Question: Mafft 7.0 "Allocation error"
0
gravatar for luca
4.0 years ago by
luca0
Bermuda Institute of Ocean Sciences
luca0 wrote:

Hi everyone! I was trying to align 12S sequences into Mafft and I got this error message, while the program was calculating the distance matrix:

Making a distance matrix...

Allocation error( 541556284 int vec )

I found where, inside the program (this is the link: http://bugs.arb-home.de/browser/trunk/GDE/MAFFT/mafft-7.053-without-extensions/core/mtxutl.c?rev=10348), the error is generated (line 239 in the link), but I do not understand the programming language, so I was hoping if someone could tell me what is happening and why I get this error...

All the help is more than welcome!

Thanks

Luca

alignment gene software error • 1.6k views
ADD COMMENTlink modified 4.0 years ago • written 4.0 years ago by luca0

First Link is not working, and the error is from line 245 to 250 reason is

tri = (float **)calloc( (unsigned int)ll1+1, sizeof( float * ) );

as the error declared there is no enough memory to allocate this variable for your run can you write info about the machine, OS tht you run the program on; I think it is memory issue

ADD REPLYlink modified 4.0 years ago • written 4.0 years ago by Medhat8.8k

Sorry, I realised I made several mistakes in my post... This is the correct link: http://bugs.arb-home.de/browser/trunk/GDE/MAFFT/mafft-7.053-without-extensions/core/mtxutl.c?rev=10348

The error should be in line 229 and not 239... The machine is a server with CentOS 7 and 1TB RAM.

ADD REPLYlink written 4.0 years ago by luca0
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