def __init__(self, filename, comments=False, fields=_DEFAULT_FIELDS):
SearchIndexer.__init__(self, filename, comments=comments, fields=fields)
# if the file doesn't have comments,
# get index of column used as the key (qseqid / qacc / qaccver)
if not self._kwargs['comments']:
if 'qseqid' in fields:
self._key_idx = fields.index('qseqid')
elif 'qacc' in fields:
self._key_idx = fields.index('qacc')
elif 'qaccver' in fields:
self._key_idx = fields.index('qaccver')
else:
raise ValueError("Custom fields is missing an ID column. "
"One of these must be present: 'qseqid', 'qacc', or 'qaccver'.")
def __init__(self, filename, comments=False, fields=_DEFAULT_FIELDS):
SearchIndexer.__init__(self, filename, comments=comments, fields=fields)
# if the file doesn't have comments,
# get index of column used as the key (qseqid / qacc / qaccver)
if not self._kwargs['comments']:
if 'qseqid' in fields:
self._key_idx = fields.index('qseqid')
elif 'qacc' in fields:
self._key_idx = fields.index('qacc')
elif 'qaccver' in fields:
self._key_idx = fields.index('qaccver')
else:
raise ValueError("Custom fields is missing an ID column. "
"One of these must be present: 'qseqid', 'qacc', or 'qaccver'.")
def __init__(self, filename, comments=False, fields=_DEFAULT_FIELDS):
"""Initialize the class."""
SearchIndexer.__init__(self, filename, comments=comments, fields=fields)
# if the file doesn't have comments,
# get index of column used as the key (qseqid / qacc / qaccver)
if not self._kwargs["comments"]:
if "qseqid" in fields:
self._key_idx = fields.index("qseqid")
elif "qacc" in fields:
self._key_idx = fields.index("qacc")
elif "qaccver" in fields:
self._key_idx = fields.index("qaccver")
else:
raise ValueError(
"Custom fields is missing an ID column. One of these must be "
"present: 'qseqid', 'qacc', or 'qaccver'."
)
def __init__(self, filename):
"""Initialize the class."""
SearchIndexer.__init__(self, filename)
self._handle = UndoHandle(self._handle)
def __init__(self, filename, **kwargs):
"""Initialize the class."""
SearchIndexer.__init__(self, filename)
# TODO: better way to do this?
iter_obj = self._parser(self._handle, **kwargs)
self._meta, self._fallback = iter_obj._meta, iter_obj._fallback
def __init__(self, filename):
SearchIndexer.__init__(self, filename)
# TODO: better way to do this?
iter_obj = self._parser(self._handle)
self._meta, self._fallback = iter_obj._meta, iter_obj._fallback
def __init__(self, filename):
SearchIndexer.__init__(self, filename)
self._handle = UndoHandle(self._handle)
def __init__(self, filename, pslx=False):
SearchIndexer.__init__(self, filename, pslx=pslx)
def __init__(self, filename):
SearchIndexer.__init__(self, filename)
self._handle = UndoHandle(self._handle)
def __init__(self, filename, **kwargs):
"""Initialize the class."""
SearchIndexer.__init__(self, filename)
# TODO: better way to do this?
iter_obj = self._parser(self._handle, **kwargs)
self._meta, self._fallback = iter_obj._meta, iter_obj._fallback
def __init__(self, filename, pslx=False):
"""Initialize the class."""
SearchIndexer.__init__(self, filename, pslx=pslx)
def __init__(self, filename, pslx=False):
"""Initialize the class."""
SearchIndexer.__init__(self, filename, pslx=pslx)
def __init__(self, filename):
SearchIndexer.__init__(self, filename)
# TODO: better way to do this?
iter_obj = self._parser(self._handle)
self._meta, self._fallback = iter_obj._meta, iter_obj._fallback
def __init__(self, filename, pslx=False):
SearchIndexer.__init__(self, filename, pslx=pslx)
def __init__(self, filename):
"""Initialize the class."""
SearchIndexer.__init__(self, filename)
self._handle = UndoHandle(self._handle)
def __init__(self, filename):
"""Initialize the class."""
SearchIndexer.__init__(self, filename)
