Hi Allan On Wed, 2007-09-26 at 12:44 +0200, allank wrote: > Hi Syed, > As requested, attached please find the configuration files. The filter I > am trying to configure has the following characteristics: has an > internal name of 'gene_region' and is contained in FilterGroup > internalName="hiv_sequence", FilterCollection internalName="hiv_sequence". > Looking at the saved xml files, the mid_template.template.xml seems to > contain the above data, but the accompanying mid.xml seems to have even > a single entry for 'gene_region' filter.
correct, thats one of the known problems, that changes dont propagate from template to individual xml. You need to redeclare your filter manually as proposed in the last email. > > Finally, a completely unrelated question, is there a way to load xml > documents into marteditor, I remember the older martj did have this option. If you want to add biomart configuration xmls, yes!, its possible. All you need to do is dump the xmls (both .xml and template), followed by Upload option of marteditor, then select all the files in one go. good luck ! syed > Allan. > > Syed Haider wrote: > > >Hi Allan > >could you please save your xmls and send them to me, with the name of > >the filter causing this trouble. In addition, could you please try > >deleting the filter, export. Then, recreate it manually rather copying > >from another filter, export, check if its displayed. then populate its > >option menu, export and see if its displayed. Each time you export, you > >need to do perl bin/configure.pl -r conf/your_registry.xml --clean, > >kill/restart the server to see the changes on martView. > >hope this helps. > >cheers > >syed > > > > > >On Wed, 2007-09-26 at 11:39 +0200, allank wrote: > > > > > >>Hi all, > >>I have been having a problem having filters created as lists created in > >>marteditor not been displayed in Biomart 0.6. > >>Am using Biomart 0.6 and Martj-0.6 (latest release obtained directly > >>from CVS each day I've attempted to solve this puzzle) and PostgreSQL 8.1.4. > >>This is how I am creating the filters in a rather conservative way, let > >>me explain. In marteditor, I copy a list filter that works (gets > >>displayed just fine in Biomart) whose field in the DB is of the same > >>type as that of the field on which I am creating the new list based > >>filter on, I modify the name and the field name of the copied and now > >>pasted control, next I select 'clear option' in it's context menu, then > >>after I select 'make drop down' from the context menu. The control get's > >>correctly populated with options which are based on unique data values > >>of the underlying field and all seems well. I then export the entire > >>configuration. I kill biomart process the recommended way, I 'cd' into > >>the Biomart perl directory and run 'perl bin/configure.pl --clean -r > >>conf/biomart3___postgresql.xml;' command, then I start biomart. Going to > >>my webbrower, I click on new on the main menu, I select the dataset and > >>so on till I get to select the 'filters' the new filter does not appear. > >>What should I do? > >> > >>Please advise. > >> > >>Allan. > >> > >> > > > > > > >
