Based on the links in the DAS registry (http://das.sanger.ac.uk/das/pfam) , the PFAM das servers appear to be down. Part, no doubt, of the general wind-down of DAS registry and DAS services at EBI/Sanger: http://www.ebi.ac.uk/about/news/service-news/das-services-to-retire
However, DAS access to PFAM from Jalview happily appears to continue to work. I was wondering if Jalview is in fact using the PFAM das servers, or bypasses them and instead performs a direct download via the ws/dbsources code: src/jalview/ws/dbsources/PfamFull.java 41 return " http://pfam.sanger.ac.uk/family/alignment/download/format?alnType=full&format=stockholm&order=t&case=l&gaps=default&entry= "; src/jalview/ws/dbsources/PfamSeed.java 43 return " http://pfam.sanger.ac.uk/family/alignment/download/format?alnType=seed&format=stockholm&order=t&case=l&gaps=default&entry= "; I'm interested because we are planning on serving up our gene family data (currently stored in InterMine) via DAS to Jalview, and were hoping to template off the way Jalview accesses PFAM. Also wondering if you have a recommendation in terms of whether it's worth bringing up new sources via DAS for integration with Jalview, or do you expect to provide another similar mechanism (e.g., via REST api's, as UniProt suggests) -- David M. Goodstein, Ph.D. Phytozome Group Lead Plant and Computational Genomics Group Joint Genome Institute - U.S. Dept. of Energy Center for Integrative Genomics - UC Berkeley
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