-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 I see the same issue, repeatedly on my galaxy instance. Running unmodified from the galaxy-dist/default branch. Since I'm running the uncompressed data.js, I get a bit more information from my errors than Peter's
[10:05:12.293] TypeError: j is undefined @ http://xxx/galaxy/static/scripts/mvc/data.js:1 [10:05:12.291] "TabularButtonTrackster : Chromosome column undefined."
Mine points to line 188 in data.js, specifically the "else if" in this function. _renderCell: function(cell_contents, index, colspan) { var column_types = this.model.get_metadata('column_types'); if (colspan !== undefined) { return $('<td>').attr('colspan', colspan).addClass('stringalign').text(cell_contents); } else if (column_types[index] === 'str' || column_types === 'list') { /* Left align all str columns, right align the rest */ return $('<td>').addClass('stringalign').text(cell_contents); } else { return $('<td>').text(cell_contents); } }, I get an error: "Uncaught TypeError: Cannot read property '0' of undefined", indicating that upon attempting to read index 0 of "column_types" it determines that column_types is null. I commented out the else-if block and found that everything else was working, it just rendered as right aligned. Hope this helps! Eric Rasche On 10/03/2013 10:44 AM, Peter Cock wrote:
The good news is that running the default branch from galaxy-central seems to work, so at some point the fix/change/regression should reach the stable releases on galaxy-dist as well.
Peter
On Thu, Oct 3, 2013 at 3:12 PM, Peter Cock <p.j.a.cock@googlemail.com> wrote:
On Thu, Oct 3, 2013 at 2:47 PM, sam guerler <aysam.guerler@gmail.com> wrote:
Hi Peter,
I cannot reproduce the type error you are observing, but that one might be critical. The second message is rather an information than an error message. Is it possible that data.js is modified in your local galaxy version? You could apply an hg diff on data.js or maybe send the first few code lines in order verify this?
Thanks, Sam
Thanks Sam,
Unfortunately my data.js seems to match galaxy-dist perfectly:
$ wget https://bitbucket.org/galaxy/galaxy-dist/raw/c42567f43aa762a45f7eb7fc0917260... ... $ diff data.js /mnt/galaxy/galaxy-dist/static/scripts/mvc/data.js (no difference)
I wonder if part of the issue is which tool created the tabular file, and if it uses some of the special column names like chromosome etc. The tools I've noticed this with do not use column name metadata (but do tend to have a #comment line with column names as the first line).
Peter
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