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We just rebooted with several updates: * new HMTLify code * no port maintainer is now highly visible (e.g. https://freshports.org/security/sssd/) * fixed search logic error when using plain/ text details at https://github.com/FreshPorts/freshports/releases/tag/2.2.34
Port details
star Spliced Transcripts Alignment to a Reference
2.7.9.a_1 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 Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2019-04-21 20:31:13
Last Update: 2023-01-06 01:27:16
Commit Hash: 51cc806
License: GPLv3
Description:
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb
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_1/catalog.mk
  3. /usr/local/share/licenses/rna-STAR-2.7.9.a_1/LICENSE
  4. /usr/local/share/licenses/rna-STAR-2.7.9.a_1/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:

Packages (timestamps in pop-ups are UTC):
rna-STAR
ABIlatestquarterly
FreeBSD:11:aarch64pkg-fallout2.7.3.a
FreeBSD:11:amd642.7.3.a_12.7.3.a_1
FreeBSD:11:armv6pkg-falloutpkg-fallout
FreeBSD:11:i386pkg-falloutpkg-fallout
FreeBSD:11:mipspkg-falloutpkg-fallout
FreeBSD:11:mips64pkg-falloutpkg-fallout
FreeBSD:12:aarch64pkg-fallout2.7.9.a
FreeBSD:12:amd642.7.9.a_12.7.9.a
FreeBSD:12:armv6pkg-falloutpkg-fallout
FreeBSD:12:armv7pkg-falloutpkg-fallout
FreeBSD:12:i386pkg-falloutpkg-fallout
FreeBSD:12:mipspkg-falloutpkg-fallout
FreeBSD:12:mips64pkg-falloutpkg-fallout
FreeBSD:12:powerpc64pkg-fallout2.7.3.a_1
FreeBSD:13:aarch642.7.9.a_12.7.9.a
FreeBSD:13:amd642.7.9.a_12.7.9.a
FreeBSD:13:armv6pkg-falloutpkg-fallout
FreeBSD:13:armv7pkg-falloutpkg-fallout
FreeBSD:13:i386pkg-falloutpkg-fallout
FreeBSD:13:mipspkg-falloutpkg-fallout
FreeBSD:13:mips64pkg-falloutpkg-fallout
FreeBSD:13:powerpc642.7.3.a2.7.9.a
FreeBSD:13:riscv64pkg-falloutpkg-fallout
FreeBSD:14:aarch642.7.9.a_1pkg-fallout
FreeBSD:14:amd642.7.9.a_1pkg-fallout
FreeBSD:14:armv6pkg-falloutpkg-fallout
FreeBSD:14:armv7pkg-falloutpkg-fallout
FreeBSD:14:i386pkg-falloutpkg-fallout
FreeBSD:14:mipspkg-falloutpkg-fallout
FreeBSD:14:mips64pkg-falloutpkg-fallout
FreeBSD:14:powerpc642.7.9.apkg-fallout
FreeBSD:14:riscv642.7.3.a_1pkg-fallout
 

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:
Options name:

USES:

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=/
Collapse this list.

Number of commits found: 14

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
2.7.9.a_1
06 Jan 2023 01:27:16
commit hash:51cc806a1df9077577b0c3a0d4f59955c608f6b6commit hash:51cc806a1df9077577b0c3a0d4f59955c608f6b6commit hash:51cc806a1df9077577b0c3a0d4f59955c608f6b6commit hash:51cc806a1df9077577b0c3a0d4f59955c608f6b6 files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/star: Bump PORTREVISION for biology/htslib update
07 Sep 2022 21:58:51
commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)
2.7.9.a
07 Sep 2022 21:10:59
commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
2.7.9.a
24 Jul 2022 01:24:10
commit hash:8832ed34986619f044270884b9dfabfcd9f4e856commit hash:8832ed34986619f044270884b9dfabfcd9f4e856commit hash:8832ed34986619f044270884b9dfabfcd9f4e856commit hash:8832ed34986619f044270884b9dfabfcd9f4e856 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)
2.7.9.a
26 Nov 2021 21:57:02
commit hash:869afa4fe605c72d26da47f2e6e838e06166c533commit hash:869afa4fe605c72d26da47f2e6e838e06166c533commit hash:869afa4fe605c72d26da47f2e6e838e06166c533commit hash:869afa4fe605c72d26da47f2e6e838e06166c533 files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/star: Update to 2.7.9a

Also unbundle htslib

Changes:        https://github.com/alexdobin/STAR/releases/tag/2.7.9a
2.7.3.a_1
07 Apr 2021 08:09:01
commit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455c files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
2.7.3.a_1
06 Apr 2021 14:31:07
commit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344eb files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
2.7.3.a_1
11 Jan 2021 17:39:52
Revision:561235Original commit files touched by this commit
jwb search for other commits by this committer
biology/star: Drop dependency on gcc

Replace compiler:openmp with compiler:c++11-lang and localbase

PR:             port/247753, ports/252379
2.7.3.a
09 Apr 2020 12:43:03
Revision:531206Original commit files touched by this commit
jwb search for other commits by this committer
biology/star: Upgrade to 2.7.3a

Several compatibility and feature enhancements
2.7.2.d
06 Oct 2019 22:18:31
Revision:513915Original commit files touched by this commit
jwb search for other commits by this committer
biology/star: Upgrade to 2.7.2d

Fix chimeric output bug.

Numerous other minor fixes and enhancements since 2.7.0.

Reported by:    portscout
2.7.0.f_1
26 Jul 2019 20:46:57
Revision:507372Original commit files touched by this commit
gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.

PR:		238330
2.7.0.f
02 May 2019 00:39:51
Revision:500629Original commit files touched by this commit
jwb search for other commits by this committer
biology/star: Force newer GCC on platforms with GCC 4.2 base

PR:             237700
Submitted by:   pkubaj
2.7.0.f
23 Apr 2019 15:03:29
Revision:499763Original commit files touched by this commit
jwb search for other commits by this committer
biology/star: Modify PKGBASE to avoid conflict with archivers/star
2.7.0.f
21 Apr 2019 20:30:56
Revision:499592Original commit files touched by this commit
jwb search for other commits by this committer
biology/star: Spliced Transcripts Alignment to a Reference

STAR is an extremely fast RNA-seq aligner, an alternative to tophat2,
hisat2, bowtie, subread, etc.

Number of commits found: 14