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[[Media:BamUtilLibStatGen.1.0.2.tgz|BamUtilLibStatGen.1.0.2.tgz]] - Released 05/16/2012
[[Media:BamUtilLibStatGen.1.0.3.tgz|BamUtilLibStatGen.1.0.3.tgz]] - Released 09/19/2012
'''BamUtilLibStatGen.1.0.2 Release Notes'''
'''BamUtilLibStatGen.1.0.3 Release Notes'''
* Contains: [[LibStatGen Download#Official Releases|libStatGen version 1.0.2]]
* Contains: [[LibStatGen Download#Official Releases|libStatGen version 1.0.3]]
* Adds: [[BamUtil: bam2FastQ|bam2FastQ]]
* Adds: [[BamUtil: dedup|dedup]] [[BamUtil: recab|recab]]
'''Older Releases'''
'''Older Releases'''
*[[Media:BamUtilLibStatGen.1.0.2.tgz|BamUtilLibStatGen.1.0.2.tgz]] - Released 05/16/2012
** Contains: [[LibStatGen Download#Official Releases|libStatGen version 1.0.2]]
** Adds: [[BamUtil: bam2FastQ|bam2FastQ]]
*[[Media:BamUtilLibStatGen.1.0.1.tgz|BamUtilLibStatGen.1.0.1.tgz]] - Released 05/04/2012
*[[Media:BamUtilLibStatGen.1.0.1.tgz|BamUtilLibStatGen.1.0.1.tgz]] - Released 05/04/2012
** Contains: [[LibStatGen Download#Official Releases|libStatGen version 1.0.1]]
** Contains: [[LibStatGen Download#Official Releases|libStatGen version 1.0.1]]
To install an official release, unpack the downloaded file (tar xvf), cd into the bamUtil_x.x.x directory and type make all.
To install an official release, unpack the downloaded file (tar xvf), cd into the bamUtil_x.x.x directory and type make all.
[[Media:BamUtil.1.0.2.tgz|BamUtil.1.0.2.tgz]] - Released 05/16/2012
[[Media:BamUtil.1.0.3.tgz|BamUtil.1.0.3.tgz]] - Released 09/19/2012
'''BamUtil.1.0.3 Release Notes'''
* Adds: [[BamUtil: dedup|dedup]] [[BamUtil: recab|recab]]
* General Updates
** Update Logger to write to stderr if output is stdout
* Update to [[BamUtil: stats|stats]]
** Add required/exclude flags
** Exclude Clips if excluding umapped
** Add --withinRegion flag
** Update phred/qual counts to be uint64_t instead of int to avoid overflow
* Update to [[BamUtil: validate|validate]]
** Detect header failures
* Update to [[BamUtil: diff|diff]]
** Update to specify chromosome/pos in ZP as a string rather than int so both can be shown
* Update to [[BamUtil: readReference|readReference]]
** Output error message if the reference name is not found
* Update to [[BamUtil: splitChromosome|splitChromosome]]
** Update to actually split the chromosomes and not just hard coded to output chromosomes ids 0-22
* Update Makefile to have cloneLib for cloning libStatGen
'''Older Releases'''
'''Older Releases'''
*[[Media:BamUtil.1.0.2.tgz|BamUtil.1.0.2.tgz]] - Released 05/16/2012
** Adds: [[BamUtil: bam2FastQ|bam2FastQ]]
*[[Media:BamUtil.1.0.1.tgz|BamUtil.1.0.1.tgz]] - Released 05/04/2012
*[[Media:BamUtil.1.0.1.tgz|BamUtil.1.0.1.tgz]] - Released 05/04/2012
** Adds: [[BamUtil: splitBam|splitBam]], [[BamUtil: clipOverlap|clipOverlap]], [[BamUtil: trimBam|trimBam]], [[BamUtil: polishBam|polishBam]], [[BamUtil: rgMergeBam|rgMergeBam]], [[BamUtil: gapInfo|gapInfo]]
** Adds: [[BamUtil: splitBam|splitBam]], [[BamUtil: clipOverlap|clipOverlap]], [[BamUtil: trimBam|trimBam]], [[BamUtil: polishBam|polishBam]], [[BamUtil: rgMergeBam|rgMergeBam]], [[BamUtil: gapInfo|gapInfo]]
