| Port details |
- plinkseq Toolset for working with human genetic variation data
- 0.10_1 biology
 =0      0.10_1Version of this port present on the latest quarterly branch.  BROKEN: unfetchable
 DEPRECATED: Broken for more than 6 months
 This port expired on: 2020-05-05
 IGNORE: is marked as broken: unfetchable
- Maintainer: jwb@FreeBSD.org
- Port Added: 2012-09-27 10:00:09
- Last Update: 2020-05-05 15:38:12
- SVN Revision: 534093
- Also Listed In: science
- License: GPLv2
- WWW:
- http://atgu.mgh.harvard.edu/plinkseq/
- Description:
- PLINK/SEQ is an open-source C/C++ library for working with human
genetic variation data. The specific focus is to provide a platform
for analytic tool development for variation data from large-scale
resequencing and genotyping projects, particularly whole-exome and
whole-genome studies. It is independent of (but designed to be
complementary to) the existing PLINK package.
WWW: http://atgu.mgh.harvard.edu/plinkseq/
 cgit ¦ GitHub ¦ GitHub ¦ GitLab ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- plinkseq>0:biology/plinkseq
- No installation instructions:
- This port has been deleted.
- PKGNAME: plinkseq
- Flavors: there is no flavor information for this port.
- distinfo:
- SHA256 (plinkseq-src-0.10.tgz) = e9d4705acf8b22eddba0c48cf502e3bd4236f3b60b010f39f94deecf37e94b58
SIZE (plinkseq-src-0.10.tgz) = 6090698
No package information for this port in our database- Sometimes this happens. Not all ports have packages. Perhaps there is a build error. Check the fallout link:
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- gmake : devel/gmake
- There are no ports dependent upon this port
Configuration Options:- No options to configure
- Options name:
- N/A
- USES:
- libtool gmake
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
0.10_1
05 May 2020 15:38:12
  |
rene |
Remove expired ports:
Adjusted for ports rescued since r534032
2020-05-05 audio/festvox-czech: Broken for more than 6 months
2020-05-05 audio/gkrellmvolume2: Broken for more than 6 months
2020-05-05 audio/mixmos: Broken for more than 6 months
2020-05-05 audio/mma: Broken for more than 6 months
2020-05-05 audio/pd-cyclone: Broken for more than 6 months
2020-05-05 audio/shorten: Broken for more than 6 months
2020-05-05 audio/taglib-sharp: Broken for more than 6 months
2020-05-05 audio/xhippo: Broken for more than 6 months
2020-05-05 biology/consed: Broken for more than 6 months
2020-05-05 biology/plinkseq: Broken for more than 6 months
2020-05-05 biology/seqtools: Broken for more than 6 months (Only the first 15 lines of the commit message are shown above  ) |
0.10_1
04 Apr 2020 20:51:41
 |
antoine |
Deprecate ports broken for more than 6 months |
0.10_1
06 Nov 2019 12:48:32
|
antoine |
Mark a few ports BROKEN, unfetchable |
0.10_1
31 Jan 2018 01:07:08
|
jwb |
Multiple ports:
Change maintainer email bacon4000@gmail.com to jwb@FreeBSD.org
Remove Created by comments for same user
Approved by: jrm (mentor)
Differential Revision: https://reviews.freebsd.org/D14128 |
0.10_1
13 May 2017 03:35:51
|
linimon |
Mark some ports failing on power64. In cases where the error message
was a stub, provide a real one.
While here, pet portlint.
Approved by: portmgr (tier-2 blanket) |
0.10_1
27 Feb 2017 14:09:25
|
jbeich |
biology/plinkseq: unbreak with clang 4.0
PR: 216618
Submitted by: Jason Bacon <bacon4000@gmail.com> (maintainer) |
0.10
11 Nov 2016 09:31:03
|
linimon |
Mark various leaf ports broken on aarch64, and, where appropriate, other
tier-2 archs.
Approved by: portmgr (tier-2 blanket) |
0.10
21 Apr 2016 16:43:15
|
swills |
many ports: mark broken on powerpc64 |
0.10
11 Dec 2015 08:48:57
|
miwi |
- Update maintainer mail address
- Update/Remove MASTER_SITE
PR: 204755
Submitted by: jwbacon@tds.net (maintainer)
Approved by: mat (mentor)
Differential Revision: D4493 |
0.10
12 Oct 2014 03:16:10
|
wen |
- Update to 0.10
PR: 194309
Submitted by: jwbacon@tds.net(maintainer) |
0.08_3
04 Oct 2014 15:12:45
|
sunpoet |
- Update to 2.6.0
- Update MASTER_SITES
- Add my LOCAL to MASTER_SITES
- Use USE_CSTD
- Use MAKE_CMD
- Reformat pkg-descr
- Update WWW
- Take maintainership
- Bump PORTREVISION for devel/protobuf shlib change
Changes: https://code.google.com/p/protobuf/source/browse/trunk/CHANGES.txt |
0.08_2
22 Jul 2014 22:12:15
|
amdmi3 |
- Switch to USES=libtool, drop .la files
- Fix shebangs
Approved by: portmgr blanket |
0.08_1
07 Mar 2014 11:37:35
|
bapt |
Convert to dos2unix |
0.08_1
31 Jan 2014 12:33:12
|
miwi |
- Stage support |
0.08_1
11 Dec 2013 14:43:51
|
bapt |
In preparation for making libtool generate libraries with a sane name, fix all
LIB_DEPENDS in biology |
0.08_1
20 Sep 2013 15:55:44
|
bapt |
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology) |
0.08_1
21 Mar 2013 14:09:23
|
vanilla |
Fix build with protobuf-2.5.0
Obtained from: miwi@ |
0.08_1
18 Mar 2013 15:14:28
|
vanilla |
1: Upgrade protobuf to 2.5.0.
2: bump revision.
3: document UPDATING. |
0.08
27 Sep 2012 09:59:25
|
makc |
Add new ports biology/plink [1] and biology/plinkseq [2]:
PLINK is a free, open-source whole genome association analysis toolset.
PLINK/SEQ is an open-source C/C++ library for working with human
genetic variation data.
PR: ports/171918 [1]
PR: ports/171922 [2]
Submitted by: Jason Bacon <jwbacon at tds.net> |
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