nf-SHIFTS

Nextflow pipeline for the SHIFTS workflow

Usage

Executing using Ubuntu and Singularity (WSL - backend):

cd /home/jmrodriguezc/nf-SHIFTS

nextflow \
    -log "/tmp/nextflow/log/nf-shifts.log" \
    run main.nf   \
        -profile singularity \
        -params-file "/mnt/tierra/U_Proteomica/UNIDAD/DatosCrudos/jmrodriguezc/projects/nf-SHIFTS/tests/test1/inputs/inputs.yml" \
        --params_file "/mnt/tierra/U_Proteomica/UNIDAD/DatosCrudos/jmrodriguezc/projects/nf-SHIFTS/tests/test1/inputs/params.ini" \
        --outdir  "/mnt/tierra/U_Proteomica/UNIDAD/DatosCrudos/jmrodriguezc/projects/nf-SHIFTS/tests/test1" \
        -resume

Debugging using Ubuntu (Docker - backend):

cd /usr/local/nf-SHIFTS

nextflow \
    -log "/opt/nextflow/nextflow/log/nf-shifts.log" \
    run main.nf   \
        -params-file "/mnt/tierra/nf-SHIFTS/tests/test1/inputs/inputs.yml" \
        --outdir  "/mnt/tierra/nf-SHIFTS/tests/test1" \
        --params_file "/mnt/tierra/nf-SHIFTS/tests/test1/inputs/params.ini" \
        -resume

In Production using the Web Server