[BiO BB] MrBayes - Memory overflow

[Jose Maria Gonzalez Izarzugaza]

Thanks a lot, Oscar.

I've tried to run the consensus tree on different computers, with 
different architechtures, and the results are the same in all of them: a 
"nice" segmentation fault after reading the 2 tree files. The problem is 
just with one specific dataset, the one with the most taxa. That's why i 
say it migth be due to memory limitations.

As i use a previously generated set of trees, the command block is as 
simple as

sumt filename=filewithALLtrees contype=allcompat burnin=1500 (where contype can also be skipped to the default half compat)

----------------------------------------------------------------------------------------------------------------------------------------- 


Oscar Moya wrote:

>Hi Txema,
>
>I am not sure about if your problem is due to memory needs. I am running
>analyses of 70 sequences 1200 bases long in 512MB RAM computers.
>
>Have you tried to run it on another computer? It sounds evident, but
>sometimes work.
>
>If problems keep, you could send the command block for checking (mcmc
>settings, Lset, prset, etc...).
>
>Good luck!
>
>Óscar
>
>-----Mensaje original-----
>De: bio_bulletin_board-bounces+omoya=uib.es at bioinformatics.org
>[mailto:bio_bulletin_board-bounces+omoya=uib.es at bioinformatics.org] En
>nombre de Jose Maria Gonzalez Izarzugaza
>Enviado el: martes, 28 de febrero de 2006 11:52
>Para: bio_bulletin_board at bioinformatics.org
>Asunto: [BiO BB] MrBayes - Memory overflow
>
>Hello everyone.
>
>Does anybody know how i could limit the memory usage while creating a 
>consensus tree with MrBayes? (even though i am using a 2GB RAM computer)
>
>The problem (segmentation fault) only appears when i'm trying to build a 
>tree with more than 40 taxa, so the problem is not in the compilation, 
>nor in the commands given.
>
>my mrbayes command is:
>sumt filename=filewithALLtrees contype=allcompat burnin=1500
>
>Many thanks in advance.
>
>Regards,
>Txema
>
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