def _make_investigation_instance(self, filename):
# Parse ISA-Tab investigation file
parser = isatab_meta.InvestigationParser()
isa_dir = os.path.dirname(filename)
fp = utf8_text_file_open(filename)
parser.parse(fp)
for study in parser.isa.studies:
s_parser = isatab_meta.LazyStudySampleTableParser(parser.isa)
s_parser.parse(os.path.join(isa_dir, study.filename))
for assay in study.assays:
a_parser = isatab_meta.LazyAssayTableParser(parser.isa)
a_parser.parse(os.path.join(isa_dir, assay.filename))
isa = parser.isa
return isa
def _make_investigation_instance(self, filename):
# Parse ISA-Tab investigation file
parser = isatab_meta.InvestigationParser()
isa_dir = os.path.dirname(filename)
with open(filename, newline='', encoding='utf8') as fp:
parser.parse(fp)
for study in parser.isa.studies:
s_parser = isatab_meta.LazyStudySampleTableParser(parser.isa)
s_parser.parse(os.path.join(isa_dir, study.filename))
for assay in study.assays:
a_parser = isatab_meta.LazyAssayTableParser(parser.isa)
a_parser.parse(os.path.join(isa_dir, assay.filename))
isa = parser.isa
return isa