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test-nginx01 & pg02
Port details
freebayes Bayesian haplotype-based polymorphism discovery and genotyping
1.2.0 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 20 Apr 2018 00:07:39
License: MIT
FreeBayes is a Bayesian genetic variant detector designed to find small
polymorphisms, specifically SNPs (single-nucleotide polymorphisms), indels
(insertions and deletions), MNPs (multi-nucleotide polymorphisms), and complex
events (composite insertion and substitution events) smaller than the length of
a short-read sequencing alignment.

WWW: https://github.com/ekg/freebayes
SVNWeb : Homepage : PortsMon
    Pseudo-pkg-plist information, but much better, from make generate-plist
    Expand this list (5 items)
  1. bin/bamleftalign
  2. bin/freebayes
  3. /usr/local/share/licenses/freebayes-1.2.0/catalog.mk
  4. /usr/local/share/licenses/freebayes-1.2.0/LICENSE
  5. /usr/local/share/licenses/freebayes-1.2.0/MIT
  6. Collapse this list.

To install the port: cd /usr/ports/biology/freebayes/ && make install clean
To add the package: pkg install freebayes

PKGNAME: freebayes

distinfo:

TIMESTAMP = 1523932688
SHA256 (ekg-freebayes-v1.2.0_GH0.tar.gz) = a5626636112966cac87095365986722d1c871759f03c5a143646da65c416ba8a
SIZE (ekg-freebayes-v1.2.0_GH0.tar.gz) = 2639725
SHA256 (walaj-SeqLib-5941c68_GH0.tar.gz) = 0ac2b63f5fd7b1cec20a18ebb6799bf1f9b88d6c7cd95f7dd7410b1b82c8703f
SIZE (walaj-SeqLib-5941c68_GH0.tar.gz) = 314968
SHA256 (jwalabroad-bwa-c02766e_GH0.tar.gz) = cce547db0efef8572d63b47d2065f07e36f770fc8a6f15f5cd03d6fa9ab9b1f7
SIZE (jwalabroad-bwa-c02766e_GH0.tar.gz) = 205546
SHA256 (jwalabroad-fermi-lite-5bc90f8_GH0.tar.gz) = 2b3b9b637f48dc3239618efd6b55183eef6b6232013c217eb1c319f1dd3da224
SIZE (jwalabroad-fermi-lite-5bc90f8_GH0.tar.gz) = 248454
SHA256 (samtools-htslib-49fdfbd_GH0.tar.gz) = 0bc9c7d48e2a439badf5990113ae3e4de9acd05e4c090938236ee40588d115b9
SIZE (samtools-htslib-49fdfbd_GH0.tar.gz) = 1145082
SHA256 (ekg-bamtools-e77a43f_GH0.tar.gz) = d3a143636ccedcc54417a2d6d88dd726c7d2c046318620b88c7ba2fb30b01419
SIZE (ekg-bamtools-e77a43f_GH0.tar.gz) = 540118
SHA256 (ekg-intervaltree-dbb4c51_GH0.tar.gz) = 1f3ba92a83cb782cf22dfb383b8c93c11c1c88e0b2e5fa434e24668260ecd1f8
SIZE (ekg-intervaltree-dbb4c51_GH0.tar.gz) = 3780
SHA256 (vcflib-vcflib-5e3ce04_GH0.tar.gz) = d084c1df7bb0004df18e013da3cbf896b642d853c855aea58ae029abe1d2097a
SIZE (vcflib-vcflib-5e3ce04_GH0.tar.gz) = 20119782
SHA256 (ekg-fastahack-c68cebb_GH0.tar.gz) = c6f7186bbe733ff78c25b2afd7e7ba79daa3ecd14a5876ea0b033a43744c876d
SIZE (ekg-fastahack-c68cebb_GH0.tar.gz) = 17312
SHA256 (ekg-filevercmp-1a9b779_GH0.tar.gz) = 34c21d1b58295bca72b92c1cd832a4171b07ec97c19ffc0d4d8ec67e266c6070
SIZE (ekg-filevercmp-1a9b779_GH0.tar.gz) = 3053
SHA256 (ekg-fsom-a6ef318_GH0.tar.gz) = 68351c16d5c4b96142409e38c6828b6199eae44eaa7579bde165734d4832565b
SIZE (ekg-fsom-a6ef318_GH0.tar.gz) = 9686
SHA256 (google-googletest-d225acc_GH0.tar.gz) = 6880e0d51fa80a508ad5674ce483c1c468315faddac10d580b5505e8e7ef6bfa
SIZE (google-googletest-d225acc_GH0.tar.gz) = 1279815
SHA256 (ekg-intervaltree-b704f19_GH0.tar.gz) = 7e38b5f5873790afbcfdf6adbb621cdf4a1d9f22e28934a8edfe62cd65918f0d
SIZE (ekg-intervaltree-b704f19_GH0.tar.gz) = 3768
SHA256 (ekg-multichoose-73d35da_GH0.tar.gz) = af52475d7568863ad8173aebfb6b8b87690118bad8945876b629a2b3c05577cf
SIZE (ekg-multichoose-73d35da_GH0.tar.gz) = 4697
SHA256 (ekg-smithwaterman-84c08d7_GH0.tar.gz) = 299c9e28e50977642d1538f8940852976b6db3241619eb1f40b78484b1cde58e
SIZE (ekg-smithwaterman-84c08d7_GH0.tar.gz) = 38382
SHA256 (ekg-tabixpp-80012f8_GH0.tar.gz) = 6aecc865673776bec4e2ddb14e629a4798ad36bf8f7639968812a6262675fb3f
SIZE (ekg-tabixpp-80012f8_GH0.tar.gz) = 3530
SHA256 (samtools-htslib-0f298ce_GH0.tar.gz) = 829bb54383745fb923ed5d8dabbb6aa8b5d9501601c7a4163276d86aca1196ee
SIZE (samtools-htslib-0f298ce_GH0.tar.gz) = 1065854


NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. gmake : devel/gmake

This port is required by:

for Run * - deleted ports are only shown under the This port is required by section. It was harder to do for the Required section. Perhaps later...
Configuration Options
     No options to configure

USES:
gmake tar:xz

Master Sites:
  1. https://codeload.github.com/ekg/freebayes/tar.gz/v1.2.0?dummy=/

Number of commits found: 2

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
21 Jun 2018 23:52:37
Original commit files touched by this commit  1.2.0
Revision:473009
linimon search for other commits by this committer
Mark as broken on aarch64, and, where appropriate, armvX.

While here, pet portlint.

Approved by:	portmgr (tier-2 blanket)
20 Apr 2018 00:07:28
Original commit files touched by this commit  1.2.0
Revision:467806
jwb search for other commits by this committer
biology/freebayes: Bayesian haplotype-based polymorphism discovery and
genotyping

Approved by:    jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D15116

Number of commits found: 2

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