re = /process\s+(\w+|\"[^\"]+\"|'[^']+')\s*{((.|\n|\r)*)}/m
str = 'nextflow.enable.dsl=2
// params.module_dir = \'.\'
params.dbs_dir = \'/mnt/OmicNAS/dd/alphafold/dbs\'
params.max_template_date = \'2020-05-14\'
params.db_preset = \'reduced_dbs\'
params.model_preset = \'monomer\'
params.outdir = \'./\'
params.cachedir = \'/mnt/OmicNAS/cache/alphafold\'
process ALPHAFOLD {
conda "${moduleDir}/environment.yml"
echo true
maxForks 1
stageInMode \'copy\'
storeDir "${params.cachedir}"
publishDir "${params.outdir}", mode: \'copy\'
input:
path fasta
output:
path "*", emit: outputs
script:
"""
python3 ${moduleDir}/docker/run_docker.py \\
--fasta_paths=${fasta} \\
--max_template_date=${params.max_template_date} \\
--model_preset=${params.model_preset} \\
--db_preset=${params.db_preset} \\
--data_dir=${params.dbs_dir} \\
--output_dir=\\$PWD
"""
}
'
# Print the match result
str.scan(re) do |match|
puts match.to_s
end
Please keep in mind that these code samples are automatically generated and are not guaranteed to work. If you find any syntax errors, feel free to submit a bug report. For a full regex reference for Ruby, please visit: http://ruby-doc.org/core-2.2.0/Regexp.html