| Port details |
- tabixpp C++ wrapper to tabix indexer
- 1.0.0.10_2 biology
 =2      1.0.0.10_2Version of this port present on the latest quarterly branch.  DEPRECATED: Dependent ports use git submodules now
- Maintainer: jwb@FreeBSD.org
- Port Added: 2018-04-14 23:52:29
- Last Update: 2023-01-22 17:01:57
- Commit Hash: 9f24862
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- License: MIT
- WWW:
- https://github.com/ekg/tabixpp
- Description:
- This is a C++ wrapper around tabix project which abstracts some of the details
of opening and jumping in tabix-indexed files. Tabix is a generic indexer for
TAB-delimited genome position files.
  ¦  ¦  ¦  ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- tabixpp>0:biology/tabixpp
- To install the port:
- cd /usr/ports/biology/tabixpp/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/tabixpp
- pkg install tabixpp
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: tabixpp
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1522943679
SHA256 (ekg-tabixpp-v1.0.0-10-g6bbe690_GH0.tar.gz) = 3a83517f77da15bfd48e6fbaa860560e0f1927254c9f1c332759fe086f65154a
SIZE (ekg-tabixpp-v1.0.0-10-g6bbe690_GH0.tar.gz) = 3694
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Library dependencies:
-
- libhts.so : biology/htslib
- There are no ports dependent upon this port
Configuration Options:- No options to configure
- Options name:
- biology_tabixpp
- USES:
- compiler:c11 localbase:ldflags
- 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 |
|---|
1.0.0.10_2
22 Jan 2023 17:01:57
 |
Jason W. Bacon (jwb) |
biology/tabixpp: Deprecate
Dependent ports will include it as a git submodule |
1.0.0.10_2
06 Jan 2023 01:29:30
|
Jason W. Bacon (jwb) |
biology/tabixpp: Bump PORTREVISION for biology/htslib update |
07 Sep 2022 21:58:51
|
Stefan Eßer (se) |
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) |
1.0.0.10_1
07 Sep 2022 21:10:59
|
Stefan Eßer (se) |
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  ) |
1.0.0.10_1
07 Apr 2021 08:09:01
|
Mathieu Arnold (mat) |
One more small cleanup, forgotten yesterday.
Reported by: lwhsu |
1.0.0.10_1
06 Apr 2021 14:31:07
|
Mathieu Arnold (mat) |
Remove # $FreeBSD$ from Makefiles. |
1.0.0.10_1
23 Nov 2020 16:13:15
 |
pkubaj |
biology/tabixpp: fix build on GCC architectures
c++ -O2 -pipe -fstack-protector-strong -isystem /usr/local/include
-fno-strict-aliasing -isystem /usr/local/include -fPIC -c tabix.cpp -Ihtslib
In file included from /usr/local/include/htslib/hts.h:37,
from /usr/local/include/htslib/tbx.h:30,
from tabix.hpp:5,
from tabix.cpp:1:
/usr/local/include/htslib/kstring.h: In function 'int ks_resize(kstring_t*,
size_t)':
/usr/local/include/htslib/kstring.h:149: error: 'SIZE_MAX' was not declared in
this scope
tabix.cpp: In constructor 'Tabix::Tabix(std::string&)':
tabix.cpp:15: warning: 'bgzf_is_bgzf' is deprecated (declared at
/usr/local/include/htslib/bgzf.h:263)
tabix.cpp:15: warning: 'bgzf_is_bgzf' is deprecated (declared at
/usr/local/include/htslib/bgzf.h:263) |
1.0.0.10_1
03 Aug 2020 17:40:04
|
jwb |
biology/htslib: Upgrade to 1.10.2
Numerous bug fixes and enhancements since 1.9:
https://github.com/samtools/htslib/tags
Bump PORTREVISION on dependents that don't require additional patching
PR: 248089 |
1.0.0.10
14 Apr 2018 23:52:17
|
jwb |
biology/tabixpp: C++ wrapper to tabix indexer
Reviewed by: mat
Approved by: jrm (mentor)
Differential Revision: https://reviews.freebsd.org/D14977 |
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