[gt-users] custom-track memory leak

[Sascha Steinbiss]

On 11/16/2009 06:15 PM, Troels Marstrand wrote:
> I am trying to replicate the custom track example from the python
> tutorial pages, however, I get to following error message:
>
> /Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6/site-
> packages/gt/annotationsketch/layout.py:51: RuntimeWarning: memory leak
> in callback function.
>     had_err = gtlib.gt_layout_sketch(self.layout, canvas, err)

Dear Troels,

thanks for your message.
I am aware of this message (which has been reported before, see 
http://genometools.org/pipermail/gt-users/2008-December/000017.html).
At that time I was not able to verify that a memleak resulting from 
GenomeTools code actually existed, so that issue was not investigated 
further.
In any case, the message reported by you is in no way an 'error 
message', but rather a simple warning from the Python interpreter. If 
you append the line

canvas.to_file("output.png")

to your example code, you would get a proper image output regardless of 
this warning.

Since this is the second time this is reported, I guess I will take the 
time and get rid of this message once and for all by rewriting how 
strings are passed to and from the CustomTrack callback functions.
These fixes will be available from the git repo soon.

> Thanks in advance for any help

You're welcome...

> Cheers
> Troels

Bye,
Sascha

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

Email:  steinbiss at zbh.uni-hamburg.de
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