# ============================================================================
# Config file for Quality Control
# ==========================================[ Sections for the users ]========
#
# One of input_directory, input_pattern and input_samples must be provided
# If input_directory provided, use it otherwise if input_pattern provided,
# use it, otherwise use input_samples.
# ============================================================================


input_directory: /pasteur/projets/specific/Biomics/Data/current/NextSeq/200804_NB501291_0260_AHTT55BGXF/fastq/B4122
input_readtag: _R[12]_
input_pattern: '*fastq.gz'


##############################################################################
# FastQC section
#
# :Parameters:
#
# - options: string with any valid FastQC options
fastqc:
    do_group: true
    options: ''
    threads: 4


##############################################################################
#
#
# - options: any multiqc options accepted. Note that if you use --comments, 
#   it will be appended to the existing --comments added inside sequana. 
#   By default, -p (create pictures) and -f (for overwritting) are used. 
# - indir: The input multiqc (default is local).
multiqc:
    options: -p -f
    indir: .