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Port details on branch 2022Q3
star Spliced Transcripts Alignment to a Reference
2.7.9.a 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 View this port on Repology. pkg-fallout 2.7.9.aVersion of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
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
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb - no subversion history for this port

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
Expand this list (4 items)
Collapse this list.
  1. bin/STAR
  2. /usr/local/share/licenses/rna-STAR-2.7.9.a/catalog.mk
  3. /usr/local/share/licenses/rna-STAR-2.7.9.a/LICENSE
  4. /usr/local/share/licenses/rna-STAR-2.7.9.a/GPLv3
Collapse this list.
Dependency lines:
  • rna-STAR>0:biology/star
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:
  1. gmake>=4.3 : devel/gmake
Library dependencies:
  1. 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:
Expand this list (1 items)
Collapse this list.
  1. https://codeload.github.com/alexdobin/STAR/tar.gz/2.7.9a?dummy=/
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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)
CommitCreditsLog message
2.7.9.a
24 Jul 2022 01:25:22
commit hash: bbb537f2ffef54819cebf19dd267ac92af4906fccommit hash: bbb537f2ffef54819cebf19dd267ac92af4906fccommit hash: bbb537f2ffef54819cebf19dd267ac92af4906fccommit hash: bbb537f2ffef54819cebf19dd267ac92af4906fc files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
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