# ============================================================================
# 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: '.'
input_pattern: '*.fastq.gz'
input_readtag: "_R[12]_"


##############################################################################
# Your section
#
# :Parameters:
#
# - options: string with any valid FastQC options
# - threads: for unpigz/pigz if data is zipped
# - method can be a {tail, tail_pct, head, , head_pct, random, random_pct}
#   if _pcft is appended, the percent field is used, otherwise, the max_entries
#   if max_entries is used, depending on input_format, we select 1, 2, 4 lines.
# - input_format in [fastq, fasta]. If provided, we will check the extension
downsampling:
    threads: 4
    method: random
    percent: 10
    max_entries: 100
    input_format: fastq


##############################################################################
#
#onsuccess:
#    toclean: " slurm*out downsampling.rules config.yaml stats.txt "