I could swear this was working yesterday, so I think it is quite new.
Something has changed at PubChem or with Firefox. I don't think it is
Firefox, because I downgraded to FF 26.0 temporarily, and the problem
persists.
*Problem:* JSmol/HTML5 cannot download PubChem SDF files.
*Configuration: *Firefox 27.0.1/Windows 8
*Example:* http://chemapps.stolaf.edu/jmol/jsmol/jsmol.htm -- click on
*:caffeine
*link
*Observation 1: *JSmol reports "unrecognized file format"
*Observation 2:* No problem in MSIE or Chrome
*Observation 3: *Same problem local or website
*Observation 4:* Same problem with older, stable version of Jmol at
http://chemapps.stolaf.edu/jmol/jsmol-2014-01-24/jsmol.htm
*Observation 5:* The following simple direct AJAX call fails under the
exact same conditions as above:
alert($.ajax({"dataType":"text","async":false,"type":"GET","url":"
http://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/name/caffeine/SDF?record_type=3d
"}).responseText)
*Observation 6:* The following simple AJAX call
alert($.ajax({"dataType":"text","async":false,"type":"GET","url":"
http://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/name/caffeine/SDF?record_type=3d
"}).statusText)
reports "OK" in other browsers but
[Exception... "Failure" nsresult: "0x80004005 (NS_ERROR_FAILURE)"
location: "JS frame ::
file:///C:/jmol-dev/workspace/JSmol/site/jsmol/jquery/jquery.js :: .send ::
line 8707" data: no]
in Firefox.
*Observation 7:*
The following simple AJAX calls to a similar site work fine:
alert($.ajax({"dataType":"text","async":false,"type":"GET","url":"
http://cactus.nci.nih.gov/chemical/structure/caffeine/file?format=sdf&get3d=True
"}).responseText)
alert($.ajax({"dataType":"text","async":false,"type":"GET","url":"
http://cactus.nci.nih.gov/chemical/structure/caffeine/file?format=sdf&get3d=True
"}).statusText)
The difference appears to be that PubChem is returning data with response
type of chemical/x-mdl-sdfile, which forces a special download, as with
PDF.
Comments welcome.
Bob
--
Robert M. Hanson
Larson-Anderson Professor of Chemistry
St. Olaf College
Northfield, MN
http://www.stolaf.edu/people/hansonr
If nature does not answer first what we want,
it is better to take what answer we get.
-- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
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