Port details on branch 2022Q3 |
- wise Intelligent algorithms for DNA searches
- 2.4.1_1 biology =0 2.4.1_1Version of this port present on the latest quarterly branch.
- There is no maintainer for this port.
- Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org
- Port Added: 2002-09-10 13:59:05
- Last Update: 2023-07-26 00:48:20
- Commit Hash: 95274bf
- License: BSD3CLAUSE GPLv2
- WWW:
- http://www.ebi.ac.uk/Wise2/
- Description:
- "Wise2 is package that is focused on comparing DNA sequences at
the level of its conceptual translation, regardless of sequencing
error and introns. This really is a rewrite of the old wisetools
package, which I wrote about 3 years ago.
It can compare a single protein or a profile HMM to a genomic DNA
sequence, and predict a gene structure. This is algorithm, called
genewise, is one of the algorithms available in Wise2. There are
other algorithms focused on EST data rather than genomic data, as
well as some other algorithm curios."
- from the web site (Ewan Birney)
- ¦ ¦ ¦ ¦
- 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/wise/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/wise
- pkg install wise
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: wise
- Flavors: there is no flavor information for this port.
- distinfo:
- SHA256 (wise2.4.1.tar.gz) = 240e2b12d6cd899040e2efbcb85b0d3c10245c255f3d07c1db45d0af5a4d5fa1
SIZE (wise2.4.1.tar.gz) = 3193910
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:
-
- pkgconf>=1.3.0_1 : devel/pkgconf
- Library dependencies:
-
- libglib-2.0.so : devel/glib20
- libintl.so : devel/gettext-runtime
- There are no ports dependent upon this port
Configuration Options:
- ===> The following configuration options are available for wise-2.4.1_1:
DOCS=on: Build and/or install documentation
EXAMPLES=on: Build and/or install examples
===> Use 'make config' to modify these settings
- Options name:
- biology_wise
- USES:
- gnome pkgconfig
- pkg-message:
- For install:
- Welcome to Wise2.2
You must set your WISECONFIGDIR to the config directory before
using the programs:
in (t)csh: setenv WISECONFIGDIR /usr/local/share/wise/
in (ba)sh: export WISECONFIGDIR=/usr/local/share/wise/
To try an example:
cd /usr/local/share/examples/wise
genewise road.pep human.genomic
- Master Sites:
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