def __init__(self, base_dir):
self._dir = base_dir
self._configuration = IlluminaConfiguration(base_dir)
self._metrics_path = os.path.join(base_dir, "Data", "reports",
"Summary")
assert os.path.exists(
self._metrics_path
), "The RTA QC metrics folder %s does not exist" % self._metrics_path
# Assert that the readN.xml qc metrics files exist
self._metric_files = []
for read in self._configuration.reads().keys():
qc_file = os.path.join(self._metrics_path, "read%s.xml" % read)
assert os.path.exists(
qc_file), "The RTA QC metrics file %s does not exist" % qc_file
self._metric_files.append(qc_file)
# Parse the XML files
self.readSummaries()
