Port details on branch 2022Q3 |
- star Spliced Transcripts Alignment to a Reference
- 2.7.9.a biology =0 2.7.9.aVersion of this port present on the latest quarterly branch.
- Maintainer: jwb@FreeBSD.org
- Port Added: 2022-08-14 00:38:37
- Last Update: 2022-07-24 01:25:22
- Commit Hash: bbb537f
- License: GPLv3
- WWW:
- https://github.com/alexdobin/STAR
- Description:
- STAR (Spliced Transcripts Alignment to a Reference) aims to achieve accurate
alignment of high-throughput RNA-seq data.
STAR is based on a previously undescribed RNA-seq alignment algorithm that uses
sequential maximum mappable seed search in uncompressed suffix arrays followed
by seed clustering and stitching procedure. STAR outperforms other aligners by
a factor of >50 in mapping speed, aligning to the human genome 550 million 2 x
76 bp paired-end reads per hour on a modest 12-core server, while at the same
time improving alignment sensitivity and precision
WWW: https://github.com/alexdobin/STAR
- ¦ ¦ ¦ ¦
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- To install the port:
- cd /usr/ports/biology/star/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/star
- pkg install rna-STAR
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: rna-STAR
- Flavors: there is no flavor information for this port.
- NOT_FOR_ARCHS: i386 powerpc
- distinfo:
- TIMESTAMP = 1637942811
SHA256 (alexdobin-STAR-2.7.9a_GH0.tar.gz) = ff52c9d6daaa9fb7261efa3aa49ef6ce5262aa089b0762a3cbc751e81321050e
SIZE (alexdobin-STAR-2.7.9a_GH0.tar.gz) = 10669338
No package information for this port in our database- Sometimes this happens. Not all ports have packages.
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- gmake>=4.3 : devel/gmake
- Library dependencies:
-
- libhts.so : biology/htslib
- There are no ports dependent upon this port
Configuration Options:
- No options to configure
- Options name:
- biology_star
- USES:
- compiler:c++11-lang gmake localbase:ldflags
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
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Number of commits found: 1
Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
Commit | Credits | Log message |
2.7.9.a 24 Jul 2022 01:25:22 |
Yuri Victorovich (yuri) |
biology/star: Broken on systems where OpenMP isn't enabled
Reported by: fallout
Approved by: portmgr (blanket)
(cherry picked from commit 8832ed34986619f044270884b9dfabfcd9f4e856) |
Number of commits found: 1
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