Run on the SGE cluster without Docker support

[YingYa]

Hi Sigve,

How could I run cacao on the SGE cluster without Docker support?

Regards,
Ya

[sigven]

Hi Ya,

Thanks for reaching out. Whad does "the SGE cluster" refer to? Would running with Singularity be a better option for you? If so, I will try to make this as an alternative way to run the workflow.

regards,
Sigve

[vladsavelyev]

Hi @YingYa, one option would be to install through conda:

conda install -c pcgr cacao

If you don't yet have conda installed:

wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh
chmod +x miniconda.sh
./miniconda.sh -b -p $PWD/miniconda
export PATH=$PWD/miniconda/bin:$PATH
conda create -n cacao -c pcgr cacao
export PATH=$PWD/miniconda/envs/cacao/bin:$PATH

[sigven]

Was not thinking along those lines, thanks for the input, Vlad!