stamatak
commented
9 years ago I'll try to fix this soon, I don't think that the fix is easy if you don't know the ExaML code well, please use the RAxML google group for reporting bugs in the future, thereby all users are aware of potential problems.
Alexis
On 11.05.2015 19:43, A.P. Jason de Koning wrote:
In |axml.h|, the |rawdata->sites| variable is defined as type |int|. Attempting to compress an alignment with about 3B positions is resulting in a "too few sites" error, presumably because we are overflowing the |int|. We will also have more than 32k site patterns after compression, and some of these will occur more than 32k times in the dataset - so we will still be causing overflows in the site/alias indexes even after changing |sites| to |long long int|. Is there a quick fix for this? Thanks!
— Reply to this email directly or view it on GitHub https://github.com/stamatak/ExaML/issues/8.
Alexandros (Alexis) Stamatakis
Research Group Leader, Heidelberg Institute for Theoretical Studies Full Professor, Dept. of Informatics, Karlsruhe Institute of Technology Adjunct Professor, Dept. of Ecology and Evolutionary Biology, University of Arizona at Tucson
www.exelixis-lab.org
jasondk
In
axml.h, therawdata->sitesvariable is defined as typeint. Attempting to compress an alignment with about 3B positions is resulting in a "too few sites" error, presumably because we are overflowing theint. We will also have more than 32k site patterns after compression, and some of these will occur more than 32k times in the dataset - so we will still be causing overflows in the site/alias indexes even after changingsitestolong long int. Is there a quick fix for this? Thanks!