[miso-users] MISO aborts with error *** glibc detected *** python: free(): invalid pointer

[Yarden Katz]

Hi Anke,

Could you please let me know the versions of pysam, samtools and gcc on your system?

Also, can you please show me the trace of your compilation?  I.e. the call "python setup.py install"?

Thanks.

Best, --Yarden


On Feb 24, 2012, at 6:03 PM, Anke Busch wrote:

> Hello again,
> 
> I updated all modules and packages (except I'm still using python2.6), 
> but nothing changed. Then I set
> 
> export MALLOC_CHECK_=0
> 
> which changed the output to the following:
> 
> .....
> .....
> Computing Psi for 1 genes...
>   - ENSMUSG00000019943
>   - GFF filename: 
> /home/anke/Software/src/misopy-0.4.1/misopy/gff-events/mm9/genes/Atp2b1/indexed/chr10/ENSMUSG00000019943.pickle
>   - BAM: 
> /home/anke/Software/src/misopy-0.4.1/misopy/test-output/sam-output/c2c12.Atp2b1.sorted.bam
>   - Outputting to: 
> /home/anke/Software/src/misopy-0.4.1/misopy/test-output/gene-psi-output
> Loading BAM filename from: 
> /home/anke/Software/src/misopy-0.4.1/misopy/test-output/sam-output/c2c12.Atp2b1.sorted.bam
> Loading took 0.00 seconds
> Segmentation fault
> .
> ----------------------------------------------------------------------
> Ran 2 tests in 3.822s
> 
> OK
> 
> So at least something changed, but there's still a segmentation fault 
> which causes a crash.
> Would be great, if anyone would have an idea on that...
> 
> Thanks,
> Anke.
> 
> -- 
> ******************************************
>   Dr. Anke Busch
>   Postdoctoral Researcher
>   Department of Microbiology and Molecular Genetics
>   Medical Sciences I, C290
>   University of California, Irvine, USA
> 
>   Email: abusch at uci.edu
>   Phone: +1-949-824-2128
> ******************************************
> 
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