def get_length_of_indexes(runfolder):
"""
Will parse runfolder meta data to find the length of the index reads.
:param runfolder: to get the length of the index reads from.
:return: a dict with the read number as key and the length of each index as value e.g.:
{2: 7, 3: 8}
"""
meta_data = InteropMetadata(runfolder)
index_read_info = filter(lambda x: x["is_index"],
meta_data.read_config)
indexes_and_lengths = map(lambda x: (x["read_num"], x["cycles"]),
index_read_info)
return dict(indexes_and_lengths)
def get_bcl2fastq_version_from_run_parameters(runfolder, config):
"""
Guess which bcl2fastq version to use based on the machine type
specified in the runfolder meta data, and the corresponding
mappings in the config file.
:param runfolder: to get bcl2fastq version to use for
:param config: to use matching machine type to bcl2fastq versions
:return the version of bcl2fastq to use.
"""
meta_data = InteropMetadata(runfolder)
model = meta_data.model
current_config = config
version = current_config["machine_type"][model]["bcl2fastq_version"]
return version
def is_single_read(runfolder):
meta_data = InteropMetadata(runfolder)
number_of_reads = filter(lambda x: not x["is_index"],
meta_data.read_config)
return len(number_of_reads) < 2