PLINK v1.90 has been announced.... <------- Start -------> Date: Thu, 15 May 2014 19:12:06 -0400 From: Shaun Purcell <shaun@pngu.mgh.harvard.edu> To: plink-list@chgr.mgh.harvard.edu Cc: Chris Chang <chrchang@alumni.caltech.edu> Subject: [PLINK-list] Major new PLINK release (1.90) available for beta-testing Message-ID: <0ECBCFC2-67EE-4F97-91B0-C86CC0017947@pngu.mgh.harvard.edu> Content-Type: text/plain; charset="us-ascii" Dear PLINK list, Development of the baseline PLINK toolset has resumed and beta testing for the next (1.90) release has now begun. The new release, by Chris Chang and colleagues, is a complete rewrite of the original code and represents a very significant improvement in overall speed and functionality. Moving forward, these changes should enable PLINK to meet the demands of ever-larger genetic datasets. For download and documentation: https://www.cog-genomics.org/plink2 ; mirrored at: http://pngu.mgh.harvard.edu/purcell/plink2 New features include: * Very large speed improvements across the board. Basic data management operations tend to be at least 5x as fast; speedup factors for more CPU-intensive functions such as --blocks, --fast-epistasis, --genome, --indep-pairwise, and --r2 frequently exceed 100x on multicore systems. * The new O(sqrt(n))-time implementations of SNP-HWE and Fisher's exact test can easily be adapted for inclusion in other software, and may be of particular interest to other tool developers. * Improved memory efficiency. * Conveniences such as direct VCF import/export and improved command-line help. Questions, comments, and bug reports should now be directed to the plink2-users Google group: https://groups.google.com/d/forum/plink2-users The original version of PLINK will continue to be available for download (http://pngu.mgh.harvard.edu/purcell/plink ). Thanks for your continued interest and support! Cheers, --Shaun & Chris <------- End -------> I doubt there are many users of it, I no longer use it myself (I might have helped with a very primative ebuild on the science overlay a good few years ago), but its good to keep ebuilds upto date should they be required. Reproducible: Always Steps to Reproduce: 1. emerge -av sci-biology/plink 2. 3. Actual Results: # emerge -pv plink [ebuild N ] sci-biology/plink-1.07-r1 USE="-R -lapack -webcheck" Expected Results: # emerge -pv plink [ebuild N ] sci-biology/plink-1.90 USE="-R -lapack -webcheck" Nothing wrong with the software itself, just a version bump.
+*plink-1.90_pre140514 (19 May 2014) + + 19 May 2014; Justin Lecher <jlec@gentoo.org> -plink-1.07.ebuild, + +plink-1.90_pre140514.ebuild: + Version BUmp, #510716 +
