14 Aug 2012 01:00
SVG creation error
Dear All:
Did someone have this problem to create SVG file?
When we tried to output a SVG graphics, we got “internal server error”.
Here is the error information in apache log file:
An error occurred while evaluating the callback at section='Locus',
option='bgcolor':, referer: http://localhost.localdomain/cgi-bin/gbrowse/test/?help=svg_image;flip=0;cache=0.608085621920512
=> Global symbol "$description" requires explicit package
name at (eval 138) line 1, <GEN9> line 132., referer: http://localhost.localdomain/cgi-bin/gbrowse/test/?help=svg_image;flip=0;cache=0.608085621920512
at
/usr/local/lib/perl5/site_perl/5.10.0/x86_64-linux/Bio/Graphics/Browser.pm line
187, referer: http://localhost.localdomain/cgi-bin/gbrowse/test/?help=svg_image;flip=0;cache=0.608085621920512
Can't use an undefined value as an ARRAY reference at
/usr/local/lib/perl5/site_perl/5.10.0/GD/SVG.pm line 1120.,
referer: http://localhost.localdomain/cgi-bin/gbrowse/test/?help=svg_image;flip=0;cache=0.608085621920512
Premature end of script headers: gbrowse_img, referer: http://localhost.localdomain/cgi-bin/gbrowse/test/?help=svg_image;flip=0;cache=0.608085621920512
If we include the data panel showing in “xyplot” glyph and “boxes”
graph_type in the graphics to output, we got this error.
If we only include the gene information like “generic” glyph, we can get
the svg file.
So looks like something wrong in xyplot graphics.
We are using GGB 1.70 in linux server. We tried to use GGB2, we can get the
SVG file but the file only has small part of figure we expected.
PS, Is there a setup to turn the grid off in the panels of xyplot glyph
(showing in serverl horizontal lines cross the boxes).
Thanks a lot.
Wu
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