SingularityCARNIVAL

Repository for CARNIVAL singularity images based on Ubuntu 20.04.

Download

To download an image from sylabs library:

singularity pull library://bartosz_bartmanski/default/carnival:<version>

For example:

singularity pull library://bartosz_bartmanski/default/carnival:2.2.0

Usage

To run the example script that uses lpSolve contained in /example/ directory within the container, execute the following:

./carnival_2.2.0.sif

which will produce example_output.Rds amongst other intermediate files.

To use CPLEX ILP solver

singularity exec -B <cplex_dir>:<cplex_dir>,./:/data/ carnival_2.2.0.sif /example/other_solvers.R cplex <cplex_dir>/cplex /data/cplex_example.Rds

where <cplex_dir> is the cplex installation path e.g. /opt/ibm/ILOG/CPLEX_Studio201/cplex/bin/x86-64_linux/.

To use Gurobi ILP solver:

singularity exec -B <gurobi_dir>:<gurobi_dir>,./:/data/ --env "LD_LIBRARY_PATH=<gurobi_dir>/linux64/lib" carnival_2.2.0.sif /example/other_solvers.R gurobi <gurobi_dir>/linux64/bin/gurobi_cl /data/gurobi_example.Rds

where <gurobi_dir> is the gurobi installation path e.g. /opt/gurobi911/

Build

To create a new image:

sudo singularity build carnival_<version>.sif carnival.def

For example:

sudo singularity build carnival_2.2.0.sif carnival.def