EMBOSS: Project Meeting (Mon 29th June 09)


EBI: Alan Bleasby, Jon Ison, Mahmut Uludag
Apologies: Peter Rice (at BOSC/ISMB/ECCB 2009 conference)

1. Minutes of the last meeting

Minutes of the meeting of 22nd June 2009 are here.

2. Maintenance etc.

2.1 Applications


2.2 Libraries


2.3 SoapLab

Mahmut reported logging problems and issues of multiple deployment in the same tomcat when using METRO. The issues were resolved by returning to JAXWS 2.1.7.

The new SoapLab2 release on Friday looks healthy. Two rarely used methods are missing from the API. Mahmut will restore them.

2.4 Other

Mahmut will check the documents directory for the 'i' box in Jemboss.

3. New developments

Alan continues to work on the Ensembl API. He has a test program that successfully downloads information from the main server at www.ensembl.org

Jon is working on the public data resources cross-reeferenced by SwissProt and EMBL. He has updated "dbxref.dat" which is derived from SwissProt's "dbxref.txt" file. The new file has additional known data resources from the recently published ELIXIR database survey by Chris Southan, giving a total of 600 databases, of which 150 are cross-referenced by the current main databases.

The fields in the file are:

Jon has also been working on library code to use the dbxref.dat file definitions.

4. Administration


5. Documentation and Training

5.1 Books

Jon sent sample documents to the publishers in Word 2003 document format.

Peter is away, but will work on the book texts between now and August 24th

5.2 Website


6. User queries and answers

All done this week.

7. AOB


8. Date Of Next Meeting

The next meeting will be on Monday 6th July.