[gt-users] Fwd: Genome tools sketch yields blank png

[Sascha Steinbiss]

On 10/02/2009 07:59 PM, Martin Gollery wrote:
> One of my collaborators is installing gt from source on CentOS. He runs gt
> sketch, but the resulting .png file is blank. Has anyone else seen this
> issue?

Thanks for your bug report. We have no knowledge of something like that
happening up to now, but of course I will investigate. Which CentOS
version did you use?

> Apart from some library and include-file path issues, everything seems to
> compile fine (various "yum install ..." -> pixman -> cairo -> gt). However,
> running a test command like:
> 
> /tmp/gt/genometools-1.3.3/bin/gt sketch -width 1065 -style
> /tmp/gt/genometools-1.3.3/gtdata/sketch/default.style -force -flattenfiles
> -addintrons -seqid 1 -start 1000000 -end 2000000 test.png seq1.gff3
> 
> results in a nearly blank png image.

Can you provide a minimal example GFF3 file showing this behaviour? This
could help me track down the source of your issue.
What cairo version do you use? It could also be useful to know what
exactly you mean by 'nearly blank'. Can you send an example output image?
Did you change anything in the default style file? If not, you shuould
be able to omit the '-style' option.
Finally, does changing the outout format to PDF, PS or SVG produce a
non-blank image file?

Thanks,
Sascha

-- 
Sascha Steinbiss
Center for Bioinformatics
University of Hamburg
Bundesstr. 43
20146 Hamburg
Germany

Email:  steinbiss at zbh.uni-hamburg.de
URL:    http://www.zbh.uni-hamburg.de/steinbiss
Phone:  +49 (40) 42838 7322
FAX:    +49 (40) 42838 7312