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For information on issues/resolutions for specific versions, see: [[GotCloud:_FAQs#Version_Problems|FAQ: Version Problems]]
For information on issues/resolutions for specific versions, see: [[GotCloud:_FAQs#Version_Problems|FAQ: Version Problems]]
== Version 1.13 (Full Release on 7/15/2014) ==
''' General '''
* Cleanup runcluster
* Upgrade to bamUtil v1.0.12a
* Upgrade to libStatGen v1.0.12
* Update README to add build instructions & wiki references
'''Aligner'''
* Increment to latest VerifyBamID
'''Variant Calling'''
* Update glfMultiples to handle when first glf is empty
* Add check for the output file before creating the .OK file
* VcfPileup - improve return codes
* Write jobfiles into a sub-directory
* Added a snpcall monitoring utility
* VcfSplit - update to only append .gz in the vcflist if there was at least one file
* Write start/stop timestamps into a logfile (generated by runcluster)
'''Genotype Refinement'''
* Update beagle2Vcf.pl to use 255 for missing PL/PL3 values
* Update vcf2Beagle and beagle2Vcf to handle biallelic indels
** Still doesn't handle any multiallelic variants
* Added a ldrefine test.
'' Indel Calling'''
* Initial version of Indel Caller
** Still in testing phases, if you use, please provide feedback.
== Version 1.12 (Full Release on 1/17/2014) ==
== Version 1.12 (Full Release on 1/17/2014) ==
