gene curation utility to create coding and nono-coding isoform structures in a region, based on RNASeq spliced introns
added option to also make isoforms starting from TSL sites
fixed parsing of Feature ids
tidied up format of Remark data
Removed the Positive_clone connection for non elegans species.
fixed problem with start position in reverse sense after a TSL site
Commiting the Operon Name addition, the qPCR addition to Expression_cluster, Movie name tag change, Reflects_endogenous_expression_of tag for Expr_pattern, Gene_class former lab and finally the WBProcess hierarchical structure for topic terms.
Updated M.A.'s Gene_class/Laboratory change
add chromosome prefix to chromosome names before getting flanking sequences
WS243 Models
------------

This cycle we see 6 model changes

 * Operon Name addition

 * qPCR addition to Expression_cluster

 * Movie "Name" tag change,

 * Reflects_endogenous_expression_of tag for Expr_pattern,

 * Gene_class former lab

 * WBProcess hierarchical structure for topic terms.

More information can be found here:

http://wiki.wormbase.org/index.php/WS243_Models.wrm
added the SL2 sequences for remanei, as confirmed by the RFam covariance analysis and the remanei short read data
missing bracket replaced
adjusted the Sl2 sequence CRE_SL2h to add an extra G at the start to match the consensus better (the 5 prime end of CRE32998 will be adjusted accordingly)
set chromosome prefix when reading data from BAM files
chromosome prefix not required in hits files
New script to generate links between Europe pubmed central and WormBase, and upload the files to the ePMV FTP site
in read_accession() when a query of the ENA warehouse returns an unexpected number of columns, it works out which fields are missing and works around the problem by submitting a modified search - not elegant but it works most of the time
Enhancements
removed the field name project_accession from the ENA warehouse query as it is now invalid
added acey/A.ceylonicum as provisional species