.class -> lastModified(1492098056127) +1313 items +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$1.class -> lastModified(1508511148983) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$10.class -> lastModified(1508511148988) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$11.class -> lastModified(1508511148993) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$12$$anonfun$13.class -> lastModified(1508511149012) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$12.class -> lastModified(1508511149005) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$14.class -> lastModified(1508511149017) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$16.class -> lastModified(1508511149073) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$17.class -> lastModified(1508511149085) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$18.class -> lastModified(1508511149089) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$19.class -> lastModified(1508511149092) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$2.class -> lastModified(1508511149097) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$3.class -> lastModified(1508511149101) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$4.class -> lastModified(1508511149109) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$5.class -> lastModified(1508511149115) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6$$anonfun$apply$1.class -> lastModified(1508511149130) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6$$anonfun$apply$2.class -> lastModified(1508511149134) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6$$anonfun$apply$3.class -> lastModified(1508511149138) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6$$anonfun$apply$4.class -> lastModified(1508511149141) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$6.class -> lastModified(1508511149121) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$7.class -> lastModified(1508511149144) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$8.class -> lastModified(1508511149148) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$9.class -> lastModified(1508511149156) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$buildGenomicArrayOfSets_fromGtf$1.class -> lastModified(1508511149161) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeJunctionCountsWithNovel$1.class -> lastModified(1508511149165) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeJunctionCountsWithNovel$2.class -> lastModified(1508511149169) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeJunctionCountsWithNovel$3.class -> lastModified(1508511149175) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeJunctionCountsWithNovel$4.class -> lastModified(1508511149183) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeOrphanJunctionCounts$1.class -> lastModified(1508511149191) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$makeOrphanJunctionCounts$2.class -> lastModified(1508511149198) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$1$$anonfun$apply$mcVI$sp$1.class -> lastModified(1508511149210) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$1.class -> lastModified(1508511149204) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$10$$anonfun$apply$6.class -> lastModified(1508511149219) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$10.class -> lastModified(1508511149215) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$11.class -> lastModified(1508511149226) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$2.class -> lastModified(1508511149232) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$3.class -> lastModified(1508511149238) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$4.class -> lastModified(1508511149243) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$5$$anonfun$15.class -> lastModified(1508511149256) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$5.class -> lastModified(1508511149250) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$6.class -> lastModified(1508511149260) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$7.class -> lastModified(1508511149265) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$8$$anonfun$apply$5.class -> lastModified(1508511149280) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$8.class -> lastModified(1508511149272) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$$anonfun$mergeNovelHelper$9.class -> lastModified(1508511149285) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$.class -> lastModified(1508511148965) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices$mergeNovelSplices.class -> lastModified(1508511149297) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\addNovelSplices.class -> lastModified(1508511148819) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$genChrom$1.class -> lastModified(1508511291592) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$getOverlappedPairBlocks$1.class -> lastModified(1508511291596) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$getReadBlocks$1.class -> lastModified(1508511291599) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$run$1.class -> lastModified(1508511291603) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$runOnFile2$1.class -> lastModified(1508511291607) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$runOnFile2$2.class -> lastModified(1508511291612) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$$anonfun$writeChrom$1.class -> lastModified(1508511291616) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$.class -> lastModified(1508511291583) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom$$anonfun$countBlocks$1.class -> lastModified(1508511291634) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom$$anonfun$countBlocks$2.class -> lastModified(1508511291639) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom$.class -> lastModified(1508511291621) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$Chrom.class -> lastModified(1508511291630) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig$$anonfun$writeOutput$5.class -> lastModified(1508511291653) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig$$anonfun$writeOutput$6.class -> lastModified(1508511291657) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWig.class -> lastModified(1508511291648) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$1.class -> lastModified(1508511291678) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$2.class -> lastModified(1508511291686) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$3.class -> lastModified(1508511291692) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$4.class -> lastModified(1508511291698) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$QcBamToWigReservoirSample.class -> lastModified(1508511291668) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle$wiggleMaker.class -> lastModified(1508511291706) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\bamToWiggle.class -> lastModified(1508511291569) C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\convertSoftToHardClipping$$anonfun$run$1$$anonfun$1.class -> lastModified(1492098056323) C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\convertSoftToHardClipping$$anonfun$run$1$$anonfun$apply$1.class -> lastModified(1492098056325) C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\convertSoftToHardClipping$$anonfun$run$1$$anonfun$apply$2.class -> lastModified(1492098056328) @@ -3546,36 +3559,36 @@ C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\mergeSpliceBed$ C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\mergeSpliceBed$.class -> lastModified(1492098056880) C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\mergeSpliceBed$merger.class -> lastModified(1492098056934) C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\mergeSpliceBed.class -> lastModified(1492098056875) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$1.class -> lastModified(1492098056948) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$10.class -> lastModified(1492098056952) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$2.class -> lastModified(1492098056955) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$3.class -> lastModified(1492098056958) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$4.class -> lastModified(1492098056961) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$5$$anonfun$6.class -> lastModified(1492098056970) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$5.class -> lastModified(1492098056967) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$7.class -> lastModified(1492098056974) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$8$$anonfun$9.class -> lastModified(1492098056981) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$8.class -> lastModified(1492098056979) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildFeatures2$1$$anonfun$apply$6.class -> lastModified(1492098056992) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildFeatures2$1.class -> lastModified(1492098056984) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGeneSets$1.class -> lastModified(1492098056999) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGeneSets$2$$anonfun$apply$4.class -> lastModified(1492098057012) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGeneSets$2$$anonfun$apply$5.class -> lastModified(1492098057014) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGeneSets$2.class -> lastModified(1492098057009) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGenomicArrayOfSets_Tx_and_Map$1.class -> lastModified(1492098057018) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$1.class -> lastModified(1492098057020) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$2$$anonfun$apply$1.class -> lastModified(1492098057025) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$2$$anonfun$apply$2$$anonfun$apply$3.class -> lastModified(1492098057029) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$2$$anonfun$apply$2.class -> lastModified(1492098057027) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$2.class -> lastModified(1492098057022) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildTxCdsSpanMap$1.class -> lastModified(1492098057032) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$getFlatGtfIterator$1.class -> lastModified(1492098057034) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$getFlatGtfIterator$2.class -> lastModified(1492098057037) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$writeFlatGtf_DEXSeqFormat$1.class -> lastModified(1492098057040) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$writeFlatGtf_stdFormat$1.class -> lastModified(1492098057042) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$.class -> lastModified(1492098056945) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$prepFlatGtfFile_runner.class -> lastModified(1492098057044) -C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile.class -> lastModified(1492098056938) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$1.class -> lastModified(1508511461038) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$10.class -> lastModified(1508511461044) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$2.class -> lastModified(1508511461048) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$3.class -> lastModified(1508511461053) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$4.class -> lastModified(1508511461058) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$5$$anonfun$6.class -> lastModified(1508511461071) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$5.class -> lastModified(1508511461066) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$7.class -> lastModified(1508511461078) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$8$$anonfun$9.class -> lastModified(1508511461100) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$8.class -> lastModified(1508511461090) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildFeatures2$1$$anonfun$apply$6.class -> lastModified(1508511461122) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildFeatures2$1.class -> lastModified(1508511461111) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGeneSets$1.class -> lastModified(1508511461129) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGeneSets$2$$anonfun$apply$4.class -> lastModified(1508511461144) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGeneSets$2$$anonfun$apply$5.class -> lastModified(1508511461148) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGeneSets$2.class -> lastModified(1508511461136) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildGenomicArrayOfSets_Tx_and_Map$1.class -> lastModified(1508511461159) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$1.class -> lastModified(1508511461163) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$2$$anonfun$apply$1.class -> lastModified(1508511461174) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$2$$anonfun$apply$2$$anonfun$apply$3.class -> lastModified(1508511461185) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$2$$anonfun$apply$2.class -> lastModified(1508511461179) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildSpliceJunctionMap$2.class -> lastModified(1508511461168) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$buildTxCdsSpanMap$1.class -> lastModified(1508511461191) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$getFlatGtfIterator$1.class -> lastModified(1508511461195) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$getFlatGtfIterator$2.class -> lastModified(1508511461201) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$writeFlatGtf_DEXSeqFormat$1.class -> lastModified(1508511461206) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$$anonfun$writeFlatGtf_stdFormat$1.class -> lastModified(1508511461210) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$.class -> lastModified(1508511461027) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile$prepFlatGtfFile_runner.class -> lastModified(1508511461223) +C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\prepFlatGtfFile.class -> lastModified(1508511460913) C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\runFeatureComboCt$$anonfun$1.class -> lastModified(1492098057073) C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\runFeatureComboCt$$anonfun$2.class -> lastModified(1492098057076) C:\Users\hartleys\workspace\HartleyUtils\bin\fileConversionUtils\runFeatureComboCt$$anonfun$3$$anonfun$apply$1.class -> lastModified(1492098057083) @@ -3682,70 +3695,70 @@ C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commandLineUI$UnaryAr C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commandLineUI$UnaryArgument$.class -> lastModified(1492098057750) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commandLineUI$UnaryArgument.class -> lastModified(1492098057746) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commandLineUI.class -> lastModified(1492098057562) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$1$$anonfun$calcBufferLimit$1.class -> lastModified(1492098057840) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$1.class -> lastModified(1492098057837) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$2.class -> lastModified(1492098057850) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$3.class -> lastModified(1492098057860) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$4.class -> lastModified(1492098057868) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$5.class -> lastModified(1492098057878) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$1.class -> lastModified(1492098057881) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$10.class -> lastModified(1492098057884) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$11.class -> lastModified(1492098057887) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$12.class -> lastModified(1492098057890) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$13.class -> lastModified(1492098057893) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$14$$anonfun$apply$3.class -> lastModified(1492098057903) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$14.class -> lastModified(1492098057897) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$15.class -> lastModified(1492098057906) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$16.class -> lastModified(1492098057909) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$17.class -> lastModified(1492098057912) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$18.class -> lastModified(1492098057916) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$19.class -> lastModified(1492098057920) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$2.class -> lastModified(1492098057923) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$20.class -> lastModified(1492098057926) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$21.class -> lastModified(1492098057928) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$22.class -> lastModified(1492098057937) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$23.class -> lastModified(1492098057940) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$24.class -> lastModified(1492098057942) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$25.class -> lastModified(1492098057944) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$3.class -> lastModified(1492098057947) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$4$$anonfun$apply$1.class -> lastModified(1492098057953) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$4.class -> lastModified(1492098057950) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$5.class -> lastModified(1492098057955) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$6$$anonfun$apply$2.class -> lastModified(1492098057960) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$6.class -> lastModified(1492098057958) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$7.class -> lastModified(1492098057963) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$8.class -> lastModified(1492098057965) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$9.class -> lastModified(1492098057967) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$complementSequenceString$1.class -> lastModified(1492098057969) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$getAminoAcidFromSeq$1.class -> lastModified(1492098057972) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$getSRPairIter_singleEnd$1.class -> lastModified(1492098057974) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$initSamRecordIterator$1.class -> lastModified(1492098057977) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$samRecordPairIterator_resorted$1.class -> lastModified(1492098057979) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$samRecordPairIterator_unsorted$1.class -> lastModified(1492098057981) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$samRecordPairIterator_withMulti$1.class -> lastModified(1492098057984) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$samRecordPairIterator_withMulti_singleEnd$1.class -> lastModified(1492098057986) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$.class -> lastModified(1492098057832) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigarHolder$$anonfun$cigOps$1.class -> lastModified(1492098058000) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigarHolder$$anonfun$cigOps$2.class -> lastModified(1492098058003) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigarHolder$.class -> lastModified(1492098057994) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigarHolder.class -> lastModified(1492098057997) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigOp$.class -> lastModified(1492098057992) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigOp.class -> lastModified(1492098057990) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$EmptyFastqReader.class -> lastModified(1492098058009) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqLine$$anonfun$check$1.class -> lastModified(1492098058021) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqLine$$anonfun$qualVector$1.class -> lastModified(1492098058026) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqLine$.class -> lastModified(1492098058012) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqLine.class -> lastModified(1492098058018) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqReader$.class -> lastModified(1492098058039) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqReader.class -> lastModified(1492098058035) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$GenomicInterval$.class -> lastModified(1492098058056) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$GenomicInterval.class -> lastModified(1492098058050) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$GIVOrdering$class.class -> lastModified(1492098058046) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$GIVOrdering.class -> lastModified(1492098058042) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$PairIteratorWithLimit.class -> lastModified(1492098058066) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$SamFileAttributes$.class -> lastModified(1492098058070) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$SamFileAttributes.class -> lastModified(1492098058082) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils.class -> lastModified(1492098057816) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$1$$anonfun$calcBufferLimit$1.class -> lastModified(1508512030519) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$1.class -> lastModified(1508512030514) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$2.class -> lastModified(1508512030557) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$3.class -> lastModified(1508512030580) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$4.class -> lastModified(1508512030625) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anon$5.class -> lastModified(1508512030652) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$1.class -> lastModified(1508512030656) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$10.class -> lastModified(1508512030661) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$11.class -> lastModified(1508512030664) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$12.class -> lastModified(1508512030668) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$13.class -> lastModified(1508512030672) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$14$$anonfun$apply$3.class -> lastModified(1508512030680) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$14.class -> lastModified(1508512030676) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$15.class -> lastModified(1508512030685) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$16.class -> lastModified(1508512030689) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$17.class -> lastModified(1508512030693) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$18.class -> lastModified(1508512030697) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$19.class -> lastModified(1508512030702) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$2.class -> lastModified(1508512030706) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$20.class -> lastModified(1508512030711) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$21.class -> lastModified(1508512030715) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$22.class -> lastModified(1508512030720) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$23.class -> lastModified(1508512030727) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$24.class -> lastModified(1508512030736) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$25.class -> lastModified(1508512030740) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$3.class -> lastModified(1508512030744) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$4$$anonfun$apply$1.class -> lastModified(1508512030765) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$4.class -> lastModified(1508512030752) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$5.class -> lastModified(1508512030769) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$6$$anonfun$apply$2.class -> lastModified(1508512030781) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$6.class -> lastModified(1508512030775) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$7.class -> lastModified(1508512030788) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$8.class -> lastModified(1508512030794) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$9.class -> lastModified(1508512030798) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$complementSequenceString$1.class -> lastModified(1508512030802) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$getAminoAcidFromSeq$1.class -> lastModified(1508512030807) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$getSRPairIter_singleEnd$1.class -> lastModified(1508512030811) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$initSamRecordIterator$1.class -> lastModified(1508512030821) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$samRecordPairIterator_resorted$1.class -> lastModified(1508512030824) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$samRecordPairIterator_unsorted$1.class -> lastModified(1508512030827) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$samRecordPairIterator_withMulti$1.class -> lastModified(1508512030831) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$$anonfun$samRecordPairIterator_withMulti_singleEnd$1.class -> lastModified(1508512030833) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$.class -> lastModified(1508512030506) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigarHolder$$anonfun$cigOps$1.class -> lastModified(1508512030865) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigarHolder$$anonfun$cigOps$2.class -> lastModified(1508512030869) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigarHolder$.class -> lastModified(1508512030860) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigarHolder.class -> lastModified(1508512030856) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigOp$.class -> lastModified(1508512030849) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$CigOp.class -> lastModified(1508512030845) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$EmptyFastqReader.class -> lastModified(1508512030886) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqLine$$anonfun$check$1.class -> lastModified(1508512030904) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqLine$$anonfun$qualVector$1.class -> lastModified(1508512030908) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqLine$.class -> lastModified(1508512030900) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqLine.class -> lastModified(1508512030896) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqReader$.class -> lastModified(1508512030925) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$FastqReader.class -> lastModified(1508512030921) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$GenomicInterval$.class -> lastModified(1508512030938) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$GenomicInterval.class -> lastModified(1508512030947) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$GIVOrdering$class.class -> lastModified(1508512030932) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$GIVOrdering.class -> lastModified(1508512030928) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$PairIteratorWithLimit.class -> lastModified(1508512030958) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$SamFileAttributes$.class -> lastModified(1508512030971) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils$SamFileAttributes.class -> lastModified(1508512030967) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\commonSeqUtils.class -> lastModified(1508512030448) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\fileUtils$$anon$1.class -> lastModified(1492098058103) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\fileUtils$$anonfun$1.class -> lastModified(1492098058106) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\fileUtils$$anonfun$2.class -> lastModified(1492098058109) @@ -3762,57 +3775,56 @@ C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\fileUtils$DocWriterUt C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\fileUtils$DocWriterUtil.class -> lastModified(1492098058134) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\fileUtils$SummaryWriter.class -> lastModified(1492098058145) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\fileUtils.class -> lastModified(1492098058087) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$.class -> lastModified(1492098058158) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer.class -> lastModified(1492098058161) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$4.class -> lastModified(1492098058166) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$switchToChrom$5.class -> lastModified(1492098058169) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList.class -> lastModified(1492098058164) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$1.class -> lastModified(1492098058175) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$2.class -> lastModified(1492098058178) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$3.class -> lastModified(1492098058181) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$1.class -> lastModified(1492098058183) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$2.class -> lastModified(1492098058186) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$3.class -> lastModified(1492098058189) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$4.class -> lastModified(1492098058192) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA.class -> lastModified(1492098058172) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets$$anonfun$printGenomicArrayToFile$1.class -> lastModified(1492098058201) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets$$anonfun$printGenomicArrayToFile$2.class -> lastModified(1492098058204) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets$.class -> lastModified(1492098058195) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets.class -> lastModified(1492098058197) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Generic$$anonfun$finalizeStepVectors$1.class -> lastModified(1492098058212) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Generic$$anonfun$getSteps$1$$anonfun$apply$1.class -> lastModified(1492098058216) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Generic$$anonfun$getSteps$1.class -> lastModified(1492098058214) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Generic.class -> lastModified(1492098058209) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Stranded$$anonfun$finalizeStepVectors$2.class -> lastModified(1492098058222) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Stranded$$anonfun$getSteps$2$$anonfun$apply$2.class -> lastModified(1492098058228) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Stranded$$anonfun$getSteps$2.class -> lastModified(1492098058225) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Stranded.class -> lastModified(1492098058220) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Unstranded$$anonfun$finalizeStepVectors$3.class -> lastModified(1492098058242) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Unstranded$$anonfun$getSteps$3$$anonfun$apply$3.class -> lastModified(1492098058250) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Unstranded$$anonfun$getSteps$3.class -> lastModified(1492098058246) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Unstranded.class -> lastModified(1492098058232) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicSpliceJunctionSet$.class -> lastModified(1492098058253) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicSpliceJunctionSet.class -> lastModified(1492098058257) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicStepVector$$anon$1.class -> lastModified(1492098058270) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicStepVector.class -> lastModified(1492098058260) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector$$anon$2.class -> lastModified(1492098058286) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector$$anon$3.class -> lastModified(1492098058295) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector$$anonfun$addInterval$1.class -> lastModified(1492098058298) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector$.class -> lastModified(1492098058273) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector.class -> lastModified(1492098058278) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils.class -> lastModified(1492098058155) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anon$1.class -> lastModified(1492098058314) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anon$2.class -> lastModified(1492098058320) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anon$3.class -> lastModified(1492098058329) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$1.class -> lastModified(1492098058332) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$getAlignedBasePositionsFromRead$1.class -> lastModified(1492098058335) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$getAlignedBasePositionsFromRead$2.class -> lastModified(1492098058338) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$mergeGenomicIntervalSets$1.class -> lastModified(1492098058341) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$truncateCigarBlocks$1.class -> lastModified(1492098058344) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$.class -> lastModified(1492098058307) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$CigarBlock$.class -> lastModified(1492098058352) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$CigarBlock.class -> lastModified(1492098058349) -C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils.class -> lastModified(1492098058302) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$.class -> lastModified(1508512098902) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer.class -> lastModified(1508512098910) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$5.class -> lastModified(1508512098918) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList$$anonfun$switchToChrom$3.class -> lastModified(1508512098921) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_FAList.class -> lastModified(1508512098915) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$1.class -> lastModified(1508512098929) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$2.class -> lastModified(1508512098933) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$3.class -> lastModified(1508512098936) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$4.class -> lastModified(1508512098938) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$1.class -> lastModified(1508512098942) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA$$anonfun$switchToChrom$2.class -> lastModified(1508512098944) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$EfficientGenomeSeqContainer_MFA.class -> lastModified(1508512098926) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets$$anonfun$printGenomicArrayToFile$1.class -> lastModified(1508512098954) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets$$anonfun$printGenomicArrayToFile$2.class -> lastModified(1508512098958) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets$.class -> lastModified(1508512098948) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets.class -> lastModified(1508512098951) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Generic$$anonfun$finalizeStepVectors$1.class -> lastModified(1508512098968) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Generic$$anonfun$getSteps$1$$anonfun$apply$1.class -> lastModified(1508512098974) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Generic$$anonfun$getSteps$1.class -> lastModified(1508512098971) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Generic.class -> lastModified(1508512098964) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Stranded$$anonfun$finalizeStepVectors$2.class -> lastModified(1508512098985) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Stranded$$anonfun$getSteps$2$$anonfun$apply$2.class -> lastModified(1508512098991) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Stranded$$anonfun$getSteps$2.class -> lastModified(1508512098988) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Stranded.class -> lastModified(1508512098981) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Unstranded$$anonfun$finalizeStepVectors$3.class -> lastModified(1508512099000) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Unstranded$$anonfun$getSteps$3$$anonfun$apply$3.class -> lastModified(1508512099007) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Unstranded$$anonfun$getSteps$3.class -> lastModified(1508512099004) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicArrayOfSets_Unstranded.class -> lastModified(1508512098996) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicSpliceJunctionSet$.class -> lastModified(1508512099012) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicSpliceJunctionSet.class -> lastModified(1508512099017) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicStepVector$$anon$1.class -> lastModified(1508512099031) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$GenomicStepVector.class -> lastModified(1508512099021) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector$$anon$2.class -> lastModified(1508512099055) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector$$anon$3.class -> lastModified(1508512099067) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector$$anonfun$addInterval$1.class -> lastModified(1508512099070) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector$.class -> lastModified(1508512099035) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils$InternalStepVector.class -> lastModified(1508512099042) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicAnnoUtils.class -> lastModified(1508512098897) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anon$1.class -> lastModified(1508512133029) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anon$2.class -> lastModified(1508512133042) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anon$3.class -> lastModified(1508512133056) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$1.class -> lastModified(1508512133059) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$getAlignedBasePositionsFromRead$1.class -> lastModified(1508512133063) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$getAlignedBasePositionsFromRead$2.class -> lastModified(1508512133066) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$mergeGenomicIntervalSets$1.class -> lastModified(1508512133070) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$$anonfun$truncateCigarBlocks$1.class -> lastModified(1508512133074) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$.class -> lastModified(1508512133013) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$CigarBlock$.class -> lastModified(1508512133083) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils$CigarBlock.class -> lastModified(1508512133079) +C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\genomicUtils.class -> lastModified(1508512133005) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\GtfTool$.class -> lastModified(1492098057129) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\GtfTool$defaultGtfCodes$.class -> lastModified(1492098057321) C:\Users\hartleys\workspace\HartleyUtils\bin\internalUtils\GtfTool$FlatGtfLine$$anonfun$5.class -> lastModified(1492098057139) @@ -4036,24 +4048,24 @@ C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcChromCount$$anonfun$2.cla C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcChromCount$$anonfun$writeOutput$1.class -> lastModified(1492098058800) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcChromCount$.class -> lastModified(1492098058789) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcChromCount.class -> lastModified(1492098058793) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$1$$anonfun$apply$mcVI$sp$2.class -> lastModified(1492098058813) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$1.class -> lastModified(1492098058810) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$2$$anonfun$apply$mcVI$sp$3.class -> lastModified(1492098058818) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$2.class -> lastModified(1492098058815) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$4.class -> lastModified(1492098058820) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$5.class -> lastModified(1492098058823) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$readCigar$1.class -> lastModified(1492098058825) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$readCigar$2$$anonfun$apply$1.class -> lastModified(1492098058830) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$readCigar$2.class -> lastModified(1492098058827) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writeOpLengthDistribution$1$$anonfun$3.class -> lastModified(1492098058834) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writeOpLengthDistribution$1$$anonfun$apply$2.class -> lastModified(1492098058836) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writeOpLengthDistribution$1$$anonfun$apply$3.class -> lastModified(1492098058839) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writeOpLengthDistribution$1.class -> lastModified(1492098058832) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writePositionOpDistribution$1$$anonfun$apply$mcVI$sp$1.class -> lastModified(1492098058843) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writePositionOpDistribution$1.class -> lastModified(1492098058841) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writePositionOpDistribution$2.class -> lastModified(1492098058845) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$.class -> lastModified(1492098058803) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution.class -> lastModified(1492098058807) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$1$$anonfun$apply$mcVI$sp$2.class -> lastModified(1508512198084) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$1.class -> lastModified(1508512198077) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$2$$anonfun$apply$mcVI$sp$3.class -> lastModified(1508512198091) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$2.class -> lastModified(1508512198088) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$4.class -> lastModified(1508512198095) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$5.class -> lastModified(1508512198099) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$readCigar$1.class -> lastModified(1508512198102) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$readCigar$2$$anonfun$apply$1.class -> lastModified(1508512198110) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$readCigar$2.class -> lastModified(1508512198106) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writeOpLengthDistribution$1$$anonfun$3.class -> lastModified(1508512198118) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writeOpLengthDistribution$1$$anonfun$apply$2.class -> lastModified(1508512198121) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writeOpLengthDistribution$1$$anonfun$apply$3.class -> lastModified(1508512198125) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writeOpLengthDistribution$1.class -> lastModified(1508512198114) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writePositionOpDistribution$1$$anonfun$apply$mcVI$sp$1.class -> lastModified(1508512198134) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writePositionOpDistribution$1.class -> lastModified(1508512198129) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$$anonfun$writePositionOpDistribution$2.class -> lastModified(1508512198138) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution$.class -> lastModified(1508512198073) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarDistribution.class -> lastModified(1508512198062) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarLocusCounts$$anonfun$1.class -> lastModified(1492098058854) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarLocusCounts$$anonfun$2.class -> lastModified(1492098058856) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarLocusCounts$$anonfun$getCigarLocusSetFromRead$1.class -> lastModified(1492098058858) @@ -4066,65 +4078,65 @@ C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarLocusCounts$$anonfun C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarLocusCounts$$anonfun$writeOutput$4.class -> lastModified(1492098058874) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarLocusCounts$.class -> lastModified(1492098058848) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarLocusCounts.class -> lastModified(1492098058852) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$1.class -> lastModified(1492098058889) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$2.class -> lastModified(1492098058891) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$3$$anonfun$apply$1.class -> lastModified(1492098058897) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$3.class -> lastModified(1492098058894) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$4.class -> lastModified(1492098058899) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$5$$anonfun$apply$2.class -> lastModified(1492098058904) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$5.class -> lastModified(1492098058902) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$6.class -> lastModified(1492098058906) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$7$$anonfun$apply$3.class -> lastModified(1492098058910) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$7.class -> lastModified(1492098058908) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$8.class -> lastModified(1492098058912) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$9.class -> lastModified(1492098058915) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$addComparison$1.class -> lastModified(1492098058918) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$compareOverlappingOps$1.class -> lastModified(1492098058920) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$mergeComparisons$1.class -> lastModified(1492098058922) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$mergeComparisons$2.class -> lastModified(1492098058925) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$mergeComparisons$3.class -> lastModified(1492098058927) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$mergeComparisons$4.class -> lastModified(1492098058930) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$.class -> lastModified(1492098058879) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch.class -> lastModified(1492098058886) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$1.class -> lastModified(1492098058943) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$12.class -> lastModified(1492098058945) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$13.class -> lastModified(1492098058947) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$14.class -> lastModified(1492098058949) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$15.class -> lastModified(1492098058953) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$16.class -> lastModified(1492098058955) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$17.class -> lastModified(1492098058958) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$18.class -> lastModified(1492098058961) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$19.class -> lastModified(1492098058963) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$2.class -> lastModified(1492098058966) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$20.class -> lastModified(1492098058968) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$21.class -> lastModified(1492098058971) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$22.class -> lastModified(1492098058974) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$23.class -> lastModified(1492098058976) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$24.class -> lastModified(1492098058979) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$3.class -> lastModified(1492098058982) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$4.class -> lastModified(1492098058985) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$5.class -> lastModified(1492098058988) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$6$$anonfun$7.class -> lastModified(1492098059000) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$6$$anonfun$8.class -> lastModified(1492098059003) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$6.class -> lastModified(1492098058997) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9$$anonfun$10.class -> lastModified(1492098059008) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9$$anonfun$11.class -> lastModified(1492098059011) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9$$anonfun$apply$3.class -> lastModified(1492098059013) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9$$anonfun$apply$4.class -> lastModified(1492098059015) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9.class -> lastModified(1492098059006) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$getExonsFromRead$1$$anonfun$apply$2.class -> lastModified(1492098059021) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$getExonsFromRead$1.class -> lastModified(1492098059018) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$getSpliceJunctionSetFromRead$1.class -> lastModified(1492098059024) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$getSpliceJunctionSetFromRead$2.class -> lastModified(1492098059026) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$runOnReadPair$1.class -> lastModified(1492098059029) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$1.class -> lastModified(1492098059031) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$2.class -> lastModified(1492098059033) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$3.class -> lastModified(1492098059036) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$4$$anonfun$apply$1.class -> lastModified(1492098059041) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$4.class -> lastModified(1492098059038) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$5.class -> lastModified(1492098059044) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$.class -> lastModified(1492098058932) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt.class -> lastModified(1492098058940) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$1.class -> lastModified(1508512230577) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$2.class -> lastModified(1508512230585) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$3$$anonfun$apply$1.class -> lastModified(1508512230597) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$3.class -> lastModified(1508512230591) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$4.class -> lastModified(1508512230600) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$5$$anonfun$apply$2.class -> lastModified(1508512230607) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$5.class -> lastModified(1508512230604) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$6.class -> lastModified(1508512230612) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$7$$anonfun$apply$3.class -> lastModified(1508512230618) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$7.class -> lastModified(1508512230615) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$8.class -> lastModified(1508512230622) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$9.class -> lastModified(1508512230625) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$addComparison$1.class -> lastModified(1508512230628) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$compareOverlappingOps$1.class -> lastModified(1508512230632) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$mergeComparisons$1.class -> lastModified(1508512230635) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$mergeComparisons$2.class -> lastModified(1508512230640) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$mergeComparisons$3.class -> lastModified(1508512230643) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$$anonfun$mergeComparisons$4.class -> lastModified(1508512230647) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch$.class -> lastModified(1508512230572) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcCigarMatch.class -> lastModified(1508512230566) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$1.class -> lastModified(1508512277874) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$12.class -> lastModified(1508512277878) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$13.class -> lastModified(1508512277881) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$14.class -> lastModified(1508512277884) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$15.class -> lastModified(1508512277887) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$16.class -> lastModified(1508512277890) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$17.class -> lastModified(1508512277894) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$18.class -> lastModified(1508512277897) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$19.class -> lastModified(1508512277901) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$2.class -> lastModified(1508512277905) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$20.class -> lastModified(1508512277908) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$21.class -> lastModified(1508512277911) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$22.class -> lastModified(1508512277914) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$23.class -> lastModified(1508512277918) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$24.class -> lastModified(1508512277921) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$3.class -> lastModified(1508512277924) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$4.class -> lastModified(1508512277928) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$5.class -> lastModified(1508512277931) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$6$$anonfun$7.class -> lastModified(1508512277938) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$6$$anonfun$8.class -> lastModified(1508512277941) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$6.class -> lastModified(1508512277935) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9$$anonfun$10.class -> lastModified(1508512277948) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9$$anonfun$11.class -> lastModified(1508512277952) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9$$anonfun$apply$3.class -> lastModified(1508512277955) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9$$anonfun$apply$4.class -> lastModified(1508512277959) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$9.class -> lastModified(1508512277945) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$getExonsFromRead$1$$anonfun$apply$2.class -> lastModified(1508512277966) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$getExonsFromRead$1.class -> lastModified(1508512277963) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$getSpliceJunctionSetFromRead$1.class -> lastModified(1508512277970) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$getSpliceJunctionSetFromRead$2.class -> lastModified(1508512277973) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$runOnReadPair$1.class -> lastModified(1508512277977) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$1.class -> lastModified(1508512277980) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$2.class -> lastModified(1508512277984) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$3.class -> lastModified(1508512277988) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$4$$anonfun$apply$1.class -> lastModified(1508512277996) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$4.class -> lastModified(1508512277991) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$$anonfun$writeOutput$5.class -> lastModified(1508512277999) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt$.class -> lastModified(1508512277855) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcFeatureComboCt.class -> lastModified(1508512277868) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGCContentCount$$anonfun$1.class -> lastModified(1492098059054) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGCContentCount$$anonfun$2$$anonfun$apply$1.class -> lastModified(1492098059059) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGCContentCount$$anonfun$2.class -> lastModified(1492098059056) @@ -4148,150 +4160,150 @@ C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGCContentCount$$anonfun$w C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGCContentCount$$anonfun$writeOutput$9.class -> lastModified(1492098059114) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGCContentCount$.class -> lastModified(1492098059046) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGCContentCount.class -> lastModified(1492098059051) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$1.class -> lastModified(1492098059141) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$10.class -> lastModified(1492098059143) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$11.class -> lastModified(1492098059146) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$12.class -> lastModified(1492098059149) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$13$$anonfun$apply$7$$anonfun$apply$8.class -> lastModified(1492098059157) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$13$$anonfun$apply$7.class -> lastModified(1492098059155) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$13.class -> lastModified(1492098059152) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$14.class -> lastModified(1492098059160) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$15$$anonfun$2.class -> lastModified(1492098059165) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$15.class -> lastModified(1492098059162) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$16$$anonfun$apply$2.class -> lastModified(1492098059170) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$16.class -> lastModified(1492098059167) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$17$$anonfun$apply$9$$anonfun$apply$10.class -> lastModified(1492098059178) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$17$$anonfun$apply$9.class -> lastModified(1492098059176) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$17.class -> lastModified(1492098059173) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$18.class -> lastModified(1492098059181) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$19.class -> lastModified(1492098059183) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$20.class -> lastModified(1492098059186) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$21.class -> lastModified(1492098059188) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$3.class -> lastModified(1492098059191) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$4$$anonfun$apply$4.class -> lastModified(1492098059196) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$4.class -> lastModified(1492098059194) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$5.class -> lastModified(1492098059199) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$6.class -> lastModified(1492098059202) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$7.class -> lastModified(1492098059205) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$8.class -> lastModified(1492098059207) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$9$$anonfun$apply$1.class -> lastModified(1492098059211) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$9.class -> lastModified(1492098059209) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$calculateGeneBodyCoverage$1.class -> lastModified(1492098059213) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$countDeletions$1.class -> lastModified(1492098059216) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$countInsertions$1.class -> lastModified(1492098059219) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$debug_writeGeneBodySpans$1.class -> lastModified(1492098059221) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$debug_writeGeneBodySpans$2$$anonfun$apply$5$$anonfun$apply$6.class -> lastModified(1492098059229) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$debug_writeGeneBodySpans$2$$anonfun$apply$5.class -> lastModified(1492098059226) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$debug_writeGeneBodySpans$2.class -> lastModified(1492098059224) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$featuresNearRead$1$$anonfun$apply$11.class -> lastModified(1492098059234) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$featuresNearRead$1.class -> lastModified(1492098059232) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$1$$anonfun$apply$mcVI$sp$1.class -> lastModified(1492098059238) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$1.class -> lastModified(1492098059236) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$2$$anonfun$apply$mcVI$sp$2.class -> lastModified(1492098059242) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$2.class -> lastModified(1492098059240) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$3.class -> lastModified(1492098059244) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$4.class -> lastModified(1492098059246) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_geneSizeQuartiles$1.class -> lastModified(1492098059248) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_intervalBreaks$1.class -> lastModified(1492098059250) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneLengthMap$1$$anonfun$apply$15.class -> lastModified(1492098059254) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneLengthMap$1.class -> lastModified(1492098059252) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getDeletionSetFromRead$1.class -> lastModified(1492098059256) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getDeletionSetFromRead$2.class -> lastModified(1492098059258) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getIndelSetFromRead$1.class -> lastModified(1492098059260) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getIndelSetFromRead$2.class -> lastModified(1492098059262) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getInsertionSetFromRead$1.class -> lastModified(1492098059264) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getInsertionSetFromRead$2.class -> lastModified(1492098059266) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getPairFeaturesNear$1$$anonfun$apply$13.class -> lastModified(1492098059269) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getPairFeaturesNear$1.class -> lastModified(1492098059268) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getReadFeatures$1$$anonfun$apply$14.class -> lastModified(1492098059274) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getReadFeatures$1.class -> lastModified(1492098059272) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$helper_findReadIntervalCoverage$1.class -> lastModified(1492098059276) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$makeGeneBodyCoverageCountArrays$1.class -> lastModified(1492098059278) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_calculateBreakMap$1.class -> lastModified(1492098059279) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_calculateBreaks$1.class -> lastModified(1492098059281) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_findSpanIntervalCoverage$1$$anonfun$apply$3.class -> lastModified(1492098059285) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_findSpanIntervalCoverage$1.class -> lastModified(1492098059283) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_findSpanIntervalCoverage$2.class -> lastModified(1492098059287) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$readIsNearFeatures$1$$anonfun$apply$12.class -> lastModified(1492098059291) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$readIsNearFeatures$1.class -> lastModified(1492098059289) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$1.class -> lastModified(1492098059293) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$2.class -> lastModified(1492098059295) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$3.class -> lastModified(1492098059297) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$4.class -> lastModified(1492098059299) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$5.class -> lastModified(1492098059301) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$6.class -> lastModified(1492098059303) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeGeneBodyCoverage_genewise$1.class -> lastModified(1492098059305) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$1.class -> lastModified(1492098059307) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$2.class -> lastModified(1492098059309) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$3.class -> lastModified(1492098059311) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4$$anonfun$22.class -> lastModified(1492098059322) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4$$anonfun$23.class -> lastModified(1492098059324) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4$$anonfun$24.class -> lastModified(1492098059326) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4$$anonfun$25.class -> lastModified(1492098059328) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4.class -> lastModified(1492098059320) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$5.class -> lastModified(1492098059330) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$.class -> lastModified(1492098059138) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts.class -> lastModified(1492098059131) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$1.class -> lastModified(1492098059365) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$2.class -> lastModified(1492098059367) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$buildGenomicArrayOfSets_fromGtf$1.class -> lastModified(1492098059370) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$buildGenomicArrayOfSets_fromGtf$2.class -> lastModified(1492098059372) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$generateTargetArray$1.class -> lastModified(1492098059375) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$initializeCounter$1.class -> lastModified(1492098059377) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$makeFlatReader$1.class -> lastModified(1492098059380) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$makeFlatReader$2.class -> lastModified(1492098059382) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getFlatFeatureList$1.class -> lastModified(1492098059384) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getGeneBiotypeMap$1.class -> lastModified(1492098059386) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getGeneBiotypeMap$2.class -> lastModified(1492098059389) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getGeneLengthMap$1$$anonfun$apply$2.class -> lastModified(1492098059395) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getGeneLengthMap$1.class -> lastModified(1492098059391) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$helper_calculateGeneAssignmentMap_strict$1$$anonfun$apply$1.class -> lastModified(1492098059402) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$helper_calculateGeneAssignmentMap_strict$1.class -> lastModified(1492098059399) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$makeFlatExonMap$1.class -> lastModified(1492098059406) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$makeFlatExonMap$2.class -> lastModified(1492098059409) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$makeFlatGeneSet$1$$anonfun$apply$3.class -> lastModified(1492098059415) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$makeFlatGeneSet$1.class -> lastModified(1492098059412) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_CDS_readGtf$1.class -> lastModified(1492098059419) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_CDS_readGtf$2.class -> lastModified(1492098059422) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_INTRONS_readFlatGtf$1.class -> lastModified(1492098059426) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_INTRONS_readFlatGtf$2.class -> lastModified(1492098059429) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_regions$1.class -> lastModified(1492098059431) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_regions$2.class -> lastModified(1492098059434) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_readGtf$1.class -> lastModified(1492098059436) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_readGtf$2.class -> lastModified(1492098059438) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcInnerDistance_readSplicesFromGtfFile$1.class -> lastModified(1492098059440) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcJunctionCounts_makeJunctionMap$1.class -> lastModified(1492098059442) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$.class -> lastModified(1492098059361) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder.class -> lastModified(1492098059349) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anon$1.class -> lastModified(1492098059456) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$1.class -> lastModified(1492098059458) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$10.class -> lastModified(1492098059461) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$11.class -> lastModified(1492098059463) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$12.class -> lastModified(1492098059465) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$2.class -> lastModified(1492098059468) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$3.class -> lastModified(1492098059469) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$4.class -> lastModified(1492098059471) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$5.class -> lastModified(1492098059473) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$6.class -> lastModified(1492098059476) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$7.class -> lastModified(1492098059478) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$8.class -> lastModified(1492098059480) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$9.class -> lastModified(1492098059483) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$findShortestPath_helper$1$$anonfun$apply$1.class -> lastModified(1492098059488) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$findShortestPath_helper$1.class -> lastModified(1492098059485) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$findSplicesBetween$1.class -> lastModified(1492098059490) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$getReadLengthToIntersect$1.class -> lastModified(1492098059493) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$readSplicesFromGtfFile$1.class -> lastModified(1492098059496) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$1.class -> lastModified(1492098059498) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$2.class -> lastModified(1492098059500) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$3$$anonfun$apply$mcVI$sp$1.class -> lastModified(1492098059505) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$3.class -> lastModified(1492098059503) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$4.class -> lastModified(1492098059507) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$5.class -> lastModified(1492098059510) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$6.class -> lastModified(1492098059512) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$7.class -> lastModified(1492098059514) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$8.class -> lastModified(1492098059517) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$.class -> lastModified(1492098059453) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance.class -> lastModified(1492098059448) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$1.class -> lastModified(1508512367156) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$10.class -> lastModified(1508512367159) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$11.class -> lastModified(1508512367162) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$12.class -> lastModified(1508512367166) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$13$$anonfun$apply$7$$anonfun$apply$8.class -> lastModified(1508512367175) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$13$$anonfun$apply$7.class -> lastModified(1508512367172) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$13.class -> lastModified(1508512367170) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$14.class -> lastModified(1508512367177) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$15$$anonfun$2.class -> lastModified(1508512367182) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$15.class -> lastModified(1508512367179) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$16$$anonfun$apply$2.class -> lastModified(1508512367188) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$16.class -> lastModified(1508512367185) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$17$$anonfun$apply$9$$anonfun$apply$10.class -> lastModified(1508512367197) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$17$$anonfun$apply$9.class -> lastModified(1508512367194) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$17.class -> lastModified(1508512367191) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$18.class -> lastModified(1508512367200) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$19.class -> lastModified(1508512367202) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$20.class -> lastModified(1508512367205) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$21.class -> lastModified(1508512367208) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$3.class -> lastModified(1508512367210) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$4$$anonfun$apply$4.class -> lastModified(1508512367215) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$4.class -> lastModified(1508512367213) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$5.class -> lastModified(1508512367218) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$6.class -> lastModified(1508512367221) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$7.class -> lastModified(1508512367225) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$8.class -> lastModified(1508512367228) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$9$$anonfun$apply$1.class -> lastModified(1508512367236) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$9.class -> lastModified(1508512367232) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$calculateGeneBodyCoverage$1.class -> lastModified(1508512367239) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$countDeletions$1.class -> lastModified(1508512367242) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$countInsertions$1.class -> lastModified(1508512367245) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$debug_writeGeneBodySpans$1.class -> lastModified(1508512367248) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$debug_writeGeneBodySpans$2$$anonfun$apply$5$$anonfun$apply$6.class -> lastModified(1508512367257) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$debug_writeGeneBodySpans$2$$anonfun$apply$5.class -> lastModified(1508512367254) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$debug_writeGeneBodySpans$2.class -> lastModified(1508512367251) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$featuresNearRead$1$$anonfun$apply$11.class -> lastModified(1508512367264) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$featuresNearRead$1.class -> lastModified(1508512367260) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$1$$anonfun$apply$mcVI$sp$1.class -> lastModified(1508512367272) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$1.class -> lastModified(1508512367268) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$2$$anonfun$apply$mcVI$sp$2.class -> lastModified(1508512367287) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$2.class -> lastModified(1508512367276) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$3.class -> lastModified(1508512367293) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_calculateGeneBodyCoverage_summaries$4.class -> lastModified(1508512367304) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_geneSizeQuartiles$1.class -> lastModified(1508512367308) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneBody_intervalBreaks$1.class -> lastModified(1508512367313) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneLengthMap$1$$anonfun$apply$15.class -> lastModified(1508512367321) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$geneLengthMap$1.class -> lastModified(1508512367317) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getDeletionSetFromRead$1.class -> lastModified(1508512367324) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getDeletionSetFromRead$2.class -> lastModified(1508512367327) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getIndelSetFromRead$1.class -> lastModified(1508512367329) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getIndelSetFromRead$2.class -> lastModified(1508512367332) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getInsertionSetFromRead$1.class -> lastModified(1508512367335) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getInsertionSetFromRead$2.class -> lastModified(1508512367338) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getPairFeaturesNear$1$$anonfun$apply$13.class -> lastModified(1508512367344) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getPairFeaturesNear$1.class -> lastModified(1508512367341) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getReadFeatures$1$$anonfun$apply$14.class -> lastModified(1508512367350) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$getReadFeatures$1.class -> lastModified(1508512367347) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$helper_findReadIntervalCoverage$1.class -> lastModified(1508512367354) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$makeGeneBodyCoverageCountArrays$1.class -> lastModified(1508512367357) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_calculateBreakMap$1.class -> lastModified(1508512367360) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_calculateBreaks$1.class -> lastModified(1508512367363) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_findSpanIntervalCoverage$1$$anonfun$apply$3.class -> lastModified(1508512367372) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_findSpanIntervalCoverage$1.class -> lastModified(1508512367368) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$qcUtils$qcGetGeneCounts$$helper_findSpanIntervalCoverage$2.class -> lastModified(1508512367375) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$readIsNearFeatures$1$$anonfun$apply$12.class -> lastModified(1508512367381) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$readIsNearFeatures$1.class -> lastModified(1508512367378) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$1.class -> lastModified(1508512367391) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$2.class -> lastModified(1508512367393) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$3.class -> lastModified(1508512367396) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$4.class -> lastModified(1508512367399) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$5.class -> lastModified(1508512367402) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$runOnReadPair$6.class -> lastModified(1508512367405) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeGeneBodyCoverage_genewise$1.class -> lastModified(1508512367410) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$1.class -> lastModified(1508512367414) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$2.class -> lastModified(1508512367417) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$3.class -> lastModified(1508512367421) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4$$anonfun$22.class -> lastModified(1508512367428) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4$$anonfun$23.class -> lastModified(1508512367431) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4$$anonfun$24.class -> lastModified(1508512367434) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4$$anonfun$25.class -> lastModified(1508512367436) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$4.class -> lastModified(1508512367424) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$$anonfun$writeOutput$5.class -> lastModified(1508512367440) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts$.class -> lastModified(1508512367152) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGetGeneCounts.class -> lastModified(1508512367139) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$1.class -> lastModified(1508512407713) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$2.class -> lastModified(1508512407720) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$buildGenomicArrayOfSets_fromGtf$1.class -> lastModified(1508512407725) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$buildGenomicArrayOfSets_fromGtf$2.class -> lastModified(1508512407731) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$generateTargetArray$1.class -> lastModified(1508512407737) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$initializeCounter$1.class -> lastModified(1508512407742) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$makeFlatReader$1.class -> lastModified(1508512407747) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$makeFlatReader$2.class -> lastModified(1508512407752) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getFlatFeatureList$1.class -> lastModified(1508512407756) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getGeneBiotypeMap$1.class -> lastModified(1508512407765) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getGeneBiotypeMap$2.class -> lastModified(1508512407771) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getGeneLengthMap$1$$anonfun$apply$2.class -> lastModified(1508512407781) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$getGeneLengthMap$1.class -> lastModified(1508512407776) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$helper_calculateGeneAssignmentMap_strict$1$$anonfun$apply$1.class -> lastModified(1508512407794) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$helper_calculateGeneAssignmentMap_strict$1.class -> lastModified(1508512407787) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$makeFlatExonMap$1.class -> lastModified(1508512407799) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$makeFlatExonMap$2.class -> lastModified(1508512407803) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$makeFlatGeneSet$1$$anonfun$apply$3.class -> lastModified(1508512407812) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$makeFlatGeneSet$1.class -> lastModified(1508512407808) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_CDS_readGtf$1.class -> lastModified(1508512407816) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_CDS_readGtf$2.class -> lastModified(1508512407820) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_INTRONS_readFlatGtf$1.class -> lastModified(1508512407826) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_INTRONS_readFlatGtf$2.class -> lastModified(1508512407834) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_regions$1.class -> lastModified(1508512407840) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_geneArea_regions$2.class -> lastModified(1508512407846) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_readGtf$1.class -> lastModified(1508512407852) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcGetGeneCounts_readGtf$2.class -> lastModified(1508512407857) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcInnerDistance_readSplicesFromGtfFile$1.class -> lastModified(1508512407864) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$$anonfun$qcUtils$qcGtfAnnotationBuilder$$qcJunctionCounts_makeJunctionMap$1.class -> lastModified(1508512407870) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder$.class -> lastModified(1508512407700) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcGtfAnnotationBuilder.class -> lastModified(1508512407656) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anon$1.class -> lastModified(1508512454076) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$1.class -> lastModified(1508512454082) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$10.class -> lastModified(1508512454087) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$11.class -> lastModified(1508512454099) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$12.class -> lastModified(1508512454115) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$2.class -> lastModified(1508512454121) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$3.class -> lastModified(1508512454128) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$4.class -> lastModified(1508512454133) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$5.class -> lastModified(1508512454143) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$6.class -> lastModified(1508512454150) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$7.class -> lastModified(1508512454157) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$8.class -> lastModified(1508512454161) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$9.class -> lastModified(1508512454166) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$findShortestPath_helper$1$$anonfun$apply$1.class -> lastModified(1508512454179) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$findShortestPath_helper$1.class -> lastModified(1508512454172) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$findSplicesBetween$1.class -> lastModified(1508512454183) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$getReadLengthToIntersect$1.class -> lastModified(1508512454191) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$readSplicesFromGtfFile$1.class -> lastModified(1508512454196) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$1.class -> lastModified(1508512454213) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$2.class -> lastModified(1508512454220) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$3$$anonfun$apply$mcVI$sp$1.class -> lastModified(1508512454232) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$3.class -> lastModified(1508512454226) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$4.class -> lastModified(1508512454236) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$5.class -> lastModified(1508512454245) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$6.class -> lastModified(1508512454253) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$7.class -> lastModified(1508512454258) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$$anonfun$writeOutput$8.class -> lastModified(1508512454263) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance$.class -> lastModified(1508512454070) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcInnerDistance.class -> lastModified(1508512454050) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcJunctionCounts$$anonfun$1.class -> lastModified(1492098059527) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcJunctionCounts$$anonfun$10.class -> lastModified(1492098059529) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\qcJunctionCounts$$anonfun$11.class -> lastModified(1492098059531) @@ -4547,34 +4559,34 @@ C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\QCUtility$QCU_Ordering$clas C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\QCUtility$QCU_Ordering.class -> lastModified(1492098058566) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\QCUtility$QCUtility$.class -> lastModified(1492098058573) C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\QCUtility.class -> lastModified(1492098058559) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$1.class -> lastModified(1492098060712) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10$$anonfun$apply$1.class -> lastModified(1492098060717) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10$$anonfun$apply$2.class -> lastModified(1492098060719) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10$$anonfun$apply$3.class -> lastModified(1492098060721) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10$$anonfun$apply$4.class -> lastModified(1492098060723) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10.class -> lastModified(1492098060715) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$11$$anonfun$apply$5.class -> lastModified(1492098060728) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$11.class -> lastModified(1492098060726) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$12.class -> lastModified(1492098060730) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$13$$anonfun$apply$6.class -> lastModified(1492098060735) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$13.class -> lastModified(1492098060733) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$14.class -> lastModified(1492098060738) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$6.class -> lastModified(1492098060740) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$7.class -> lastModified(1492098060742) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$8.class -> lastModified(1492098060744) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$9.class -> lastModified(1492098060747) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$qcUtils$runAllQC$$addDependencies$1$1.class -> lastModified(1492098060749) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$qcUtils$runAllQC$$addDependencies$1$2.class -> lastModified(1492098060751) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$runOnSeqFile$1.class -> lastModified(1492098060753) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$runOnSeqFile$2.class -> lastModified(1492098060756) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$runOnSeqFile$3.class -> lastModified(1492098060758) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$.class -> lastModified(1492098060709) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner$$anonfun$2.class -> lastModified(1492098060765) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner$$anonfun$3.class -> lastModified(1492098060767) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner$$anonfun$4.class -> lastModified(1492098060769) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner$$anonfun$5.class -> lastModified(1492098060772) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner.class -> lastModified(1492098060762) -C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC.class -> lastModified(1492098060700) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$1.class -> lastModified(1502470279740) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10$$anonfun$apply$1.class -> lastModified(1502470279748) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10$$anonfun$apply$2.class -> lastModified(1502470279751) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10$$anonfun$apply$3.class -> lastModified(1502470279755) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10$$anonfun$apply$4.class -> lastModified(1502470279759) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$10.class -> lastModified(1502470279744) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$11$$anonfun$apply$5.class -> lastModified(1502470279766) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$11.class -> lastModified(1502470279763) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$12.class -> lastModified(1502470279769) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$13$$anonfun$apply$6.class -> lastModified(1502470279777) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$13.class -> lastModified(1502470279773) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$14.class -> lastModified(1502470279782) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$6.class -> lastModified(1502470279786) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$7.class -> lastModified(1502470279789) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$8.class -> lastModified(1502470279792) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$9.class -> lastModified(1502470279796) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$qcUtils$runAllQC$$addDependencies$1$1.class -> lastModified(1502470279800) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$qcUtils$runAllQC$$addDependencies$1$2.class -> lastModified(1502470279803) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$runOnSeqFile$1.class -> lastModified(1502470279807) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$runOnSeqFile$2.class -> lastModified(1502470279817) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$$anonfun$runOnSeqFile$3.class -> lastModified(1502470279820) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$.class -> lastModified(1502470279737) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner$$anonfun$2.class -> lastModified(1502470279837) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner$$anonfun$3.class -> lastModified(1502470279840) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner$$anonfun$4.class -> lastModified(1502470279844) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner$$anonfun$5.class -> lastModified(1502470279848) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC$allQC_runner.class -> lastModified(1502470279832) +C:\Users\hartleys\workspace\HartleyUtils\bin\qcUtils\runAllQC.class -> lastModified(1502470279697) C:\Users\hartleys\workspace\HartleyUtils\bin\runner\helpDocs$$anonfun$getGeneralHelp$1.class -> lastModified(1492098060782) C:\Users\hartleys\workspace\HartleyUtils\bin\runner\helpDocs$$anonfun$getGeneralHelp$2.class -> lastModified(1492098060784) C:\Users\hartleys\workspace\HartleyUtils\bin\runner\helpDocs$$anonfun$writeMarkdownHelp$1.class -> lastModified(1492098060786) @@ -4583,28 +4595,28 @@ C:\Users\hartleys\workspace\HartleyUtils\bin\runner\helpDocs$$anonfun$writeMarkd C:\Users\hartleys\workspace\HartleyUtils\bin\runner\helpDocs$$anonfun$writeMarkdownHelp$4.class -> lastModified(1492098060792) C:\Users\hartleys\workspace\HartleyUtils\bin\runner\helpDocs$.class -> lastModified(1492098060775) C:\Users\hartleys\workspace\HartleyUtils\bin\runner\helpDocs.class -> lastModified(1492098060778) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$1.class -> lastModified(1492098060799) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$10.class -> lastModified(1492098060800) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$11.class -> lastModified(1492098060802) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$12.class -> lastModified(1492098060804) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$13.class -> lastModified(1492098060806) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$14$$anonfun$apply$1.class -> lastModified(1492098060809) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$14.class -> lastModified(1492098060808) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$15.class -> lastModified(1492098060811) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$2.class -> lastModified(1492098060813) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$3.class -> lastModified(1492098060815) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$4.class -> lastModified(1492098060816) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$5.class -> lastModified(1492098060818) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$6.class -> lastModified(1492098060820) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$7.class -> lastModified(1492098060822) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$8.class -> lastModified(1492098060824) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$9.class -> lastModified(1492098060825) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$.class -> lastModified(1492098060797) -C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner.class -> lastModified(1492098060794) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$1.class -> lastModified(1502470279871) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$10.class -> lastModified(1502470279874) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$11.class -> lastModified(1502470279878) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$12.class -> lastModified(1502470279881) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$13.class -> lastModified(1502470279884) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$14$$anonfun$apply$1.class -> lastModified(1502470279890) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$14.class -> lastModified(1502470279887) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$15.class -> lastModified(1502470279893) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$2.class -> lastModified(1502470279896) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$3.class -> lastModified(1502470279899) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$4.class -> lastModified(1502470279901) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$5.class -> lastModified(1502470279904) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$6.class -> lastModified(1502470279907) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$7.class -> lastModified(1502470279911) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$8.class -> lastModified(1502470279914) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$$anonfun$9.class -> lastModified(1502470279918) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner$.class -> lastModified(1502470279868) +C:\Users\hartleys\workspace\HartleyUtils\bin\runner\runner.class -> lastModified(1502470279852) source stamps: 53 items -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> hash(2e4b3f66bb9870000b2c8776e7e8db47594c90c8) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> hash(7698a244132840fe1d9e5be8db5b64a6022aded3) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> hash(73dc62f7effaeb3625f865c19f2478650bca3c94) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> hash(22568f0143f2bb55d20b91d29142db46626a780b) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\convertSoftToHardClipping.scala -> hash(f3175615439371e8ad0cb602340837cb31fe0d11) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\convertSpliceCountsToBed.scala -> hash(697ffe92ad2989f65718205108bae905008266e2) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\generatePlotsWithR.scala -> hash(7e64264d922e00da147c00ab7baafb1f9b2a9882) @@ -4616,15 +4628,15 @@ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\make C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\makeSummaryTracks.scala -> hash(12aaaa8b85e1635eac2666cccda9af4b4ff0d888) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\mergeQcOutput.scala -> hash(dd5a606b6d596e99458f3edc3928f12edf6f7442) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\mergeSpliceBed.scala -> hash(35f73a4b23382bffa1b0f1b97f3d9a4d403bc7cb) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\prepFlatGtfFile.scala -> hash(698fc305406299b83e9626877a5f2741994f21fc) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\prepFlatGtfFile.scala -> hash(334fb7d14c10221563e243c91c74686d83386d6f) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\runFeatureComboCt.scala -> hash(1a63ad92aa8e9bc9f91cac5c37a5ff1719ceb35c) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\SumWigglesFast.scala -> hash(4ed6c924e17216d6c1c54b32aec3a0c3997b88d9) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalTests\readWriteRaceTest.scala -> hash(c14cac59d3d3c968328256c8002cb709197cd10b) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\commandLineUI.scala -> hash(296fcfc7dec8618f1ef00ba5833bcaf601cd6421) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\commonSeqUtils.scala -> hash(c393650a16535687fbe4be32145d22114e2e6613) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\commonSeqUtils.scala -> hash(debdba49332da1df7e4ed237d88248f34d50f0cb) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\fileUtils.scala -> hash(0948388d0cb05616eb6e1094c9bee49f100edceb) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> hash(52700e3da57e239cb554658d5401a87d89eadd89) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicUtils.scala -> hash(31f0745801f63805d11c5286fc302847dbafa403) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> hash(eec244376ffccbec4b3e317b4cfd70bca47ee5e4) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicUtils.scala -> hash(c042e607cab11c64fd64388ce20a457ae0ace8a0) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\GtfTool.scala -> hash(b0744737cda895f4ff6091c017df8cd95a751f33) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\optionHolder.scala -> hash(793f7be4b6f4962719c5b2a82bf9fd0b10ff4ba9) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\Reporter.scala -> hash(934c42730583016029a8d49425ce5617a78cb1fc) @@ -4637,14 +4649,14 @@ C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\fqcStdUtils.scal C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\fqcUtility.scala -> hash(1aa1627122f276794074307e1198ff13efccc97a) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\genUtility.scala -> hash(52752b4e506242cff380e62e2ecbb9620673c414) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcChromCount.scala -> hash(d083475cfa295c26cf00460df39d1062da7e6f92) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcCigarDistribution.scala -> hash(75cedadc1024306dc8d66edc1c1cc5b272312815) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcCigarDistribution.scala -> hash(be382738b1ca9dfbc98ac8fea562529a60bf6254) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcCigarLocusCounts.scala -> hash(20cb783cc95a14664a9a457370f1380f81a1baf5) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcCigarMatch.scala -> hash(8eabaeeb4962c2891f8bd4bdbfa132e281ace769) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcFeatureComboCt.scala -> hash(62a3018a281aeaa0aa318b949e175de1e848f0e5) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcCigarMatch.scala -> hash(5be84aabeb423f37cd61c1dbd5d74b46a9b14bc4) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcFeatureComboCt.scala -> hash(92f6e7e25350d9970e81089d8dbf75d19ff444f5) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcGCContentCount.scala -> hash(1cf7cef4fe612019cbba05d80cd46e05ed9b9ba2) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcGetGeneCounts.scala -> hash(4f35cf35c7d24dba9a453a2e43adc6705e825304) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcGtfAnnotationBuilder.scala -> hash(4731537a21691831043893608f25b8b8977d5a82) -C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcInnerDistance.scala -> hash(4814ceb7b68aec3081a22d09ff66fd26c699a7fc) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcGetGeneCounts.scala -> hash(0361d56db3d9d186eb589f484cd0e13ae1a7a257) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcGtfAnnotationBuilder.scala -> hash(b68f6021b07b9bc27a1b6e7f640268bc5b67369c) +C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcInnerDistance.scala -> hash(64f8b5f3d01135dde4a5ef46b64056830f5f464d) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcJunctionCounts.scala -> hash(ff9241d82e632a3190f53961472bf7597f6d994e) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcMinorUtils.scala -> hash(275d81a215e81d51401c95969f449e898a2016e9) C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcNVC.scala -> hash(235318a055610434d2c6cce8b125060e3f7a8a5b) @@ -4664,14 +4676,14 @@ C:\Users\hartleys\workspace\HartleyUtils\lib\sam-1.113.jar -> lastModified(14749 class names: 3 items C:\Program Files\Java\jre1.8.0_101\lib\rt.jar -> java.lang.Object -C:\Users\hartleys\Documents\software-local\scala-SDK-4.4.1-vfinal-2.11-win32.win32.x86_64\eclipse\plugins\org.scala-lang.scala-library_2.11.8.v20160304-115712-1706a37eb8.jar -> scala.Predef$ -C:\Users\hartleys\workspace\HartleyUtils\lib\sam-1.113.jar -> net.sf.samtools.SAMFileReader +C:\Users\hartleys\Documents\software-local\scala-SDK-4.4.1-vfinal-2.11-win32.win32.x86_64\eclipse\plugins\org.scala-lang.scala-library_2.11.8.v20160304-115712-1706a37eb8.jar -> scala.collection.generic.GenMapFactory +C:\Users\hartleys\workspace\HartleyUtils\lib\sam-1.113.jar -> net.sf.samtools.SAMRecord internal apis: 53 items C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\addNovelSplices.scala -> -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C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\bamToWiggle.scala -> -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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\convertSoftToHardClipping.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\convertSpliceCountsToBed.scala -> @@ -4695,7 +4707,7 @@ rO0ABXNyABB4c2J0aS5hcGkuU291cmNlFlpwRASfbtoCAAZJAAdhcGlIYXNoWgAIaGFzTWFjcm9MABhf C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\mergeSpliceBed.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\prepFlatGtfFile.scala -> -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C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\runFeatureComboCt.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\fileConversionUtils\SumWigglesFast.scala -> @@ -4705,13 +4717,13 @@ rO0ABXNyABB4c2J0aS5hcGkuU291cmNlFlpwRASfbtoCAAZJAAdhcGlIYXNoWgAIaGFzTWFjcm9MABhf C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\commandLineUI.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\commonSeqUtils.scala -> -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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\fileUtils.scala -> rO0ABXNyABB4c2J0aS5hcGkuU291cmNlFlpwRASfbtoCAAZJAAdhcGlIYXNoWgAIaGFzTWFjcm9MABhfaW50ZXJuYWxPbmx5X25hbWVIYXNoZXN0ACRMeHNidGkvYXBpL19pbnRlcm5hbE9ubHlfTmFtZUhhc2hlcztMAANhcGl0ABVMeHNidGkvYXBpL1NvdXJjZUFQSTtMAAtjb21waWxhdGlvbnQAF0x4c2J0aS9hcGkvQ29tcGlsYXRpb247WwAEaGFzaHQAAltCeHCRfxrSAHNyACJ4c2J0aS5hcGkuX2ludGVybmFsT25seV9OYW1lSGFzaGVzVNq+mfrU7EwCAAJbAA9pbXBsaWNpdE1lbWJlcnN0ACNbTHhzYnRpL2FwaS9faW50ZXJuYWxPbmx5X05hbWVIYXNoO1sADnJlZ3VsYXJNZW1iZXJzcQB+AAd4cHVyACNbTHhzYnRpLmFwaS5faW50ZXJuYWxPbmx5X05hbWVIYXNoO0lagLbdlov0AgAAeHAAAAAAdXEAfgAJAAAAAHNyABN4c2J0aS5hcGkuU291cmNlQVBJuV6n+SkjOKQCAAJbAAtkZWZpbml0aW9uc3QAF1tMeHNidGkvYXBpL0RlZmluaXRpb247WwAIcGFja2FnZXN0ABRbTHhzYnRpL2FwaS9QYWNrYWdlO3hwdXIAF1tMeHNidGkuYXBpLkRlZmluaXRpb247iMlc57TjXg4CAAB4cAAAAAFzcgATeHNidGkuYXBpLkNsYXNzTGlrZYM0HKHfsJdsAgAETAAOZGVmaW5pdGlvblR5cGV0ABpMeHNidGkvYXBpL0RlZmluaXRpb25UeXBlO1sAEHNhdmVkQW5ub3RhdGlvbnN0ABNbTGphdmEvbGFuZy9TdHJpbmc7TAAIc2VsZlR5cGV0ABBMeHNidGkvYXBpL0xhenk7TAAJc3RydWN0dXJlcQB+ABV4cgAheHNidGkuYXBpLlBhcmFtZXRlcml6ZWREZWZpbml0aW9u+RFusdVQPOICAAFbAA50eXBlUGFyYW1ldGVyc3QAGltMeHNidGkvYXBpL1R5cGVQYXJhbWV0ZXI7eHIAFHhzYnRpLmFwaS5EZWZpbml0aW9uhyob6HFC40YCAARMAAZhY2Nlc3N0ABJMeHNidGkvYXBpL0FjY2VzcztbAAthbm5vdGF0aW9uc3QAF1tMeHNidGkvYXBpL0Fubm90YXRpb247TAAJbW9kaWZpZXJzdAAVTHhzYnRpL2FwaS9Nb2RpZmllcnM7TAAEbmFtZXQAEkxqYXZhL2xhbmcvU3RyaW5nO3hwc3IAEHhzYnRpLmFwaS5QdWJsaWO6WD2ubC1gQgIAAHhyABB4c2J0aS5hcGkuQWNjZXNz3WKa+B1jMUgCAAB4cHVyABdbTHhzYnRpLmFwaS5Bbm5vdGF0aW9uO+uX6xkQ9o1IAgAAeHAAAAAAc3IAE3hzYnRpLmFwaS5Nb2RpZmllcnPHERMhaZzcJAIAAUIABWZsYWdzeHAAdAAXaW50ZXJuYWxVdGlscy5maWxlVXRpbHN1cgAaW0x4c2J0aS5hcGkuVHlwZVBhcmFtZXRlcjvZbSYPKJ3ytgIAAHhwAAAAAH5yABh4c2J0aS5hcGkuRGVmaW5pdGlvblR5cGUAAAAAAAAAABIAAHhyAA5qYXZhLmxhbmcuRW51bQAAAAAAAAAAEgAAeHB0AAZNb2R1bGV1cgATW0xqYXZhLmxhbmcuU3RyaW5nO63SVufpHXtHAgAAeHAAAAAAc3IAE3hzYnRpLlNhZmVMYXp5JEltcGw7kU8R9EVMyQIAA1oACGJpdG1hcCQwTAACX3R0ABJMamF2YS9sYW5nL09iamVjdDtMAARldmFsdAARTHNjYWxhL0Z1bmN0aW9uMDt4cgAWeHNidGkuYXBpLkFic3RyYWN0TGF6edN3tQFfu+egAgAAeHAAcHNyACB4c2J0aS5TYWZlTGF6eSQkYW5vbmZ1biRzdHJpY3QkMQAAAAAAAAAAAgABTAAHdmFsdWUkMXEAfgAveHBzcgATeHNidGkuYXBpLkVtcHR5VHlwZbz9nkZJO4kkAgAAeHIAFHhzYnRpLmFwaS5TaW1wbGVUeXBlcnhiiCEjv0ACAAB4cgAOeHNidGkuYXBpLlR5cGU/atkhFkmqygIAAHhwc3EAfgAuAHBzcQB+ADNzcgATeHNidGkuYXBpLlN0cnVjdHVyZamq+YCTb9gAAgADTAAIZGVjbGFyZWRxAH4AFUwACWluaGVyaXRlZHEAfgAVTAAHcGFyZW50c3EAfgAVeHEAfgA3c3EAfgAuAHBzcQB+ADN1cQB+ABAAAAAAc3EAfgAuAHBzcQB+ADN1cQB+ABAAAAAAc3EAfgAuAHBzcQB+ADN1cgARW0x4c2J0aS5hcGkuVHlwZTt0/6Vae/npQQIAAHhwAAAAAnNyABR4c2J0aS5hcGkuUHJvamVjdGlvbvPSjVTpRaQtAgACTAACaWRxAH4AHEwABnByZWZpeHQAFkx4c2J0aS9hcGkvU2ltcGxlVHlwZTt4cQB+ADZ0AAZPYmplY3RzcgATeHNidGkuYXBpLlNpbmdsZXRvbvynX/jPVuRGAgABTAAEcGF0aHQAEEx4c2J0aS9hcGkvUGF0aDt4cQB+ADZzcgAOeHNidGkuYXBpLlBhdGibPVwIzqUnhAIAAVsACmNvbXBvbmVudHN0ABpbTHhzYnRpL2FwaS9QYXRoQ29tcG9uZW50O3hwdXIAGltMeHNidGkuYXBpLlBhdGhDb21wb25lbnQ7Q9oJdC1nFnQCAAB4cAAAAANzcgAMeHNidGkuYXBpLklkmDJsizdTxEACAAFMAAJpZHEAfgAceHIAF3hzYnRpLmFwaS5QYXRoQ29tcG9uZW50X5oiWy6Gn7wCAAB4cHQABGphdmFzcQB+AFN0AARsYW5nc3IADnhzYnRpLmFwaS5UaGlz2wntpsxaQFwCAAB4cQB+AFRzcQB+AEd0AANBbnlzcQB+AEtzcQB+AE51cQB+AFEAAAACc3EAfgBTdAAFc2NhbGFxAH4AWnVyABRbTHhzYnRpLmFwaS5QYWNrYWdlO1sTGTdwpyehAgAAeHAAAAABc3IAEXhzYnRpLmFwaS5QYWNrYWdlflmP9q7OOVgCAAFMAARuYW1lcQB+ABx4cHQADWludGVybmFsVXRpbHNzcgAVeHNidGkuYXBpLkNvbXBpbGF0aW9u7frgw2rooEICAAJKAAlzdGFydFRpbWVbAAdvdXRwdXRzdAAaW0x4c2J0aS9hcGkvT3V0cHV0U2V0dGluZzt4cAAAAVtn+UYRdXIAGltMeHNidGkuYXBpLk91dHB1dFNldHRpbmc7f2rC86eHpUICAAB4cAAAAAFzcgAXeHNidGkuYXBpLk91dHB1dFNldHRpbmd62ZpHdPsdewIAAkwAD291dHB1dERpcmVjdG9yeXEAfgAcTAAPc291cmNlRGlyZWN0b3J5cQB+ABx4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYXVyAAJbQqzzF/gGCFTgAgAAeHAAAAAUCUg4jQywVhbrbhCUyb7knxAO3Os= C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicAnnoUtils.scala -> -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C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\genomicUtils.scala -> 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C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\GtfTool.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\internalUtils\optionHolder.scala -> @@ -4737,21 +4749,21 @@ rO0ABXNyABB4c2J0aS5hcGkuU291cmNlFlpwRASfbtoCAAZJAAdhcGlIYXNoWgAIaGFzTWFjcm9MABhf C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcChromCount.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcCigarDistribution.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcCigarLocusCounts.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcCigarMatch.scala -> -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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcFeatureComboCt.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcGCContentCount.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcGetGeneCounts.scala -> -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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcGtfAnnotationBuilder.scala -> -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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcInnerDistance.scala -> 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+rO0ABXNyABB4c2J0aS5hcGkuU291cmNlFlpwRASfbtoCAAZJAAdhcGlIYXNoWgAIaGFzTWFjcm9MABhfaW50ZXJuYWxPbmx5X25hbWVIYXNoZXN0ACRMeHNidGkvYXBpL19pbnRlcm5hbE9ubHlfTmFtZUhhc2hlcztMAANhcGl0ABVMeHNidGkvYXBpL1NvdXJjZUFQSTtMAAtjb21waWxhdGlvbnQAF0x4c2J0aS9hcGkvQ29tcGlsYXRpb247WwAEaGFzaHQAAltCeHBuK7R1AHNyACJ4c2J0aS5hcGkuX2ludGVybmFsT25seV9OYW1lSGFzaGVzVNq+mfrU7EwCAAJbAA9pbXBsaWNpdE1lbWJlcnN0ACNbTHhzYnRpL2FwaS9faW50ZXJuYWxPbmx5X05hbWVIYXNoO1sADnJlZ3VsYXJNZW1iZXJzcQB+AAd4cHVyACNbTHhzYnRpLmFwaS5faW50ZXJuYWxPbmx5X05hbWVIYXNoO0lagLbdlov0AgAAeHAAAAAAdXEAfgAJAAAAAHNyABN4c2J0aS5hcGkuU291cmNlQVBJuV6n+SkjOKQCAAJbAAtkZWZpbml0aW9uc3QAF1tMeHNidGkvYXBpL0RlZmluaXRpb247WwAIcGFja2FnZXN0ABRbTHhzYnRpL2FwaS9QYWNrYWdlO3hwdXIAF1tMeHNidGkuYXBpLkRlZmluaXRpb247iMlc57TjXg4CAAB4cAAAAAJzcgATeHNidGkuYXBpLkNsYXNzTGlrZYM0HKHfsJdsAgAETAAOZGVmaW5pdGlvblR5cGV0ABpMeHNidGkvYXBpL0RlZmluaXRpb25UeXBlO1sAEHNhdmVkQW5ub3RhdGlvbnN0ABNbTGphdmEvbGFuZy9TdHJpbmc7TAAIc2VsZlR5cGV0ABBMeHNidGkvYXBpL0xhenk7TAAJc3RydWN0dXJlcQB+ABV4cgAheHNidGkuYXBpLlBhcmFtZXRlcml6ZWREZWZpbml0aW9u+RFusdVQPOICAAFbAA50eXBlUGFyYW1ldGVyc3QAGltMeHNidGkvYXBpL1R5cGVQYXJhbWV0ZXI7eHIAFHhzYnRpLmFwaS5EZWZpbml0aW9uhyob6HFC40YCAARMAAZhY2Nlc3N0ABJMeHNidGkvYXBpL0FjY2VzcztbAAthbm5vdGF0aW9uc3QAF1tMeHNidGkvYXBpL0Fubm90YXRpb247TAAJbW9kaWZpZXJzdAAVTHhzYnRpL2FwaS9Nb2RpZmllcnM7TAAEbmFtZXQAEkxqYXZhL2xhbmcvU3RyaW5nO3hwc3IAEHhzYnRpLmFwaS5QdWJsaWO6WD2ubC1gQgIAAHhyABB4c2J0aS5hcGkuQWNjZXNz3WKa+B1jMUgCAAB4cHVyABdbTHhzYnRpLmFwaS5Bbm5vdGF0aW9uO+uX6xkQ9o1IAgAAeHAAAAAAc3IAE3hzYnRpLmFwaS5Nb2RpZmllcnPHERMhaZzcJAIAAUIABWZsYWdzeHAAdAAXcWNVdGlscy5xY0lubmVyRGlzdGFuY2V1cgAaW0x4c2J0aS5hcGkuVHlwZVBhcmFtZXRlcjvZbSYPKJ3ytgIAAHhwAAAAAH5yABh4c2J0aS5hcGkuRGVmaW5pdGlvblR5cGUAAAAAAAAAABIAAHhyAA5qYXZhLmxhbmcuRW51bQAAAAAAAAAAEgAAeHB0AAZNb2R1bGV1cgATW0xqYXZhLmxhbmcuU3RyaW5nO63SVufpHXtHAgAAeHAAAAAAc3IAE3hzYnRpLlNhZmVMYXp5JEltcGw7kU8R9EVMyQIAA1oACGJpdG1hcCQwTAACX3R0ABJMamF2YS9sYW5nL09iamVjdDtMAARldmFsdAARTHNjYWxhL0Z1bmN0aW9uMDt4cgAWeHNidGkuYXBpLkFic3RyYWN0TGF6edN3tQFfu+egAgAAeHABc3IAE3hzYnRpLmFwaS5FbXB0eVR5cGW8/Z5GSTuJJAIAAHhyABR4c2J0aS5hcGkuU2ltcGxlVHlwZXJ4YoghI79AAgAAeHIADnhzYnRpLmFwaS5UeXBlP2rZIRZJqsoCAAB4cHBzcQB+AC4Bc3IAE3hzYnRpLmFwaS5TdHJ1Y3R1cmWpqvmAk2/YAAIAA0wACGRlY2xhcmVkcQB+ABVMAAlpbmhlcml0ZWRxAH4AFUwAB3BhcmVudHNxAH4AFXhxAH4ANXNxAH4ALgF1cQB+ABAAAAAAcHNxAH4ALgF1cQB+ABAAAAAAcHNxAH4ALgF1cgARW0x4c2J0aS5hcGkuVHlwZTt0/6Vae/npQQIAAHhwAAAAAnNyABR4c2J0aS5hcGkuUHJvamVjdGlvbvPSjVTpRaQtAgACTAACaWRxAH4AHEwABnByZWZpeHQAFkx4c2J0aS9hcGkvU2ltcGxlVHlwZTt4cQB+ADR0AAZPYmplY3RzcgATeHNidGkuYXBpLlNpbmdsZXRvbvynX/jPVuRGAgABTAAEcGF0aHQAEEx4c2J0aS9hcGkvUGF0aDt4cQB+ADRzcgAOeHNidGkuYXBpLlBhdGibPVwIzqUnhAIAAVsACmNvbXBvbmVudHN0ABpbTHhzYnRpL2FwaS9QYXRoQ29tcG9uZW50O3hwdXIAGltMeHNidGkuYXBpLlBhdGhDb21wb25lbnQ7Q9oJdC1nFnQCAAB4cAAAAANzcgAMeHNidGkuYXBpLklkmDJsizdTxEACAAFMAAJpZHEAfgAceHIAF3hzYnRpLmFwaS5QYXRoQ29tcG9uZW50X5oiWy6Gn7wCAAB4cHQABGphdmFzcQB+AE10AARsYW5nc3IADnhzYnRpLmFwaS5UaGlz2wntpsxaQFwCAAB4cQB+AE5zcQB+AEF0AANBbnlzcQB+AEVzcQB+AEh1cQB+AEsAAAACc3EAfgBNdAAFc2NhbGFxAH4AVHBwc3EAfgAScQB+ACB1cQB+ACEAAAAAc3EAfgAjAHQAF3FjVXRpbHMucWNJbm5lckRpc3RhbmNldXEAfgAmAAAAAH5xAH4AKHQACENsYXNzRGVmdXEAfgAsAAAAAHNxAH4ALgFxAH4ANnBzcQB+AC4Bc3EAfgA4c3EAfgAuAXVxAH4AEAAAAABwc3EAfgAuAXVxAH4AEAAAAABwc3EAfgAuAXVxAH4APwAAAARzcgAXeHNidGkuYXBpLlBhcmFtZXRlcml6ZWQWbO5pA8m7fwIAAkwACGJhc2VUeXBlcQB+AEJbAA10eXBlQXJndW1lbnRzdAARW0x4c2J0aS9hcGkvVHlwZTt4cQB+ADRzcQB+AEF0AAlRQ1V0aWxpdHlzcQB+AEVzcQB+AEh1cQB+AEsAAAACc3EAfgBNdAAHcWNVdGlsc3EAfgBUdXEAfgA/AAAAAXNxAH4AQXQAA0ludHNxAH4ARXNxAH4ASHVxAH4ASwAAAAJzcQB+AE1xAH4AW3EAfgBUc3EAfgBBdAAKZ2VuVXRpbGl0eXEAfgByc3EAfgBBcQB+AERzcQB+AEVzcQB+AEh1cQB+AEsAAAADc3EAfgBNcQB+AFBzcQB+AE1xAH4AUnEAfgBUc3EAfgBBcQB+AFZxAH4AenBwdXIAFFtMeHNidGkuYXBpLlBhY2thZ2U7WxMZN3CnJ6ECAAB4cAAAAAFzcgAReHNidGkuYXBpLlBhY2thZ2V+WY/2rs45WAIAAUwABG5hbWVxAH4AHHhwdAAHcWNVdGlsc3NyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpZTg51cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5cQB+ABxMAA9zb3VyY2VEaXJlY3RvcnlxAH4AHHhwdAAsQzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xiaW50ADdDOlxVc2Vyc1xoYXJ0bGV5c1x3b3Jrc3BhY2VcSGFydGxleVV0aWxzXHNyY1xtYWluXHNjYWxhdXIAAltCrPMX+AYIVOACAAB4cAAAABRk+LXz0BE13eSl70a2QFaDD19GTQ== C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcJunctionCounts.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\qcMinorUtils.scala -> @@ -4769,11 +4781,11 @@ rO0ABXNyABB4c2J0aS5hcGkuU291cmNlFlpwRASfbtoCAAZJAAdhcGlIYXNoWgAIaGFzTWFjcm9MABhf C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\QCUtility.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\qcUtils\runAllQC.scala -> 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C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\runner\helpDocs.scala -> 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 C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\runner\runner.scala -> -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external apis: 0 items source infos: @@ -4885,5 +4897,32 @@ AAAAAAAAAAA= C:\Users\hartleys\workspace\HartleyUtils\src\main\scala\runner\runner.scala -> AAAAAAAAAAA= compilations: -1 items -0 -> rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABW2f5RhF1cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== +28 items +00 -> 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rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpT4/N1cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== +21 -> rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpUbAV1cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== +22 -> rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpVacp1cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== +23 -> rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpV6YN1cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== +24 -> rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpWoSx1cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== +25 -> rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpX+6p1cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== +26 -> rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpYlFh1cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== +27 -> rO0ABXNyABV4c2J0aS5hcGkuQ29tcGlsYXRpb27t+uDDauigQgIAAkoACXN0YXJ0VGltZVsAB291dHB1dHN0ABpbTHhzYnRpL2FwaS9PdXRwdXRTZXR0aW5nO3hwAAABXzpZTg51cgAaW0x4c2J0aS5hcGkuT3V0cHV0U2V0dGluZzt/asLzp4elQgIAAHhwAAAAAXNyABd4c2J0aS5hcGkuT3V0cHV0U2V0dGluZ3rZmkd0+x17AgACTAAPb3V0cHV0RGlyZWN0b3J5dAASTGphdmEvbGFuZy9TdHJpbmc7TAAPc291cmNlRGlyZWN0b3J5cQB+AAZ4cHQALEM6XFVzZXJzXGhhcnRsZXlzXHdvcmtzcGFjZVxIYXJ0bGV5VXRpbHNcYmludAA3QzpcVXNlcnNcaGFydGxleXNcd29ya3NwYWNlXEhhcnRsZXlVdGlsc1xzcmNcbWFpblxzY2FsYQ== diff --git 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b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$runOnFile2$1.