[ensembl-dev] ENSEMBL Genomes installation: AJAX error, Trailing commas

Sharon Wei weix at cshl.edu
Thu Mar 7 21:11:26 GMT 2013

Hi Eugene,

Actually I do not know the cause behind the problem, the problem was the 
js function selectActiveTab was missing in my local version of the 
minified js file. This caused the view such as
not showing the ontology table.

It was fixed by putting in place EG version of the minified js file. It 
would be nice if we could get to the bottom of the problem.


On 2/26/13 8:44 AM, ek wrote:
> bacteria plugin fixed as well
> thanks for reporting the issue
> Eugene
> On 2013-02-26 12:49, Rafael Hernández wrote:
>> Hi Ensembl devs,
>> I've installed a local version of Ensembl Genomes release 17 70 and I
>> find some troubles with AJAX webpage refreshing.
>> When I start the httpd process (for example Ensembl fungi), an error
>> message is showed as follows:
>> /usr/local/ensembl_bacteria/htdocs/minified/2726da28aef31bfd2ae4c565379d344e.js.tmp:12878: 
>> ERROR - Parse error. Internet Explorer has a non-standard
>> intepretation of trailing commas. Arrays will have the wrong length
>> and objects will not parse at all.
>> });
>>  ^
>> 1 error(s), 0 warning(s)
>> In spite of this error, the httpd process continues and the Ensembl
>> fungi starts. However this error causes that the generated javascript
>> file ("/minified/xxxxxxxxxxxx.js) doesn't work correctly and the
>> webpages never updates after a query (no AJAX refreshing).
>> The cause of this problem is in the new version of the
>> file _/eg-plugins/common/htdocs/components/99_ZMenu.js_ (revision
>> 1.23), a trailing comma that breaks the javascript generation
>> (yesterday this problem was fixed in branch ensemblgenomes-17-70a).
>> Removing this trailing comma, Ensembl fungi, metazoa, plants and
>> protists works, however Bacteria still not working.
>> For bacteria module, the /eg-plugins/bacteria/htdocs/components/
>> directory contains some files used for the _minified _javascript
>> generation_ _and I think that there could be the problem.
>> When I remove the trailing comma
>> in _/eg-plugins/common/htdocs/components/99_ZMenu.js, _2
>> more similar errors are thrown.
>> I'm trying to fix the problem but I can't find the cause. Any idea?
>> Thank you and regards,
>> Rafa Hernández de Diego
>> SLU-Global Bioinformatics Center
>> Swedish University for Agricultural Sciences (SLU)
>> Gerda Nilssons väg 2,
>>  Box 7023, 750 07 Uppsala, Sweden.
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