def __iter__(self):
'''Iterate over all the OTUs from all the tables. This can only be done once
since the data is streamed in.
'''
for io in self._archive_table_io_objects:
for otu in ArchiveOtuTable.read(io):
yield otu
for io in self._otu_table_io_objects:
for otu in OtuTable.read(io):
yield otu
for file_path in self._archive_table_file_paths:
for otu in ArchiveOtuTable.read(open(file_path)):
yield otu
for file_path in self._otu_table_file_paths:
for otu in OtuTable.read(open(file_path)):
yield otu
def add_otu_table(self, input_otu_table_io):
'''Add a regular style OTU table to the collection.
Parameters
----------
input_otu_table_ios: list of IO
entries are open streams of OTU table data
Returns
-------
None
'''
self.otu_table_objects.append(OtuTable.read(input_otu_table_io))
def add_otu_table(self, input_otu_table_io):
'''Add a regular style OTU table to the collection.
Parameters
----------
input_otu_table_ios: list of IO
entries are open streams of OTU table data
Returns
-------
None
'''
self.otu_table_objects.append(OtuTable.read(input_otu_table_io))