Hi Jim, > 1. should a bundled version of the BioJS msaviewer + dependencies be shipped > with Jalview ? > -> alternative is to include external references to minified code
I already upload the minified MSA code to a CDN, so just linking to sth. like [1] should be easier. Do you think it is important that the rendered web page works without internet? > 2. are the JSON/BSON structures employed by msaviewer sufficiently standard > that we can commit time to create new parsers/emitters in Jalview ? Nope. Imho a standard would require more than one person to agree on it. > we just write vanilla alignment, sequence feature and alignment annotation > files and improve msaviewer so its compatible with Jalview's standard formats. Currently the msaviewer only allows a user to import alignment files - it does not support the import of sequence features nor alignment annotation files. I will work on this. 3. My idea was to show a basic configuration dialog to toggle some options of the msaviewer (before the generation of the JS files). -> What is your preferred way to receive those changes? As git patch? Best, Seb [1] cdn.biojs.net/msa/0.2/msa.min.gz.js On 2014-09-12 10:42, Jim Procter wrote: > Hi Seb. > > cc-ing jalview-dev... > > On Thu Sep 11 19:59:42 2014, Sebastian Wilzbach wrote: >> How do you imagine the "MSA Viewer HTML output" mode for the Jalview desktop >> to work? > > Jalview would provide an export option that could either: > * write a single html page with bundled JSON/BSON data > * write a series of files: html page with references to local JSON/BSON files > > The questions in my mind are: > > 1. should a bundled version of the BioJS msaviewer + dependencies be shipped > with Jalview ? > -> alternative is to include external references to minified code > > 2. are the JSON/BSON structures employed by msaviewer sufficiently standard > that we can commit time to create new parsers/emitters in Jalview ? > -> That would mean that we could also import data + visualisation settings > from an existing msaviewer-enabled page. > -> alternately, we just write vanilla alignment, sequence feature and > alignment annotation files and improve msaviewer so its compatible with > Jalview's standard formats. > >> I would be glad to help you. > :) The relevant Jalview issue is here: > http://issues.jalview.org/browse/JAL-1541 > > Jim. >
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