On Mon, 2007-06-18 at 14:32 +0100, David Croft wrote: > Hi, > > I just upgraded from 0.5 to 0.6, here's a small report: > > The installation was pretty easy, I already had nearly all of > the Perl modules that I needed. Being incurably lazy, I > decided to use the same Apache installation as I used for > 0.5, and as far as I can tell, that isn't a problem. One thing > I noticed was that the 0.6 documentation tells you to start > the server with: > > /my/chosen/Apache/binary -d $PWD -f $PWD/conf/httpd.conf > > ...but I found that I could omit the -f option and it would still > start. Is this option necessary?
No, thats not necessary, you may restart the server with out -f prefix, its just to give absolute path your apache configuration file. > I already had a database with it's meta_* tables from a 0.5 > installation. I ran configure.pl using my 0.5 registry file, and > it ran without any obvious problems. Then I started up > marteditor. It already knew about the databases that I was > using under 0.5. I did an import on one of my datasets. It > warned me that they were in 0.5 format and asked me if I > wanted to convert to 0.6. I said yes. As far as I can see, the > attributes and filters that existed before exist still. The only > funny thing was that everything that I had previously marked > as hidden is now gone. Is it still there but invisible, or is really > gone? > > Under 0.5, I was getting a problem with marteditor, whereby > some attributes were visible in marteditor but not in martview. > That was the real reason why I upgraded so smartly, to see if > these attributes would become visible to martview. They don't, > worst luck. I tried various tricks, like creating new attributes > and even new attribute collections in the marteditor, but none > of these are visible in the martview. Is it time for me to stop > throwing good time after bad and recreate everything from > scratch, using "naieve"? It will probably cost me 3 days to get > things back to the way they were. You do not need to do naive. As I worked on your xml last week in your presence and we noticed that martEditor 0.5 was unable to pass these attributes down to actual XML from template xml. You may safely delete such attributes one by one and export. Now you have a clean template which would reflect whats in your config xml. Then create new attributes and export them. This should work. You may consider deleting, followed by adding an attribute. However there is no need to do naive as you have already done a lot of work on your XML. feel free to write back if you have any further queries. Cheers syed > > Cheers, > > David Croft. -- ====================================== Syed Haider. EMBL-European Bioinformatics Institute Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. ======================================
