Numerous bug fixes and enhancements since 1.9:
https://github.com/samtools/htslib/tags
Bump PORTREVISION on dependents that don't require additional patching
PR: 248089
- math/p5-Math-GSL does not seem to have any upstream activity to make it work with this version -> mark it broken
- this also breaks the two consumers of this port
- biology/gemma: has a conflict with cblas, and is makred broken.
PR: 241363
Exp-run by: antoine
This release introduces some new features and fixes several bugs:
http://savannah.gnu.org/forum/forum.php?forum_id=8751
* update to 2.3 and take maintainership
* update math/py-gsl to 2.2.0 for gsl2 support
* update math/rubygem-rb-gsl to 2.1.0.2 for gsl2 support
PR: 218952
Exp-run by: antoine
Reviewed by: mat, rakuco
Approved by: rakuco (mentor)
Differential Revision: https://reviews.freebsd.org/D10522
- Update ports to 1.3 and set BUILD_DEPENDS of dependent ports to require
version 1.3 of htslib.
- Add CURL option to htslib
- Add TEST_TARGET with perl and bash dependencies for testing
- Tidy up spacing and pkg-message's
PR: 205524
PR: 205525
PR: 205526
Submitted by: cartwright@asu.edu (maintainer)
BCFtools is a set of utilities that manipulate variant calls in the
Variant Call Format (VCF) and its binary counterpart BCF. All
commands work transparently with both VCFs and BCFs, both
uncompressed and BGZF-compressed.
WWW: http://www.htslib.org/
PR: 199747
Submitted by: cartwright@asu.edu
Jason W. Bacon
Tobias C. Berner
Mathieu Arnold
Fernando Apesteguía
Luca Pizzamiglio
Kurt Jaeger
Dmitry Marakasov
Jason Unovitch