Manatee is a web-based gene evaluation and genome annotation tool that can view, modify, and store annotation for prokaryotic and eukaryotic genomes. The Manatee interface allows biologists to quickly identify genes and make high quality functional assignments using a multitude of genome analyses tools. These tools consist of, but are not limited to GO classifications, BER and blast search data, paralogous families, and annotation suggestions generated from automated analysis. http://manatee.sourceforge.net/source_install.shtml # emerge -uN DBI CGI XML-Parser XML-Simple XML-Writer XML-Twig Tree-DAG_Node \ File-Spec GD Storable MLDBM Log-Log4perl DBD-mysql HTML-Template IO-Tee # perl -MCPAN -e shell cpan[1]> install GD::Text GD::Graph Date::Manip Log::Cabin cpan[2]> quit # cd manatee # ./configure HTTPD_SERVER_CONFIG_FILE=/etc/apache2/httpd.conf \ HTTPD=/usr/sbin/apache2 MYSQLBIN=/usr/bin MYSQLD=/usr/sbin/mysqld \ MYSQL_HOST=localhost # Unfortunately, the Makefile is slightly screwed as it did not realize it should install into /var/www/localhost/cgi-bin and that the hostname should be localhost and not the real $hostname.
https://sourceforge.net/tracker/?func=detail&atid=491340&aid=1905283&group_id=59541
No comments have been made on this bug report for some time. Is anyone still interested in integration of this package? If yes, please indicate that here in this bug report. Otherwise we'll resolve the bug in the near future, since we have an extremely large number of pending package requests and would like to focus...
Created attachment 256793 [details] manatee-igs-2.15.1.ebuild A sketch of the ebuild. Needs some webapp_config tweaks and inherit some perl classes.
Created attachment 256795 [details] manatee-jcvi-2.4.3.ebuild A sketch of an ebuild to install the JCVI version of manatee. Like the previous, needs some extra work which is currently out of my knowledge. Will be glad to test. I think the way to go is the manatee-igs because of the chado underlying database and compiatibility with GMOD and many other tools just because of that. The JCVI version seems not to be maintained anymore and dev archives are full of spam. But maybe I am wrong.
