On Wed, 31 May 2006, E.O. Stinson wrote: > Hi, > I'm trying to set up a new Mart with attached genomic sequence, but I > can't seem to find any documentation on how the sequence_mart database > is supposed to be set up. In particular, I'm confused as to how table > fields map to attributes in MartExplorer; looking at Ensembl's > sequence_mart_38, I see a agambiae_gene_ensembl_structure.str_chrom_name > attribute, but I can't find the associated str_chrom_name field anywhere.
This particular attribute is using our placeholder/pointer terminology where the part before the . refers to the dataset describing the "str_chrom_name" attribute. You have to look at the agambiae_gene_ensembl_structure datasetConfig XML to see how the str_chrom_name is defined - it refers to a column in the agambiae_gene_ensembl_structure__structure__main table in ensembl_mart_38 > > Is there a better way to be building a new mart? (I've seen mention of > MartBuilder, is it in a usable state?) Any documentation for > sequence_mart databases? > MartBuilder is under active development - hopefully the first version with most features will be availabe in 0_5 release this summer but for now it is perl/SQL scripts I am afraid best wishes Damian > Thanks, > E.O. Stinson > VectorBase.org >
