Re: [MUMmer-help] mummeplot error

[Adam P. <aph...@gm...>]

Hi Theo,
I have not seen that error before. The "geometry" option is an X toolkit
parameter that sets the size of the displayed window. Can you email some
details of the OS/environment you are running?

Meanwhile, you might be able to get it working by commenting out a line in
the mummerplot script. Search the script for the line containing "geometry"
(there's only one, I believe), comment it out with a '#', and rerun.

Best,
-Adam




On Fri, Jul 25, 2014 at 1:43 AM, <The...@cs...> wrote:

>  Hi,
>
>
>
> Any idea what’s cusing this error when trying to draw a nucmer plot??
>
>
>
> Thanks.
>
>
>
> Theo
>
>
>
>
>
> Line=
>
>
>
> $mummerplot out.delta
>
>
>
> Setting up libexiv2-12 (0.23-1) ...
>
> Setting up libnetpbm10 (2:10.0-15+b1) ...
>
> Setting up librsvg2-common:amd64 (2.36.1-1) ...
>
> Setting up netpbm (2:10.0-15+b1) ...
>
> Setting up psutils (1.17.dfsg-1) ...
>
> Setting up liblensfun-data (0.2.5-2) ...
>
> Setting up liblensfun0 (0.2.5-2) ...
>
> Setting up ufraw-batch (0.18-2) ...
>
> Processing triggers for libgdk-pixbuf2.0-0:amd64 ...
>
> all29c@aahl-02-mel:~/data/015-campy_ass/miseq/2898$ mummerplot out.delta
>
> defined(%hash) is deprecated at /usr/bin/mummerplot line 884.
>
>         (Maybe you should just omit the defined()?)
>
> defined(%hash) is deprecated at /usr/bin/mummerplot line 894.
>
>         (Maybe you should just omit the defined()?)
>
> defined(%hash) is deprecated at /usr/bin/mummerplot line 981.
>
>         (Maybe you should just omit the defined()?)
>
> defined(%hash) is deprecated at /usr/bin/mummerplot line 991.
>
>         (Maybe you should just omit the defined()?)
>
> defined(%hash) is deprecated at /usr/bin/mummerplot line 1034.
>
>         (Maybe you should just omit the defined()?)
>
> defined(%hash) is deprecated at /usr/bin/mummerplot line 1044.
>
>         (Maybe you should just omit the defined()?)
>
> gnuplot 4.6 patchlevel 0
>
> Reading delta file out.delta
>
> Writing plot files out.fplot, out.rplot
>
> Writing gnuplot script out.gp
>
> Forking mouse listener
>
> Rendering plot to screen
>
> Cannot open load file '-geometry'
>
> "-geometry", line 0: util.c: No such file or directory
>
>
>
> WARNING: Unable to run 'gnuplot -geometry 500x500+0+0 -title mummerplot
> out.gp', Inappropriate ioctl for device
>
>
>
> *Dr Theo R. Allnutt*
>
> Project Scientist: Bioinformatics *|* Food Microbiology and Safety Group
> Animal, Food and Health Sciences
> CSIRO
>
>
>
> Phone: +61 397 313 204* | *Fax: +61 3 9731 3201
> the...@cs... <Nar...@cs...> *|* www.csiro.au
> Address: CAFHS, 671 Sneydes Road, Werribee, VIC 3030; *and *AAHL, PO Bag
> 24
> Geelong VIC 3220.
>
>
>
>
>
>
>
>
>
> *Dr Theo R. Allnutt*
>
> Project Scientist: Bioinformatics *|* Food Microbiology and Safety Group
> Animal, Food and Health Sciences
> CSIRO
>
>
>
> Phone: +61 397 313 204* | *Fax: +61 3 9731 3201
> the...@cs... <Nar...@cs...> *|* www.csiro.au
> Address: CAFHS, 671 Sneydes Road, Werribee, VIC 3030; *and *AAHL, PO Bag
> 24
> Geelong VIC 3220.
>
>
>
>
>
>
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