Multithread and Resume - Reg.

[bioramg]

Hi, I installed Raxml v8.2.12 through conda. I have two questions.

1. I am constructing phylogenetic tree with whole genomes (~170 kb) with the following command: raxmlHPC -m GTRGAMMA -p 12345 -x 123 -#1000 -f a - plant_genome -n plant_raxml -T 40

But it shows that "-T does not have any effect with the sequential or parallel MPI version. It is used to specify the number of threads for the Pthreads-based parallelization"

It is using only one thread instead of 40 threads. How to modify or change parameters to use all the threads?

2. I stopped this program for a while. How to resume? I couldn't find any resume commands for the same.

I'm looking forward to hearing from you.

Thank you.

[stamatak]

Would you please be so kind to re-post this issue on the RAxML google group, I will answer it there.

Alexis

On 07.07.21 08:04, bioramg wrote:

Hi, I installed Raxml v8.2.12 through conda. I have two questions.

1. I am constructing phylogenetic tree with whole genomes (~170 kb) with the following command: raxmlHPC -m GTRGAMMA -p 12345 -x 123 -#1000 -f a - plant_genome -n plant_raxml -T 40

But it shows that "-T does not have any effect with the sequential or parallel MPI version. It is used to specify the number of threads for the Pthreads-based parallelization"

It is using only one thread instead of 40 threads. How to modify or change parameters to use all the threads?

2. I stopped this program for a while. How to resume? I couldn't find any resume commands for the same.

I'm looking forward to hearing from you.

Thank you.

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-- Alexandros (Alexis) Stamatakis

Research Group Leader, Heidelberg Institute for Theoretical Studies Full Professor, Dept. of Informatics, Karlsruhe Institute of Technology Affiliated Scientist, Evolutionary Genetics and Paleogenomics (EGP) lab, Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology Hellas

www.exelixis-lab.org