Changes between Version 32 and Version 33 of OpenBio*

Timestamp:

2008/02/14 15:04:41 (16 years ago)

Author:

holland

Comment:

--

OpenBio*

@@ -83 +83 @@
  * Translation of BioSQL to Derby RDBMS.
  * -- Would like to know why BioSQL can't add multi dbxrefs to one docref.
- * -- Would like to work out how best to store EMBL assembly data in BioSQL.
+ * -- Would like to work out how best to store EMBL AS lines (EMBLxml 'assemblyElement') in BioSQL beyond simply storing as unparsed qualifier values. Hard also because in some records some columns are missing meaning that XML representation is not possible as XML does not allow for missing values (e.g. primary begin/end).
+ * -- Would like to work out how best to represent EMBL CO (EMBLxml 'contig') lines in BioSQL. These are extra hard as they are in place of actual sequence data - sequences that have CO lines have NO SQ lines - meaning that sequence length has to be computed as a function of the CO lines rather than being provided. CO lines look like GenBank locations but have a simpler syntax plus one extra keyword for gaps, which is either numeric or a string 'unk100' indicating unknown gap size.
 
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