Created attachment 156059 [details]
patch to add biology/bcftools
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.
It is the companion to the biology/samtools and biology/htslib ports that I already maintain.
Created attachment 156060 [details]
poudriere testport log for 10.1
I had to do one weird thing and change the LICENSE depending on what options are selected. I'm not sure if that is okay.
I would set the LICENSE as :
LICENSE= MIT GPLv2
This software is available to you under a choice of one of two licenses. You
may chose to be licensed under the terms of the MIT/Expat license or the GNU
General Public License (GPL), both included below. If compiled with the GNU
Scientific Library (which is optional and disabled by default as explained in
the INSTALL document), the use of this software is governed by the GPL license.
So I guess by default it is dual licensed, but if the USE_GPL option is enabled (which it is by default), only the GPL license is valid.
So should I make it GPL by default and set it to dual if the option is not selected?
CC portmgr@, requesting advice/review on conditional LICENSE use:
See reporters question on freebsd-ports:
build-tested on 10.1a, 9.3a, 8.4i. Looks fine.
No one seems to have any better way of doing it. Can we just commit this as is?
Yes. I'll commit it.
A commit references this bug:
Date: Fri Jun 5 21:01:16 UTC 2015
New revision: 388638
New port: biology/bcftools
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.
Submitted by: email@example.com