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commit ee7d31ba9bae2b3d0cb87d085a1fc8fb9c22e349 Author: Dylan Aïssi <[email protected]> Date: Fri Jan 12 22:58:29 2018 +0100 Update changelogs --- debian/changelog | 5 +++-- debian/upstream.changelog | 9 +++++++++ 2 files changed, 12 insertions(+), 2 deletions(-) diff --git a/debian/changelog b/debian/changelog index 51abf0d..3b43b92 100644 --- a/debian/changelog +++ b/debian/changelog @@ -1,8 +1,9 @@ -bio-eagle (2.3.5-2) UNRELEASED; urgency=medium +bio-eagle (2.4-1) UNRELEASED; urgency=medium + * New upstream release. * Restrict building architecture to x86, upstream supports only x86 arch. - -- Dylan Aïssi <[email protected]> Sun, 05 Nov 2017 15:16:38 +0100 + -- Dylan Aïssi <[email protected]> Fri, 12 Jan 2018 22:57:01 +0100 bio-eagle (2.3.5-1) unstable; urgency=medium diff --git a/debian/upstream.changelog b/debian/upstream.changelog index 3559dac..98bdaca 100644 --- a/debian/upstream.changelog +++ b/debian/upstream.changelog @@ -1,5 +1,14 @@ # Copy/Paste from https://data.broadinstitute.org/alkesgroup/Eagle/ +Version 2.4 (December 13, 2017): + Fixed bug that had allowed target/ref allele flips: allele-matching was only being checked when --allowRefAltSwap was specified. Also enforced requirement that --allowRefAltSwap only apply to SNPs (not indels). + Fixed bug causing a stack overflow for samples with very large numbers of missing genotypes (thanks to Laurent Francioli). + Added --pbwtOnly option that skips non-PBWT iterations in non-reference mode (automatically set when N>200K). + Added --keepMissingPloidyX option that keeps ploidy of missing VCF genotypes ('.' or './.') in chrX. (Because missing genotypes sometimes have incorrectly-coded ploidy, Eagle tries to guess the right ploidy by default.) + Added --vcfExclude option for ignoring a list of variants when phasing in ref-mode. + Allowed ‘chr’ prefixes in VCF chromosome names (to support hg38). + Improved error-checking of genetic maps. + Suppressed warnings about individuals with low heterozygosity when phasing chrX. Version 2.3.5 (August 2, 2017): Fixed minor bug causing Eagle to erroneously terminate with failed assertion in rare cases. Version 2.3.4 (June 5, 2017): Fixed bug causing incorrect imputation of missing genotypes prior to the first heterozygous site in each sample. Version 2.3.3 (May 25, 2017): -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/eagle.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
