Packages required for j5
Very few j5 users (-if any- need to) install j5 on their own computer, since the functionality is accessible via DIVA (e.g. https://public-diva.jbei.org) and a basic web interface for j5 is also accessible (https://j5.jbei.org/). In addition, the j5 XML-RPC web-service gives users access to the full functionality of j5 through XML-RPC thin client software.
For maintainers of the public j5 server and/or DIVA servers, though, here are the software packages that are required for an installation of j5:
The current version of j5 works well with standalone BLAST 2.9.0+.
The current version of j5 works well with the Primer3 v2.4.0 release.
The following perl modules may be easily installed through the command line: perl -MCPAN -e 'install module_name'
The CPAN shell can also be initiated through the command line: perl -MCPAN -e shell
Available via CPAN (e.g.):
within the CPAN shell, you can run the command: i /bioperl/ to find the most recent versions...
The current version of j5 works well with the BioPerl-1.7.7 release and BioPerl-Run-1.007003 release.
Additional perl modules:
For the j5 XML-RPC web server, you'll also need the following: