| Port details |
- igv Visualization tool for genomic datasets
- 2.16.0_1 biology
 =2      2.16.0_1Version of this port present on the latest quarterly branch. - Maintainer: yuri@FreeBSD.org
- Port Added: 2018-06-25 23:56:14
- Last Update: 2023-04-25 15:17:15
- Commit Hash: feb1fa3
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- Also Listed In: java
- License: MIT
- WWW:
- https://software.broadinstitute.org/software/igv/
- Description:
- The Integrative Genomics Viewer (IGV) is a high-performance visualization tool
for interactive exploration of large, integrated genomic datasets. It supports
a wide variety of data types, including array-based and next-generation sequence
data, and genomic annotations.
  ¦  ¦  ¦  ¦ 
- 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/igv/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/igv
- pkg install igv
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: igv
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1676844022
SHA256 (igv-2.16.0/tools.png) = 7a619d7770da008d1bc23a60a07f416625ba3a404a3656b8d1bda0de97415d1c
SIZE (igv-2.16.0/tools.png) = 5139
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- openjfx14>0 : java/openjfx14
- gradle : devel/gradle6
- java : java/openjdk11
- Runtime dependencies:
-
- openjfx14>0 : java/openjfx14
- java : java/openjdk11
- Library dependencies:
-
- libintl.so : devel/gettext-runtime
- This port is required by:
- for Run
-
- biology/biostar-tools
Configuration Options:- No options to configure
- Options name:
- biology_igv
- USES:
- gettext-runtime
- 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 |
|---|
2.16.0_1
25 Apr 2023 15:17:15
 |
Christian Weisgerber (naddy) |
audio/opus: bump consumers after update to 1.4 |
2.16.0
20 Feb 2023 07:20:49
|
Yuri Victorovich (yuri) |
biology/igv: Update 2.9.4 → 2.16.0
PR: 269690
Reported by: jwb@ |
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) |
2.9.4
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  ) |
2.9.4
30 Sep 2021 21:23:30
|
Rene Ladan (rene) |
cleanup: drop support for EOL FreeBSD 11.X
Search criteria used:
- 11.4
- OSREL*
- OSVER*
- *_FreeBSD_11
Input from:
- adridg: devel/qca-legacy
- jbeich: _WITH_DPRINTF, _WITH_GETLINE, GNU bfd workarounds
- sunpoet: security/p5-*OpenSSL*
Reviewed by: doceng, kde, multimedia, perl, python, ruby, rust
Differential Revision: https://reviews.freebsd.org/D32008
Test Plan: make index |
2.9.4
21 Aug 2021 19:08:05
|
Yuri Victorovich (yuri) |
biology/igv: Broken on 11
Reported by: fallout |
2.9.4
27 Jun 2021 09:33:51
|
Guangyuan Yang (ygy) |
biology/igv: Fix build
When switching the build dependency from devel/gradle to devel/gradle6,
the build is accidentally broken. This attempts to revert part of the
change and fix build.
Fixes: 55044a2200a4c42b6b653349f0a65dfca3f96f36
Approved by: lwhsu (mentor, implicit), portmgr (fix build) |
2.9.4
27 Jun 2021 01:51:07
|
Guangyuan Yang (ygy) |
devel/gradle6: New port
devel/gradle needs to be updated to 7.x, while some ports build failed
under the newer version, including:
- biology/jalview
- biology/igv
Updated them to use this devel/gradle6 until they officially support 7.x.
No functional changes for these ports.
Approved by: lwhsu (mentor) |
2.9.4
07 Apr 2021 08:09:01
|
Mathieu Arnold (mat) |
One more small cleanup, forgotten yesterday.
Reported by: lwhsu |
2.9.4
06 Apr 2021 14:31:07
|
Mathieu Arnold (mat) |
Remove # $FreeBSD$ from Makefiles. |
2.9.4
28 Mar 2021 16:41:33
 |
yuri |
biology/igv: Update 2.8.13 -> 2.9.4 |
2.8.13
30 Nov 2020 17:29:49
|
yuri |
biology/igv: Fix fetch by fixing a small left-over mistake
PR: 250980
Reported by: jwb |
2.8.13
30 Nov 2020 01:06:38
|
yuri |
biology/igv: 2.5.3 -> 2.8.13
PR: 250980 |
2.5.3
19 Mar 2020 09:33:13
|
tobik |
Deprecate java/openjfx8-devel consumers
Chase r527795 and put a deprecation notice on all openjfx8-devel
dependent ports too.
Also deprecate devel/gradle4 which is only needed to build igv and
openjfx8-devel. |
2.5.3
01 Jun 2019 20:49:20
|
yuri |
biology/igv: Update 2.5.2 -> 2.5.3
Reported by: portscout |
2.5.2
11 May 2019 05:59:29
|
yuri |
biology/igv: Update 2.5.0 -> 2.5.2
Reported by: portscout |
2.5.0
04 Apr 2019 04:49:41
|
yuri |
biology/igv: Update 2.4.19 -> 2.5.0
Reported by: portscout |
2.4.19
23 Feb 2019 21:23:51
|
yuri |
biology/igv: Update 2.4.16 -> 2.4.19
Reported by: portscout |
2.4.16
04 Dec 2018 17:53:46
|
yuri |
devel/gradle: Update to 5.0
Change biology/igv and biology/gatk to gradle4 due to build failures with
gradle5.
PR: 233623
Approved by: gasol.wu@gmail.com (maintainer) |
2.4.16
18 Nov 2018 20:02:41
|
yuri |
biology/igv: Update 2.4.15 -> 2.4.16
Reported by: portscout |
2.4.15
04 Nov 2018 22:55:24
|
yuri |
biology/igv: Update 2.4.10 -> 2.4.15
Port changes:
* Change to gradle, corresponding updates in build, install, environment, etc.
Reported by: portscout |
2.4.10
25 Jun 2018 23:56:01
|
yuri |
New port: biology/igv: Visualization tool for genomic datasets |
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