What Galaxy revision are you running? Given the new information I'd guess it's an
erroneous console.log that was removed in bb7f51fb545d.
On May 29, 2012, at 6:49 PM, Anthonius deBoer wrote:
Interestingly when I open the Developer Tools in Chrome, my VCF file
is actually loading...As soon as I close the developer tool, it stops loading the the page
again (and it resumes loading when I re-open the Developer tools...)
Here's theVCF file...On my computer it only shows up to line
5 112175639 rs121913332 C T 3206.18 PASS AC=3;AF=0.0174;AN=172;COSMIC;DB;DP=15405;Dels=0.00;EFF=DOWNSTREAM(MODIFIER||||APC|protein_coding|CODING|ENST00000502371|),DOWNSTREAM(MODIFIER||||APC|protein_coding|CODING|ENST00000504915|),DOWNSTREAM(MODIFIER||||APC|protein_coding|CODING|ENST00000507379|),DOWNSTREAM(MODIFIER||||APC|protein_coding|CODING|ENST00000512211|),DOWNSTREAM(MODIFIER||||APC|protein_coding|CODING|ENST00000514164|),STOP_GAINED(HIGH|NONSENSE|Cga/Tga|R1450*|APC|protein_coding|CODING|ENST00000257430|exon_5_112173250_112181936),STOP_GAINED(HIGH|NONSENSE|Cga/Tga|R1450*|APC|protein_coding|CODING|ENST00000457016|exon_5_112173250_112181936),STOP_GAINED(HIGH|NONSENSE|Cga/Tga|R1450*|APC|protein_coding|CODING|ENST00000508376|exon_5_112173250_112181753),TRANSCRIPT(MODIFIER||||CTC-554D6.1|processed_transcript|NON_CODING|ENST00000520401|),UTR_3_PRIME(MODIFIER||||APC|protein_coding|CODING|ENST00000508624|);GC=45.64;HRun=0;MQ0=0;OND=0.01;set=variant5-variant49-variant10
On May 29, 2012, at 03:39 PM, Dannon Baker <dannonbaker(a)me.com> wrote:
> Hmm. Chrome on OSX looks good to me, please do send over the VCF file and I can take
> On May 29, 2012, at 6:31 PM, Anthonius deBoer wrote:
> > Hi Dannon,
> > I could share the VCF file, but I think it is dependent on the browser you
> > I used the same file on FireFox on Linux and there it loaded the complete VCF
file (Still don't see the "Show All" option) but on my chrome on Windows 7
it only shows the first 5 lines or so of the genotypes and then nothing...The stuff that
IS shown looks correctly formatted etc. it just does not show the rest of the file which
it normally does....
> > Thon
> > On May 29, 2012, at 03:01 PM, Dannon Baker <dannonbaker(a)me.com> wrote:
> >> There isn't a universe toggle for the tabular display. The VCF datatype
inherits the pretty printing from the base tabular datatype, and if you'd like to
disable it one way would be to override the display_data method in VCF using the raw Data
> >> That said, I'd rather just fix your problem. Looking at a few VCF files
I have, they look fine. Can you share a VCF file with me that doesn't display
> >> -Dannon
> >> On May 29, 2012, at 5:50 PM, Anthonius deBoer wrote:
> >> > Hi,
> >> >
> >> > Is there a way to turn of the special pretty print version for VCF
files since it is not working correctly?
> >> >
> >> > I now have to download every VCF file I want to look at rather than
being able to see the first MB of the text file it is...
> >> >
> >> > Where is this pretty printer and how do I turn it off?
> >> >
> >> > Thanks
> >> >
> >> > Thon
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