> I have a few follow up questions and comments about plugins...I am > trying to get MGH plugins from BASE2 working. Unfortunately I am > not having much luck (see ticket http://base.thep.lu.se/ticket/511). > So my questions are: > > 1) Which plugins have been successfully tested in > Base1PluginExecuter (just so I can rule out it's not me!)? > 2) Do you require some help testing Base1PluginExecuter? I am happy > to help here to get this working for the common good and also I > have a several custom plugins I have written in R and perl (and > other plugins used in BASE 1.2) that I would really like to use on > the data in BASE. Also I can't really move all my users of BASE 1.2 > across to BASE2 until I get these working, since they use these > as part of their daily analysis. > 3) What are the plans to support non-Java plugins (via development > of Base1PluginExecuter or otherwise) given that R and perl are very > popular languages in bioinformatics and for arrays most serious > analysis is done using R? > > I know you guys have a lot of work on and are doing fantastic job > with BASE2, but being able to easily add analysis routines in *any > language* and allow users to run them integrated in the web > interface was one of the 'killer' aspects of BASE 1.2...
Just to give you some feedback on our experience with B1PE, we have tested it with most of the the BASE 1 plug-ins developed at the LCB, and after some initial web server issues, we have found that it works really well. 2-channel data only, naturally. We're in a similar situation analysis-wise (although we're also looking at using BASE 2 for Affy data), so the naturally empty state of BASE 2 analysis functionality, we're really happy there is a B1PE. We second your plea for R/Perl/Bioconductor connectivity; it's currently in BASE 2.4 (no date set), as are a lot of other nice features - all in due time, I suppose... One alternative for the impatient would be to write a plugin (perhaps based on something like B1PE) yourself. To the BASE developers: is it feasible for an external developer to help out with a ticket like R/BioC connectivity? If so, let us know! best, /Emil Lundberg, LCB-DWH http://www.lcb.uu.se/lcbdw.php ------------------------------------------------------------------------- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT & business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
