EMBOSS: Project Meeting (Mon 22nd January 2007)

Attendees

EBI: Peter Rice, Alan Bleasby, Mahmut Uludag,
Sanger:
Visitors:
Apologies: Jon Ison, Shaun McGlinchey, Rodrigo Lopez, Tim Carver

1. Minutes of the last meeting

Minutes of the meeting of 8th January 2007 are here.

2. Software Development

2.1 Applications

Alan has modified restriction enzyme handling by restrict to report prototypes with no commercial suppliers, but which have isoschizomers that do. These are now flagged with an asterisk. A modification to rebaseextract was needed to store the extra information in a 4th database file. A similar change is needed in remap.

2.3 Other development

Mahmut reported that 210 test cases for the EMBOSS SoapLab services are now working. Output from service tests can be saved (as for the EMBOSS QA tests) for reuse by a later test run. EMBRACE wiki pages have been updated to exclude EMBOSS administrative and interactive programs.

Mahmut is now working on EMBRACE reports, including Taverna 1.5 workflows. All EMBOSS services could be saved in a single WSDL file, or can be split into groups. This is an issue for clients to address. It is possible to provide more than one set of WSDL definitions.

Peter suggested revising sequence inputs to automatically detect list input for any file whose first line is a valid USA. This could simplify processing of list input by SoapLab services, where the union application is hard to define inputs for.

3. Administration

Alan and Peter plan to build a 4.1.0 release once the current code changes are completed and have had time for thorough testing. This will clean up the current patch file directory on the FTP server.

4. Documentation and Training

Alan is writing the Jemboss chapter for the administrators' guide, and will review the operating system platform-specific notes.

Peter is working on the database administration section.

Peter suggested an application to report architecture-specific information for help in debugging and support.

Alan, Jon and Peter had lunch with Cambridge University Press last week to discuss the status of the EMBOSS books.

5. User queries and answers

Jon was absent this week. Postponed to the next meeting.

6. AOB

The EMBOSS team Christmas dinner (and birthday celebrations for Alan and Jon) will be on Friday.

7. Date Of Next Meeting

The next meeting is on Monday 5th February.