St9bad_alloc has occurred in the InteractEngine class functi

mothur bugs
1

Hi

I would like to ask about ERROR!
I tried to run the get.oturep however it does not work completely like below.

mothur > get.oturep(column=R.final.dist, name=R.final.names, fasta=R.final.fasta, list=R.final.fn.list)
********************###########
Reading matrix: |||||||||||||||||||||||||||||||||||||||||||||||||||

[ERROR]: St9bad_alloc has occurred in the InteractEngine class function getInput. Please contact Pat Schloss at mothur.bugs@gmail.com, and be sure to include the mothur.logFile with your inquiry.

this is my logfile and i want to know what’s wrong.
I found "[ERROR]: St9bad_alloc " caused by small memory.
I tried with 8GB RAM but it didn’t work and show same error.

Please answer what’s wrong and how i handle my data.

Thank you very much for your kind help!

2

The error you are getting indicates you are running out of RAM. How big is your distance file? The get.oturep command has a parameter called large. If you set large=t, mothur will assume your distance file is too big to fit in RAM. With large=t, the command will take longer to complete, but may solve your problem.