Week 4 Project Update

I spent most of last week out of town for a meeting so I have some catching up to do this week.

Last week:

• Tried to get a more stable dsn parser to work by using DBI subfunction parse_dsn
• Finished up PhyImport
• Updated code to better fit with existing bioperl coding standards
• Fixed my installation of bioperl (This was to get NEXUS file import working)
• I am now working from bioperl-live
• Committed biosql-phylodb-mysql.sql to biosql-schema CVS
• This is my first commit to a group project :)
• I hope bioperl converts to SVN soon
  

This week:

• Finish PhyExport to export trees from the database to text files
• Start PhyOpt by getting a precomputed nested sets working
• Try to figure out if I really want to continue to use Bio::Tree or switch to Bio::Phylo
• The Bio::Phylo object seems more rich but it is not a bioperl module