13.06.2014 BiolDiv

From IMarine Wiki

Revision as of 09:03, 13 June 2014 by Nicolas.bailly (Talk | contribs)
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to: navigation, search

Meeting Friday 13 June 2014

Present: Fabio (until 10:40), GP, Nicolas, Casey, Edward.




  • OGC protocol: specifications for processing. Used by Terradue and IRD.
  • xml-based interface: accept REST requests. Output in xml format following xsd.
  • Developed for BiOnym asking to Taverna staff to check for coherence. Some adjustment were necessary but works now for Taverna workflow.
  • To be used by FishBase in August 2014 version. To be compared with the call of API in the Statistical Manager.
  • Catalogue of WPS services available in the infrastructure: [[1]http://wps.statistical.d4science.org/wps/WebProcessingService?service=WPS&Request=GetCapabilities] which is read by WPS indexing engines.
  • Index BiOnym in MyExperiment for Taverna users after one week to let Anton, Edward and Nicolas checking the political issues to be indexed in MyExperiment.
  • Ask Tony Rees, Yde de Jong, GBIF people, more? to check the interface (Nicolas, Edward).

BiOnym Interface

  • Ticket sent by Fabio.
  • Casey replied Friday morning and uploaded the corrections as version 5 (another subversion to be sent by Casey after integration of 2 matchers by default, see below).
  • Just an issue on double quotes around scientific names to be fixed.
  • Decision on matchers by default: GSAy first, TriGrams second. Let's start with that default and test.
  • Computing capacity for BiOnym: 16 synchronous requests are possible. Should be enough even if there are heavy requests (big files, several TAFs).


  • Integration of latest corrections.
  • Submission to day.
  • Few days for light review by CNR publishers and then published.
  • Discussion on most likely journals (expensive options like PLosOne discarded):
    • Biological paper: target Biodiversity Informatics (Nicolas to check BioMed journals).
    • Informatics paper: target Ecological modelling (less Ecography).

Next meeting

Friday 20th June 2014, 10 am, changed from Thursday due to Holiday (again!) in the Philippines on 19th.

Personal tools