Hi folks, By default the JalView provides a link to the the the EMBL-EBI SRS server in the menu accessed by right-clicking on a sequence identifier. Since the EMBL-EBI SRS server has been retired (see http://srs.ebi.ac.uk/srs-retirement.html) users will want to change the link configuration.
In Desktop JalView this can be done by modifying the "Connections" in the "Preferences" (see http://www.jalview.org/help/html/features/preferences.html#connections). For the JalView applet this can be done by providing a link configuration using the 'linkLabel' and 'linkUrl' applet parameters (see http://www.jalview.org/examples/appletParameters.html). For example to use the "EBI Search" service (http://www.ebi.ac.uk/ebisearch/) for a link: A. In Desktop JalView: - Select "Tools" -> "Preferences..." from the desktop window - Select the "Connections" tab - Select the link definition for "SRS" in the "URL link from Sequence ID" - Click the "Edit" button - Set the "Link Name" to "Find in EBI Search" - Set the URL to: http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$ - Click "OK" - Click "OK" B. For the JalView applet add the following applet parameters to the 'applet' tag: <param name="linkLabel_1" value="Find in EBI Search" /> <param name="linkUrl_1" value="http://www.ebi.ac.uk/ebisearch/search.ebi?db=allebi&query=$SEQUENCE_ID$"; /> All the best, Hamish -- ============================================================ Mr Hamish McWilliam, Web Production, European Bioinformatics Institute (EMBL-EBI), European Molecular Biology Laboratory, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD United Kingdom URL: http://www.ebi.ac.uk/ ============================================================ _______________________________________________ Jalview-discuss mailing list [email protected] http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss
