Port details on branch 2022Q3 |
- jellyfish Fast, memory-efficient counting of k-mers in DNA
- 2.3.0_4 biology =0 2.3.0_4Version of this port present on the latest quarterly branch.
- Maintainer: jwb@FreeBSD.org
- Port Added: 2016-03-24 13:53:24
- Last Update: 2024-03-02 19:17:36
- Commit Hash: 058e421
- License: BSD3CLAUSE GPLv3+
- WWW:
- http://www.genome.umd.edu/jellyfish.html
- Description:
- Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA.
A k-mer is a substring of length k, and counting the occurrences of all such
substrings is a central step in many analyses of DNA sequence. JELLYFISH can
count k-mers quickly by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase parallelism.
- ¦ ¦ ¦ ¦
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- Jellyfish>0:biology/jellyfish
- To install the port:
- cd /usr/ports/biology/jellyfish/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/jellyfish
- pkg install Jellyfish
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: Jellyfish
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1631812776
SHA256 (jellyfish-2.3.0.tar.gz) = e195b7cf7ba42a90e5e112c0ed27894cd7ac864476dc5fb45ab169f5b930ea5a
SIZE (jellyfish-2.3.0.tar.gz) = 1151287
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:
-
- gettext-runtime>=0.22_1 : devel/gettext-runtime
- msgfmt : devel/gettext-tools
- Library dependencies:
-
- libhts.so : biology/htslib
- libintl.so : devel/gettext-runtime
- This port is required by:
- for Run
-
- biology/biostar-tools
Configuration Options:
- ===> The following configuration options are available for Jellyfish-2.3.0_4:
NLS=on: Native Language Support
===> Use 'make config' to modify these settings
- Options name:
- biology_jellyfish
- USES:
- compiler:c++11-lib libtool gettext
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|