Hi. > > I add this as a ticket. Can you specify the methods that you need > acces to. > > /Johan >
I tried using the "protected" modifier Kjell proposed. And for that worked except for ListMap Which I think is a so called inner class of Base1PluginExecuter. It had to be public. I changed in modifier from private to "protected" for these methods/variables: Base1PluginExecuter.java usedColumnsParameter usedFieldsParameter getPluginDirectory geneAveragesParameter jobParametersParameter serialFormatParameter getJobParametersFromXML ListMap had to be public, protected was not enough. BioAssaySetExporter.java getBaseFileQIMap exportBaseFileSectionHead exportBaseFileSectionAssays getBaseFileSpotSectionCount exportBaseFileSectionSpots I think this was sufficient for me now, but I am not sure. I propose that methods/variables in classes that might be extended should use the protected or public modifier. But there might be other downsides with that approach that I don't see. Best Regards Vegard Nygaard Software Engineer Department of Tumor Biology (Montebello) Rikshospitalet-Radiumhospitalet Medical Center 0310 Oslo Bioinformatics user support (NMC) Phone 0047 22935590 > > 17 aug 2007 kl. 16.18 skrev vegard nygaard: > > > > > > > I want to export more than standard information in the base-file > > sent to my > > plug-in. That is more "sections" describing the samples, hybs, > > arrays and > > their relationships. My first plan was to extend > > BioAssaySetExporter and > > Base1PluginExecuter, and then override the methods where the > > information is > > written to file (stdin.txt) adding my extra stuff. This approach > > failed when > > I encountered lots of private methods in Base1PluginExecuter and > > BioAssaySetExporter, making them less useful for extension since I > > have to > > override all the private parts I need even if I don't need to alter > > them. > > Why are those methods private and not public? Is there a better way > > to solve > > my problem? > > > > A more cumbersome approach is to copy both files (and others if > > needed), > > rename them, do my modifications and it will work. This is what I > > have done > > for years with BASE1, giving me an extra cut and paste job each > > time base1 > > was updated and I had to re-update my custom files. I hope BASE2 > > can do this > > in a more neat way. > > > > Best Regards > > > > Vegard Nygaard > > Software Engineer > > Department of Tumor Biology (Montebello) > > Rikshospitalet-Radiumhospitalet Medical Center 0310 Oslo > > Bioinformatics user support (NMC) > > Phone 0047 22935590 > > > > > > > > ---------------------------------------------------------------------- > > --- > > This SF.net email is sponsored by: Splunk Inc. > > Still grepping through log files to find problems? Stop. > > Now Search log events and configuration files using AJAX and a > > browser. > > Download your FREE copy of Splunk now >> http://get.splunk.com/ > > _______________________________________________ > > basedb-devel mailing list > > basedb-devel@lists.sourceforge.net > > https://lists.sourceforge.net/lists/listinfo/basedb-devel > > > ------------------------------------------------------------------------- > This SF.net email is sponsored by: Splunk Inc. > Still grepping through log files to find problems? Stop. > Now Search log events and configuration files using AJAX and a browser. > Download your FREE copy of Splunk now >> http://get.splunk.com/ > _______________________________________________ > basedb-devel mailing list > basedb-devel@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/basedb-devel ------------------------------------------------------------------------- This SF.net email is sponsored by: Splunk Inc. Still grepping through log files to find problems? Stop. Now Search log events and configuration files using AJAX and a browser. Download your FREE copy of Splunk now >> http://get.splunk.com/ _______________________________________________ basedb-devel mailing list basedb-devel@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/basedb-devel