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$runOnFile2$2.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$runOnFile2$2.class index 9e84080..3df67d6 100644 Binary files a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$runOnFile2$2.class and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$runOnFile2$2.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$writeChrom$1.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$writeChrom$1.class index 1db2cba..a04e088 100644 Binary files a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$writeChrom$1.class and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$$anonfun$writeChrom$1.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$.class index 6077f33..e96f738 100644 Binary files a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$.class and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$$anonfun$countBlocks$1.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$$anonfun$countBlocks$1.class index f5e3043..cf9abc4 100644 Binary files a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$$anonfun$countBlocks$1.class and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$$anonfun$countBlocks$1.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$$anonfun$countBlocks$2.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$$anonfun$countBlocks$2.class index 4c1b125..fbabbbe 100644 Binary files a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$$anonfun$countBlocks$2.class and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$$anonfun$countBlocks$2.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$.class index 9e05533..37afc41 100644 Binary files a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$.class and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom$.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom.class index 87e179e..fbb3b55 100644 Binary files a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom.class and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$Chrom.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWig$$anonfun$writeOutput$5.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWig$$anonfun$writeOutput$5.class new file mode 100644 index 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b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$1.class new file mode 100644 index 0000000..20897eb Binary files /dev/null and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$1.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$2.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$2.class new file mode 100644 index 0000000..3e26126 Binary files /dev/null and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$2.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$3.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$3.class new file mode 100644 index 0000000..61c64c9 Binary files /dev/null and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$3.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$4.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$4.class new file mode 100644 index 0000000..28fd25b Binary files /dev/null and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample$$anonfun$writeOutput$4.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample.class b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample.class new file mode 100644 index 0000000..77ad8cc Binary files /dev/null and b/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$QcBamToWigReservoirSample.class differ diff --git a/src/HartleyUtils/bin/fileConversionUtils/bamToWiggle$wiggleMaker.class 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9fe193d..b169534 100644 Binary files a/src/HartleyUtils/bin/qcUtils/qcInnerDistance$$anonfun$writeOutput$8.class and b/src/HartleyUtils/bin/qcUtils/qcInnerDistance$$anonfun$writeOutput$8.class differ diff --git a/src/HartleyUtils/bin/qcUtils/qcInnerDistance$.class b/src/HartleyUtils/bin/qcUtils/qcInnerDistance$.class index 404ec4d..71dfa83 100644 Binary files a/src/HartleyUtils/bin/qcUtils/qcInnerDistance$.class and b/src/HartleyUtils/bin/qcUtils/qcInnerDistance$.class differ diff --git a/src/HartleyUtils/bin/qcUtils/qcInnerDistance.class b/src/HartleyUtils/bin/qcUtils/qcInnerDistance.class index 1246340..8100c41 100644 Binary files a/src/HartleyUtils/bin/qcUtils/qcInnerDistance.class and b/src/HartleyUtils/bin/qcUtils/qcInnerDistance.class differ diff --git a/src/HartleyUtils/build.sbt b/src/HartleyUtils/build.sbt index 590610a..2c7cebe 100644 --- a/src/HartleyUtils/build.sbt +++ b/src/HartleyUtils/build.sbt @@ -2,8 +2,9 @@ import AssemblyKeys._ assemblySettings -scalaVersion := "2.11.1" +scalaVersion := "2.12.4" +scalacOptions := Seq("-unchecked", "-deprecation") jarName in assembly := "QoRTs.jar" diff --git a/src/HartleyUtils/src/main/scala/fileConversionUtils/addNovelSplices.scala b/src/HartleyUtils/src/main/scala/fileConversionUtils/addNovelSplices.scala index 12b2756..09b9c53 100644 --- a/src/HartleyUtils/src/main/scala/fileConversionUtils/addNovelSplices.scala +++ b/src/HartleyUtils/src/main/scala/fileConversionUtils/addNovelSplices.scala @@ -10,7 +10,7 @@ import internalUtils.commandLineUI._; import internalUtils.commonSeqUtils._; import internalUtils.genomicAnnoUtils._; import internalUtils.GtfTool._; -import scala.collection.JavaConversions._; +//import scala.collection.JavaConversions._; import internalUtils.genomicUtils._; import internalUtils.optionHolder._; diff --git a/src/HartleyUtils/src/main/scala/fileConversionUtils/bamToWiggle.scala b/src/HartleyUtils/src/main/scala/fileConversionUtils/bamToWiggle.scala index 43f951f..2b9b1e0 100644 --- a/src/HartleyUtils/src/main/scala/fileConversionUtils/bamToWiggle.scala +++ b/src/HartleyUtils/src/main/scala/fileConversionUtils/bamToWiggle.scala @@ -8,7 +8,7 @@ import java.io.InputStream import java.io.ByteArrayInputStream import java.io.FileInputStream import java.io.File -import scala.collection.JavaConversions._ +//import scala.collection.JavaConversions._ import net.sf.samtools._ @@ -20,9 +20,11 @@ import internalUtils.commandLineUI._; import internalUtils.commonSeqUtils._; import internalUtils.genomicAnnoUtils._; import internalUtils.GtfTool._; -import scala.collection.JavaConversions._; +//import scala.collection.JavaConversions._; import internalUtils.optionHolder._; +import scala.collection.JavaConverters._; + import internalUtils.genomicUtils._; import qcUtils.QCUtility; @@ -131,6 +133,18 @@ object bamToWiggle { argDesc = "A comma delimited list of integers from 0-255, indicating the rgb color and alt-color for the wiggle file."+ "This is equivalent to using --additionalTrackOptions \"color=r,g,b altColor=r,g,b itemRgb=On\"" ) :: + new BinaryOptionArgument[Int]( + name = "reservoirSample", + arg = List("--reservoirSample"), + valueName = "K", + argDesc = "Perform reservoir sampling to select a random subsample of size K. This uses linear time with respect to numReads, and linear memory usage with respect to K." + ) :: + new BinaryOptionArgument[Int]( + name = "reservoirSeed", + arg = List("--reservoirSeed"), + valueName = "s", + argDesc = "Random seed for use with reservoir sampling." + ) :: new UnaryArgument( name = "noTruncate", arg = List("--noTruncate"), // name of value argDesc = "The UCSC tool wigToBigWig only allows wiggle files in which every window is of equal size. "+ @@ -234,7 +248,9 @@ object bamToWiggle { parser.get[String]("additionalTrackOptions"), ! parser.get[Boolean]("nameSorted"), parser.get[Int]("minMAPQ"), - parser.get[Boolean]("checkForAlignmentBlocks") + parser.get[Boolean]("checkForAlignmentBlocks"), + parser.get[Option[Int]]("reservoirSample"), + parser.get[Option[Int]]("reservoirSeed") ); } } @@ -260,7 +276,9 @@ object bamToWiggle { includeTrackDef : Boolean, rgbColor : Option[String], additionalTrackOptions : String, - coordSorted : Boolean, minMAPQ : Int, checkForAlignmentBlocks : Boolean){ + coordSorted : Boolean, minMAPQ : Int, checkForAlignmentBlocks : Boolean, + reservoirSample : Option[Int], + reservoirSeed : Option[Int]){ //registerGlobalParam[Boolean]("noGzipOutput", noGzipOutput); internalUtils.optionHolder.OPTION_noGzipOutput = noGzipOutput; @@ -276,7 +294,14 @@ object bamToWiggle { else reportln("QoRTs is Running in name-sorted mode.","note"); } - val qcBTW : QcBamToWig = new QcBamToWig(trackName , chromLengthFile , noTruncate , windowSize , isSingleEnd, stranded , fr_secondStrand, sizeFactor, negativeReverseStrand, countPairsTogether , includeTrackDef, rgbColor, additionalTrackOptions); + val qcBTW : QCUtility[Unit] = reservoirSample match { + case None => { + new QcBamToWig(trackName , chromLengthFile , noTruncate , windowSize , isSingleEnd, stranded , fr_secondStrand, sizeFactor, negativeReverseStrand, countPairsTogether , includeTrackDef, rgbColor, additionalTrackOptions); + } + case Some(k) => { + new QcBamToWigReservoirSample(k,reservoirSeed,trackName , chromLengthFile , noTruncate , windowSize , isSingleEnd, stranded , fr_secondStrand, sizeFactor, negativeReverseStrand, countPairsTogether , includeTrackDef, rgbColor, additionalTrackOptions); + } + } standardStatusReport(initialTimeStamp); val postSetupStamp = TimeStampUtil(); @@ -300,7 +325,7 @@ object bamToWiggle { def runOnFile2( infile : String, - qcBTW : QcBamToWig, + qcBTW : QCUtility[Unit], testRun :Boolean, keepMultiMapped : Boolean, readGroup : Option[String], @@ -430,7 +455,7 @@ object bamToWiggle { }*/ def getReadBlocks(r : SAMRecord) : Vector[(Int,Int)] = { - r.getAlignmentBlocks().toVector.map((block) => { + r.getAlignmentBlocks().asScala.toVector.map((block) => { (block.getReferenceStart() - 1, block.getReferenceStart() - 1 + block.getLength()); }); } @@ -457,6 +482,130 @@ object bamToWiggle { }) } + + class QcBamToWigReservoirSample( + K : Int, seed : Option[Int], + trackName : String, chromLengthFile : String, + noTruncate : Boolean, windowSize : Int, + isSingleEnd: Boolean, stranded : Boolean, + fr_secondStrand : Boolean, sizeFactor : Double, + negativeReverseStrand : Boolean, countPairsTogether : Boolean, + includeTrackDef : Boolean, rgbColor : Option[String], + additionalTrackOptions : String) extends QCUtility[Unit] { + val rand = seed match{ + case Some(s) => new scala.util.Random(s); + case None => new scala.util.Random(); + } + + val chromMap : Map[(String,Char),Chrom] = genChrom(chromLengthFile, windowSize, stranded, ! noTruncate); + var unknownChromSet : Set[String] = Set[String](); + + val res = Array.ofDim[(String,Char,Vector[(Int,Int)])](K); + var n = 1; + + def runOnReadPair(r1 : SAMRecord, r2 : SAMRecord, readNum : Int){ + if(isSingleEnd){ + runOnRead(r1,readNum); + } else if(! countPairsTogether){ + runOnRead(r1,readNum*2-1); + runOnRead(r2,readNum*2); + } else { + if(n <= K){ + val chromName = r1.getReferenceName(); + val strand = internalUtils.commonSeqUtils.getStrand(r1 , stranded , fr_secondStrand ); + val blocks = getOverlappedPairBlocks(r1,r2); + res(readNum-1) = (chromName,strand,blocks); + } else { + val randNum = rand.nextInt(n) + 1; + if(randNum <= K){ + val chromName = r1.getReferenceName(); + val strand = internalUtils.commonSeqUtils.getStrand(r1 , stranded , fr_secondStrand ); + val blocks = getOverlappedPairBlocks(r1,r2); + res(randNum-1) = (chromName,strand,blocks); + } + } + n = n + 1; + } + } + + def runOnRead(r : SAMRecord,readNum : Int){ + if(readNum <= K){ + val chromName = r.getReferenceName(); + val strand = internalUtils.commonSeqUtils.getStrand(r , stranded , fr_secondStrand ); + val blocks = getReadBlocks(r); + res(readNum-1) = (chromName,strand,blocks); + } else { + val randNum = rand.nextInt(readNum) + 1; + if(randNum <= K){ + val chromName = r.getReferenceName(); + val strand = internalUtils.commonSeqUtils.getStrand(r , stranded , fr_secondStrand ); + val blocks = getReadBlocks(r); + res(randNum-1) = (chromName,strand,blocks); + } + } + n = n + 1; + } + + def writeOutput(outfile : String, summaryWriter : WriterUtil, docWriter : DocWriterUtil = null){ + res.filter(_ != null).foreach{ case (chromName,strand,blocks) => { + chromMap.get((chromName,strand)) match { + case Some(chrom) => { + chrom.countBlocks(blocks); + } + case None => { + if(! unknownChromSet.contains(chromName)){ + reportln("WARNING: Chromosome not found in the chromLengthFile: ["+chromName+","+strand+"]","deepDebug"); + unknownChromSet += chromName; + } + } + } + }} + + val windowString = if(windowSize == 100) "" else (".Win"+windowSize.toString()); + + if(stranded){ + val writerF = openWriterSmart_viaGlobalParam(outfile + windowString + ".fwd.wig"); + val writerR = openWriterSmart_viaGlobalParam(outfile + windowString + ".rev.wig"); + val rgbColorString = if(rgbColor.isEmpty) " " else " color="+rgbColor.get+" altColor="+rgbColor.get +" itemRgb=On"; + val additionalOptionsString = " "+additionalTrackOptions+" "; + if(includeTrackDef){ + writerF.write("track name="+trackName+"_FWD type=wiggle_0 visibility=full"+rgbColorString+additionalOptionsString+"\n"); + writerR.write("track name="+trackName+"_REV type=wiggle_0 visibility=full"+rgbColorString+additionalOptionsString+"\n"); + } + + val sortedKeyList : Vector[(String,Char)] = chromMap.keySet.toVector.sorted + for(chromPairs <- sortedKeyList){ + val chrom = chromMap(chromPairs); + if(chrom.chromStrand == '+'){ + writeChrom(chrom,writerF,sizeFactor,false); + } else { + writeChrom(chrom,writerR,sizeFactor,negativeReverseStrand); + } + } + close(writerF); + close(writerR); + } else { + val writer = openWriterSmart_viaGlobalParam(outfile + windowString + ".unstranded.wig"); + val rgbColorString = if(rgbColor.isEmpty) " " else " color="+rgbColor.get+" altColor="+rgbColor.get +" "; + val additionalOptionsString = " "+additionalTrackOptions+" "; + if(includeTrackDef){ + writer.write("track name="+trackName+" type=wiggle_0 "+rgbColorString+" "+additionalOptionsString+"\n"); + } + + val sortedKeyList : Vector[(String,Char)] = chromMap.keySet.toVector.sorted + for(chromPairs <- sortedKeyList){ + val chrom = chromMap(chromPairs); + writeChrom(chrom,writer,sizeFactor,false); + } + close(writer); + } + } + + def getUtilityName : String = "bamToWig"; + + } + + class QcBamToWig(trackName : String, chromLengthFile : String, noTruncate : Boolean, windowSize : Int, diff --git a/src/HartleyUtils/src/main/scala/fileConversionUtils/prepFlatGtfFile.scala b/src/HartleyUtils/src/main/scala/fileConversionUtils/prepFlatGtfFile.scala index 55882dc..8ae9df8 100644 --- a/src/HartleyUtils/src/main/scala/fileConversionUtils/prepFlatGtfFile.scala +++ b/src/HartleyUtils/src/main/scala/fileConversionUtils/prepFlatGtfFile.scala @@ -9,7 +9,7 @@ import java.io.InputStream import java.io.ByteArrayInputStream import java.io.FileInputStream import java.io.File -import scala.collection.JavaConversions._ +//import scala.collection.JavaConversions._ import scala.collection.mutable.HashMap; import net.sf.samtools._ @@ -25,7 +25,7 @@ import internalUtils.commonSeqUtils._; import internalUtils.genomicUtils._; import internalUtils.genomicAnnoUtils._; import internalUtils.GtfTool._; -import scala.collection.JavaConversions._ +//import scala.collection.JavaConversions._ object prepFlatGtfFile { @@ -178,7 +178,7 @@ object prepFlatGtfFile { txMap += (tx -> gene); txArray.addSpan(gtfLine.getGenomicInterval, tx); - if(geneInfoMap.containsKey(gene)){ + if(geneInfoMap.contains(gene)){ val (geneStrand, geneTxSet) = geneInfoMap(gene); val newStrand = if(geneStrand != strandedStrand){ '.'; @@ -186,7 +186,7 @@ object prepFlatGtfFile { geneStrand; } - if(! geneTxSet.containsKey(tx) ){ + if(! geneTxSet.contains(tx) ){ geneInfoMap += ((gene, (newStrand, geneTxSet.updated(tx,strandedStrand)))) } } else { @@ -205,7 +205,7 @@ object prepFlatGtfFile { for((iv, txSet) <- txArray.getSteps(chromName,strand)){ for(tx <- txSet){ - if(lastExonTxMap.containsKey(tx)){ + if(lastExonTxMap.contains(tx)){ val prevExonEnd = lastExonTxMap(tx); if(iv.start != prevExonEnd){ val spliceIV = new GenomicInterval(chromName,strand,prevExonEnd,iv.start); @@ -403,7 +403,7 @@ object prepFlatGtfFile { reportln(" FlatteningGtf: Compiling Aggregate Info . . . ("+getDateAndTimeString+")","debug"); val aggregateInfoMap = scala.collection.mutable.AnyRefMap[String, (Char, Int, Map[String,Char])](); for((g,a) <- aggregateGeneMap){ - if(aggregateInfoMap.containsKey(a)){ + if(aggregateInfoMap.contains(a)){ val (geneStrand, geneTxMap) = geneInfoMap(g); val (aggregateStrand, geneCt, aggregateTxMap) = aggregateInfoMap(a); val newAggregateStrand = if(geneStrand != aggregateStrand){ diff --git a/src/HartleyUtils/src/main/scala/internalUtils/commonSeqUtils.scala b/src/HartleyUtils/src/main/scala/internalUtils/commonSeqUtils.scala index 2353f02..4eb79ac 100644 --- a/src/HartleyUtils/src/main/scala/internalUtils/commonSeqUtils.scala +++ b/src/HartleyUtils/src/main/scala/internalUtils/commonSeqUtils.scala @@ -7,8 +7,9 @@ import internalUtils.stdUtils._; import internalUtils.fileUtils._; import internalUtils.commandLineUI._; import java.io.File; +import scala.collection.JavaConverters._; -import scala.collection.JavaConversions._ +//import scala.collection.JavaConversions._ object commonSeqUtils { @@ -36,22 +37,23 @@ object commonSeqUtils { } def getTailClipping(r : SAMRecord) : Int = { - val lastCigarElement = r.getCigar().getCigarElements().last; + val cigElements = r.getCigar().getCigarElements().asScala + val lastCigarElement = cigElements.last; if(lastCigarElement.getOperator().equals(CigarOperator.SOFT_CLIP)){ return lastCigarElement.getLength(); } else if(lastCigarElement.getOperator().equals(CigarOperator.HARD_CLIP)){ - val nextToLastCigarElement = r.getCigar().getCigarElements().takeRight(2).head; + val nextToLastCigarElement = cigElements.takeRight(2).head; if(nextToLastCigarElement.getOperator().equals(CigarOperator.SOFT_CLIP)){ return nextToLastCigarElement.getLength(); } else return 0; } else return 0; } def getLeadClipping(r : SAMRecord) : Int = { - val firstCigarElement = r.getCigar().getCigarElements().head; + val firstCigarElement = r.getCigar().getCigarElements().asScala.head; if(firstCigarElement.getOperator().equals(CigarOperator.SOFT_CLIP)){ return firstCigarElement.getLength(); } else if(firstCigarElement.getOperator().equals(CigarOperator.HARD_CLIP)){ - val secondCigarElement = r.getCigar().getCigarElements().tail.head; + val secondCigarElement = r.getCigar().getCigarElements().asScala.tail.head; if(secondCigarElement.getOperator().equals(CigarOperator.SOFT_CLIP)){ return secondCigarElement.getLength(); } else return 0; @@ -377,9 +379,9 @@ object commonSeqUtils { */ def getCigarSeq(r : SAMRecord, reverse : Boolean) : Seq[CigarElement] = { if(reverse){ - r.getCigar().getCigarElements().toVector.reverse; + r.getCigar().getCigarElements().asScala.toVector.reverse; } else { - r.getCigar().getCigarElements().toVector; + r.getCigar().getCigarElements().asScala.toVector; } } @@ -399,7 +401,7 @@ object commonSeqUtils { def getUnclippedReadLength(r : SAMRecord) : Int = { val baseLength = r.getReadLength(); if(! r.getReadUnmappedFlag()){ - val cigar = r.getCigar().getCigarElements(); + val cigar = r.getCigar().getCigarElements().asScala; val leftClip = if(cigar.head.getOperator() == CigarOperator.HARD_CLIP) cigar.head.getLength() else 0; val rightClip = if(cigar.last.getOperator() == CigarOperator.HARD_CLIP) cigar.last.getLength() else 0; baseLength + leftClip + rightClip; @@ -489,7 +491,7 @@ object commonSeqUtils { def getBasePairsWithH(r : SAMRecord, readLength : Int, assumeTailClipping : Boolean) : Seq[Byte] = { if(r.getReadNegativeStrandFlag()){ val readBases = r.getReadBases().toVector.reverse; - val cigarElements = r.getCigar().getCigarElements() + val cigarElements = r.getCigar().getCigarElements().asScala val leadCigarElement = cigarElements.last; val tailCigarElement = cigarElements.head; @@ -507,7 +509,7 @@ object commonSeqUtils { } } else { val readBases = r.getReadBases().toVector; - val cigarElements = r.getCigar().getCigarElements() + val cigarElements = r.getCigar().getCigarElements().asScala val leadCigarElement = cigarElements.head; val tailCigarElement = cigarElements.last; @@ -535,7 +537,7 @@ object commonSeqUtils { } case class CigarHolder(cigar : Cigar, alignmentStart : Int, chromName : String, strand : Char){ - lazy val cigOps : Stream[CigOp] = cigar.getCigarElements.toStream.scanLeft[(Int,Int,CigOp),Stream[(Int,Int,CigOp)]]( (alignmentStart,0,null) )( (startTriplet , ce) => { + lazy val cigOps : Stream[CigOp] = cigar.getCigarElements.asScala.toStream.scanLeft[(Int,Int,CigOp),Stream[(Int,Int,CigOp)]]( (alignmentStart,0,null) )( (startTriplet , ce) => { val (ref_start, read_start, prev) = startTriplet; val newOp = CigOp(ce, ref_start, read_start, chromName, strand); ((newOp.ref_end, newOp.read_end, newOp)) @@ -665,7 +667,7 @@ object commonSeqUtils { val header = reader.getFileHeader(); // Check alignment software - val alignmentProgramList : List[SAMProgramRecord] = header.getProgramRecords().toList; + val alignmentProgramList : List[SAMProgramRecord] = header.getProgramRecords().asScala.toList; //Check for tophat 2, print note: alignmentProgramList.find( (pr : SAMProgramRecord) => pr.getId() == "TopHat" ) match { @@ -686,7 +688,7 @@ object commonSeqUtils { } - val iter : Iterator[SAMRecord] = reader.iterator(); + val iter : Iterator[SAMRecord] = reader.asScala.iterator; var peekRecords = Seq[SAMRecord](); for(i <- 0 until peekCount){ @@ -779,7 +781,7 @@ object commonSeqUtils { val numPeekReadsPaired : Int = peekRecords.count(r => r.getReadPairedFlag()); val numPeekReadsPairMapped : Int = peekPairMapped.length; val peekReadNameSet : Set[String] = peekPairMapped.map(_.getReadName()).toSet; - val numPeekPairs : Int = peekReadNameSet.size(); + val numPeekPairs : Int = peekReadNameSet.size; val numPeekPairsMatched : Int = peekReadNameSet.count( id => { peekPairMapped.count(r => r.getReadName() == id) == 2; }); @@ -1071,9 +1073,9 @@ object commonSeqUtils { } val nextName = readOrder.head; readOrder = readOrder.tail; - if(buffer.containsKey(nextName)) return buffer.remove(nextName).get; + if(buffer.contains(nextName)) return buffer.remove(nextName).get; - while(iter.hasNext && (! buffer.containsKey(nextName))){ + while(iter.hasNext && (! buffer.contains(nextName))){ addNextPairToBuffer; if(bufferWarningSize < buffer.size){ reportln("NOTE: Unmatched Read-PAIR-Buffer Size > "+bufferWarningSize+" [Mem usage:"+MemoryUtil.memInfo+"]","note"); @@ -1090,7 +1092,7 @@ object commonSeqUtils { bufferWarningSize = bufferWarningSize * warningSizeMultiplier; } } - if(!buffer.containsKey(nextName)){ + if(!buffer.contains(nextName)){ internalUtils.Reporter.error("ERROR ERROR ERROR: Reached end of bam file, there are "+(pairContainer.size+1)+" orphaned reads, which are marked as having a mapped pair, but no corresponding pair is found in the bam file. \n(Example Orphaned Read Name: "+nextName+")"); } diff --git a/src/HartleyUtils/src/main/scala/internalUtils/genomicAnnoUtils.scala b/src/HartleyUtils/src/main/scala/internalUtils/genomicAnnoUtils.scala index 93ca039..f1cece0 100644 --- a/src/HartleyUtils/src/main/scala/internalUtils/genomicAnnoUtils.scala +++ b/src/HartleyUtils/src/main/scala/internalUtils/genomicAnnoUtils.scala @@ -9,7 +9,8 @@ import internalUtils.Reporter._; import internalUtils.commonSeqUtils._; import internalUtils.genomicAnnoUtils._; import internalUtils.GtfTool._; -import scala.collection.JavaConversions._ +//import scala.collection.JavaConversions._ +import scala.collection.JavaConverters._; object genomicAnnoUtils { @@ -19,7 +20,7 @@ object genomicAnnoUtils { /* - * Useful classes: + * Useful classes: */ abstract class EfficientGenomeSeqContainer { def currIter : Iterator[String]; @@ -194,7 +195,7 @@ object genomicAnnoUtils { def currIter = currentIter; def switchToChrom(chrom : String){ - if(fastaMap.containsKey(chrom)){ + if(fastaMap.contains(chrom)){ currentIter = internalUtils.fileUtils.getLinesSmartUnzip(fastaMap(chrom)).drop(1).map(_.toUpperCase()); clearBuffer(); currChrom = chrom; diff --git a/src/HartleyUtils/src/main/scala/internalUtils/genomicUtils.scala b/src/HartleyUtils/src/main/scala/internalUtils/genomicUtils.scala index 7c2e6de..3b6e2d0 100644 --- a/src/HartleyUtils/src/main/scala/internalUtils/genomicUtils.scala +++ b/src/HartleyUtils/src/main/scala/internalUtils/genomicUtils.scala @@ -10,7 +10,8 @@ import internalUtils.commonSeqUtils._; import internalUtils.genomicAnnoUtils._; import net.sf.samtools._ -import scala.collection.JavaConversions._; +//import scala.collection.JavaConversions._; +import scala.collection.JavaConverters._; object genomicUtils { @@ -48,7 +49,7 @@ object genomicUtils { def getGenomicIntervalsFromRead(r : SAMRecord, stranded : Boolean, fr_secondStrand : Boolean) : Iterator[GenomicInterval] = { val strand = getStrand(r,stranded,fr_secondStrand); - val blocks : Iterator[AlignmentBlock] = r.getAlignmentBlocks().iterator; + val blocks : Iterator[AlignmentBlock] = r.getAlignmentBlocks().asScala.iterator; val chromName = r.getReferenceName(); return new Iterator[GenomicInterval](){ @@ -66,7 +67,7 @@ object genomicUtils { else if(rawStrand == '+') '-'; else '+'; } - val blocks : Iterator[AlignmentBlock] = r.getAlignmentBlocks().iterator; + val blocks : Iterator[AlignmentBlock] = r.getAlignmentBlocks().asScala.iterator; val chromName = r.getReferenceName(); return new Iterator[GenomicInterval](){ diff --git a/src/HartleyUtils/src/main/scala/qcUtils/qcCigarDistribution.scala b/src/HartleyUtils/src/main/scala/qcUtils/qcCigarDistribution.scala index 620d5ed..b423747 100644 --- a/src/HartleyUtils/src/main/scala/qcUtils/qcCigarDistribution.scala +++ b/src/HartleyUtils/src/main/scala/qcUtils/qcCigarDistribution.scala @@ -8,8 +8,9 @@ import java.io.InputStream import java.io.ByteArrayInputStream import java.io.FileInputStream import java.io.File -import scala.collection.JavaConversions._ +//import scala.collection.JavaConversions._ import scala.collection.mutable.HashMap; +import scala.collection.JavaConverters._; import net.sf.samtools._ @@ -70,9 +71,9 @@ object qcCigarDistribution { var readPos = 0; val elementList : List[CigarElement] = if(reverse) { - c.getCigarElements().toList.reverse; + c.getCigarElements().asScala.toList.reverse; } else { - c.getCigarElements().toList; + c.getCigarElements().asScala.toList; } for(ce : CigarElement <- elementList){ diff --git a/src/HartleyUtils/src/main/scala/qcUtils/qcCigarMatch.scala b/src/HartleyUtils/src/main/scala/qcUtils/qcCigarMatch.scala index e3d4bb0..dd76394 100644 --- a/src/HartleyUtils/src/main/scala/qcUtils/qcCigarMatch.scala +++ b/src/HartleyUtils/src/main/scala/qcUtils/qcCigarMatch.scala @@ -9,7 +9,8 @@ import internalUtils.commandLineUI._; import internalUtils.commonSeqUtils._; import internalUtils.genomicAnnoUtils._; import internalUtils.GtfTool._; -import scala.collection.JavaConversions._; +//import scala.collection.JavaConversions._; +import scala.collection.JavaConverters._; import internalUtils.genomicUtils._; import internalUtils.optionHolder._; @@ -297,8 +298,8 @@ class qcCigarMatch(readLen : Int) extends QCUtility[Unit] { //Count NO_OVERLAP } else { //COUNT OVERLAP - val bf : Vector[AlignmentBlock] = rf.getAlignmentBlocks().toVector; - val br : Vector[AlignmentBlock] = rr.getAlignmentBlocks().toVector; + val bf : Vector[AlignmentBlock] = rf.getAlignmentBlocks().asScala.toVector; + val br : Vector[AlignmentBlock] = rr.getAlignmentBlocks().asScala.toVector; val blocksOverlap = bf.exists( a => br.exists( b => qcCigarMatch.doBlocksIntersect(a,b) ) ); if(! blocksOverlap){ misOverlap += 1; diff --git a/src/HartleyUtils/src/main/scala/qcUtils/qcFeatureComboCt.scala b/src/HartleyUtils/src/main/scala/qcUtils/qcFeatureComboCt.scala index 58b1464..8c5b599 100644 --- a/src/HartleyUtils/src/main/scala/qcUtils/qcFeatureComboCt.scala +++ b/src/HartleyUtils/src/main/scala/qcUtils/qcFeatureComboCt.scala @@ -11,7 +11,8 @@ import internalUtils.commandLineUI._; import internalUtils.commonSeqUtils._; import internalUtils.genomicAnnoUtils._; import internalUtils.GtfTool._; -import scala.collection.JavaConversions._; +//import scala.collection.JavaConversions._; +import scala.collection.JavaConverters._; import internalUtils.genomicUtils._; import internalUtils.optionHolder._; @@ -159,8 +160,8 @@ class qcFeatureComboCt(anno_holder : qcGtfAnnotationBuilder, stranded : Boolean, // novelSplices.toVector.sorted // )); - val insertions = r1.getCigar().getCigarElements().filter(_.getOperator() == CigarOperator.INSERTION).map(_.getLength()); - val deletions = r1.getCigar().getCigarElements().filter(_.getOperator() == CigarOperator.DELETION).map(_.getLength()); + val insertions = r1.getCigar().getCigarElements().asScala.filter(_.getOperator() == CigarOperator.INSERTION).map(_.getLength()); + val deletions = r1.getCigar().getCigarElements().asScala.filter(_.getOperator() == CigarOperator.DELETION).map(_.getLength()); val indelTotal = insertions.sum + deletions.sum; val featureSet = readExonSet ++ knownSplices; diff --git a/src/HartleyUtils/src/main/scala/qcUtils/qcGetGeneCounts.scala b/src/HartleyUtils/src/main/scala/qcUtils/qcGetGeneCounts.scala index 5d212d7..c800437 100644 --- a/src/HartleyUtils/src/main/scala/qcUtils/qcGetGeneCounts.scala +++ b/src/HartleyUtils/src/main/scala/qcUtils/qcGetGeneCounts.scala @@ -10,7 +10,8 @@ import internalUtils.commandLineUI._; import internalUtils.commonSeqUtils._; import internalUtils.genomicAnnoUtils._; import internalUtils.GtfTool._; -import scala.collection.JavaConversions._; +//import scala.collection.JavaConversions._; +import scala.collection.JavaConverters._; import internalUtils.genomicUtils._; @@ -94,7 +95,7 @@ object qcGetGeneCounts { } private def helper_findReadIntervalCoverage(r : SAMRecord, intervalVector : Vector[TreeSet[GenomicInterval]]) : Set[Int] = { - return r.getAlignmentBlocks.iterator.foldLeft( Set[Int]() )( (sofar, currBlock) => { + return r.getAlignmentBlocks.asScala.iterator.foldLeft( Set[Int]() )( (sofar, currBlock) => { val (start,end) = (currBlock.getReferenceStart() - 1, currBlock.getReferenceStart - 1 + currBlock.getLength()); sofar ++ helper_findSpanIntervalCoverage(start,end,intervalVector); }); diff --git a/src/HartleyUtils/src/main/scala/qcUtils/qcGtfAnnotationBuilder.scala b/src/HartleyUtils/src/main/scala/qcUtils/qcGtfAnnotationBuilder.scala index 87a0294..d27f0d2 100644 --- a/src/HartleyUtils/src/main/scala/qcUtils/qcGtfAnnotationBuilder.scala +++ b/src/HartleyUtils/src/main/scala/qcUtils/qcGtfAnnotationBuilder.scala @@ -4,7 +4,7 @@ import internalUtils.commonSeqUtils._; import internalUtils.genomicUtils._; import internalUtils.genomicAnnoUtils._; import internalUtils.GtfTool._; -import scala.collection.JavaConversions._ +//import scala.collection.JavaConversions._ import internalUtils.Reporter._; import internalUtils.stdUtils._; import internalUtils.fileUtils._; @@ -12,6 +12,7 @@ import internalUtils.commandLineUI._; import scala.collection.immutable.TreeSet; import internalUtils.optionHolder._; +import scala.collection.JavaConverters._; import scala.collection.GenMap; @@ -211,7 +212,7 @@ object qcGtfAnnotationBuilder { //if(gtfLine.featureType == codes.STD_EXON_TYPE_CODE){ if(! geneOpt.isEmpty){ val geneID = geneOpt.get; - if(! out.containsKey(geneID)){ + if(! out.contains(geneID)){ gtfLine.getAttribute(codes.BIOTYPE_ATTRIBUTE_KEY) match { case Some(b) => { bioset += b; diff --git a/src/HartleyUtils/src/main/scala/qcUtils/qcInnerDistance.scala b/src/HartleyUtils/src/main/scala/qcUtils/qcInnerDistance.scala index 856c315..f9e1088 100644 --- a/src/HartleyUtils/src/main/scala/qcUtils/qcInnerDistance.scala +++ b/src/HartleyUtils/src/main/scala/qcUtils/qcInnerDistance.scala @@ -9,8 +9,9 @@ import java.io.InputStream import java.io.ByteArrayInputStream import java.io.FileInputStream import java.io.File -import scala.collection.JavaConversions._ +//import scala.collection.JavaConversions._ import scala.collection.immutable.HashMap; +import scala.collection.JavaConverters._; import net.sf.samtools._ @@ -193,7 +194,7 @@ object qcInnerDistance { } def getInsertSize_staggeredOverlap(rf : SAMRecord, rr : SAMRecord) : Int = { - val clipF = rf.getAlignmentBlocks.head.getReadStart() - 1; + val clipF = rf.getAlignmentBlocks.asScala.head.getReadStart() - 1; //val clipR = rr.getAlignmentBlocks.head.getReadStart() - 1; val startF = getAlignmentStart(rf); @@ -271,7 +272,7 @@ object qcInnerDistance { } def getReadLengthToIntersect(rFirst : SAMRecord, rLast : SAMRecord) : Int = { - val abFirst = rFirst.getAlignmentBlocks.toSeq; + val abFirst = rFirst.getAlignmentBlocks.asScala.toSeq; val startLast = getAlignmentStart(rLast); //val clipLast = getLeadClipping(rLast); for(ab <- abFirst){ @@ -312,8 +313,8 @@ object qcInnerDistance { * (lengthToIntersect, overlapAmt, overlapSpliceCt, code) */ def getReadLengthToIntersectAndOtherInfo(r1 : SAMRecord, r2 : SAMRecord) : (Int, Int, Int, String) = { - val r1blocks = r1.getAlignmentBlocks.toVector; - val r2blocks = r2.getAlignmentBlocks.toVector; + val r1blocks = r1.getAlignmentBlocks.asScala.toVector; + val r2blocks = r2.getAlignmentBlocks.asScala.toVector; val (r1start, r1end) = ( getAlignmentStart(r1), getAlignmentEnd(r1) ); val (r2start, r2end) = ( getAlignmentStart(r2), getAlignmentEnd(r2) ); //val clipLast = getLeadClipping(rLast); diff --git a/src/HartleyUtils/src/main/scala/runner/runner.scala b/src/HartleyUtils/src/main/scala/runner/runner.scala index 5626121..c3af665 100644 --- a/src/HartleyUtils/src/main/scala/runner/runner.scala +++ b/src/HartleyUtils/src/main/scala/runner/runner.scala @@ -9,9 +9,9 @@ import internalUtils.commandLineUI._; object runner { - final val QORTS_VERSION = "1.2.42"; // REPLACE_THIS_QORTS_VERSION_VARIABLE_WITH_VERSION_NUMBER (note this exact text is used in a search-and-replace. Do not change it.) - final val QORTS_COMPILE_DATE = "Fri Jun 2 12:23:55 EDT 2017"; // REPLACE_THIS_QORTS_DATE_VARIABLE_WITH_DATE (note this exact text is used in a search-and-replace. Do not change it.) - final val QORTS_COMPILE_TIME : Long = 1496420635; // REPLACE_THIS_QORTS_DATE_VARIABLE_WITH_TIME (note this exact text is used in a search-and-replace. Do not change it.) + final val QORTS_VERSION = "1.3.0"; // REPLACE_THIS_QORTS_VERSION_VARIABLE_WITH_VERSION_NUMBER (note this exact text is used in a search-and-replace. Do not change it.) + final val QORTS_COMPILE_DATE = "Fri Oct 20 11:56:37 EDT 2017"; // REPLACE_THIS_QORTS_DATE_VARIABLE_WITH_DATE (note this exact text is used in a search-and-replace. Do not change it.) + final val QORTS_COMPILE_TIME : Long = 1508514997; // REPLACE_THIS_QORTS_DATE_VARIABLE_WITH_TIME (note this exact text is used in a search-and-replace. Do not change it.) final val QORTS_MAJOR_VERSION = QORTS_VERSION.split("\\.")(0); final val QORTS_MINOR_VERSION = QORTS_VERSION.split("\\.")(1); diff --git a/src/QoRTs/DESCRIPTION b/src/QoRTs/DESCRIPTION index 74d80d8..fbfc1cd 100644 --- a/src/QoRTs/DESCRIPTION +++ b/src/QoRTs/DESCRIPTION @@ -1,6 +1,6 @@ Package: QoRTs -Version: 1.2.42 -Date: 2017-06-02 +Version: 1.3.0 +Date: 2017-10-20 Title: Quality of RNA-seq Tool Authors@R: c(person("Stephen Hartley, PhD", "Developer", role = c("aut", "cre"), email = "QoRTs-contact@list.nih.gov")) diff --git a/src/QoRTs/R/internal.plotting.func.R b/src/QoRTs/R/internal.plotting.func.R index ba0ff9a..6d6b459 100644 --- a/src/QoRTs/R/internal.plotting.func.R +++ b/src/QoRTs/R/internal.plotting.func.R @@ -2390,7 +2390,7 @@ makePlot.generic.points.right <- function(plot.name, tf.list, plotter, plot.type - +AUTOFIT.ITERATION.LIMIT <- 100; ######################################################################################################################## ######################################################################################################################## @@ -2468,10 +2468,13 @@ internal.plot.legend <- function(plotter, legend.type, legend.pos, #isTooBig <- function(x){ # x$rect$w > abs(autofit.limits[1] - autofit.limits[2]) || x$rect$h > abs(autofit.limits[3] - autofit.limits[4]); #} + iterCt <- 0; if(isTooBig(x)){ new.cex <- 1; - while(isTooBig(x)){ + + while(isTooBig(x) && iterCt < AUTOFIT.ITERATION.LIMIT){ new.cex <- new.cex * 0.9; + iterCt <- iterCt + 1; x <- legend(legend.pos, legend=plotter$legend.params$name, lty=plotter$legend.params$lines.lty, @@ -2486,9 +2489,10 @@ internal.plot.legend <- function(plotter, legend.type, legend.pos, } else { test.cex <- 1; new.cex <- 1; - while(! isTooBig(x)){ + while(! isTooBig(x) && iterCt < AUTOFIT.ITERATION.LIMIT){ new.cex <- test.cex; test.cex <- new.cex * 1.1; + iterCt <- iterCt + 1; x <- legend(legend.pos, legend=plotter$legend.params$name, lty=plotter$legend.params$lines.lty, diff --git a/src/QoRTs/R/minor.utils.R b/src/QoRTs/R/minor.utils.R index c6d4ca5..6408c60 100644 --- a/src/QoRTs/R/minor.utils.R +++ b/src/QoRTs/R/minor.utils.R @@ -218,7 +218,7 @@ draw.logyaxis.stdScalePlot <- function(ylim, ylim.truncate, lwd, lwd.mini, tcl = ticks_log10 <- ticks_log10[ticks_log10 >= ylim.truncate[1] & ticks_log10 <= ylim.truncate[2]]; } - axis(side, at = decades_log10, labels=decade.labels, lwd = -1, lwd.ticks = lwd, tcl = tcl, las = 1, ...); + axis(side, at = decades_log10, labels=as.expression(decade.labels), lwd = -1, lwd.ticks = lwd, tcl = tcl, las = 1, ...); axis(side, at = ticks_log10, labels=FALSE, lwd = -1, lwd.ticks = lwd.mini, tcl = tcl / 2, ...); } @@ -630,6 +630,8 @@ reportMemoryUsage <- function(res){ #################################################################################### ### Text fitting functions: +AUTOFIT.ITERATION.LIMIT <- 100; + title.autofit.main <- function(main = NULL, cex = par("cex.main"), ...){ if(! is.null(main)){ cex <- fit.title(title.text = main, cex.main = cex); @@ -702,9 +704,11 @@ strheightSRT90 <- function(s, cex = NULL, ...){ shrink.character.vector.VERT <- function(strs, curr.cex, max.height){ curr.height <- max(strheightSRT90(strs, cex = curr.cex)) - while(curr.height > max.height){ + iterCt <- 0; + while(curr.height > max.height && iterCt < AUTOFIT.ITERATION.LIMIT){ curr.cex <- curr.cex * 0.9 curr.height <- max(strheightSRT90(strs, cex = curr.cex)) + iterCt <- iterCt + 1; } return(curr.cex) } diff --git a/src/QoRTs/man/makePlot.overlap.Rd b/src/QoRTs/man/makePlot.overlap.Rd index 2fa4f8b..7ea5ab3 100644 --- a/src/QoRTs/man/makePlot.overlap.Rd +++ b/src/QoRTs/man/makePlot.overlap.Rd @@ -42,6 +42,19 @@ plot = TRUE, ...) + makePlot.overlapMismatch.byCycle(plotter, + plot.rates = TRUE, + noIndel = TRUE, + log.y = TRUE, + singleEndMode = plotter$res@singleEnd, + rasterize.plotting.area = FALSE, + raster.height = 1000, + raster.width = 1000, + debugMode, + r2.buffer, + plot = TRUE, + ...) + makePlot.overlapMismatch.byQual.min(plotter, plot.rates = TRUE, log.y = TRUE, @@ -204,6 +217,7 @@ plotter <- build.plotter.colorByGroup(res); makePlot.overlap.coverage(plotter) makePlot.overlapMismatch.size(plotter) + makePlot.overlapMismatch.byCycle(plotter) makePlot.overlapMismatch.byQual.min(plotter) makePlot.overlapMismatch.byQual.read(plotter) makePlot.overlapMismatch.byBase(plotter)