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- __builtin__.tuple(__builtin__.object)
-
- DelimitedFile
- ThesaurusBasedMap
- exceptions.Exception(exceptions.BaseException)
-
- DocumentNotFound
- urllib.FancyURLopener(urllib.URLopener)
-
- CMonkeyURLopener
class CMonkeyURLopener(urllib.FancyURLopener) |
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An URL opener that can detect 404 errors
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- Method resolution order:
- CMonkeyURLopener
- urllib.FancyURLopener
- urllib.URLopener
Methods defined here:
- http_error_default(self, url, fp, errcode, errmsg, headers)
- overriding the default error handling method to handle HTTP 404
errors
Methods inherited from urllib.FancyURLopener:
- __init__(self, *args, **kwargs)
- get_user_passwd(self, host, realm, clear_cache=0)
- http_error_301(self, url, fp, errcode, errmsg, headers, data=None)
- Error 301 -- also relocated (permanently).
- http_error_302(self, url, fp, errcode, errmsg, headers, data=None)
- Error 302 -- relocated (temporarily).
- http_error_303(self, url, fp, errcode, errmsg, headers, data=None)
- Error 303 -- also relocated (essentially identical to 302).
- http_error_307(self, url, fp, errcode, errmsg, headers, data=None)
- Error 307 -- relocated, but turn POST into error.
- http_error_401(self, url, fp, errcode, errmsg, headers, data=None)
- Error 401 -- authentication required.
This function supports Basic authentication only.
- http_error_407(self, url, fp, errcode, errmsg, headers, data=None)
- Error 407 -- proxy authentication required.
This function supports Basic authentication only.
- prompt_user_passwd(self, host, realm)
- Override this in a GUI environment!
- redirect_internal(self, url, fp, errcode, errmsg, headers, data)
- retry_http_basic_auth(self, url, realm, data=None)
- retry_https_basic_auth(self, url, realm, data=None)
- retry_proxy_http_basic_auth(self, url, realm, data=None)
- retry_proxy_https_basic_auth(self, url, realm, data=None)
Methods inherited from urllib.URLopener:
- __del__(self)
- addheader(self, *args)
- Add a header to be used by the HTTP interface only
e.g. u.addheader('Accept', 'sound/basic')
- cleanup(self)
- close(self)
- http_error(self, url, fp, errcode, errmsg, headers, data=None)
- Handle http errors.
Derived class can override this, or provide specific handlers
named http_error_DDD where DDD is the 3-digit error code.
- open(self, fullurl, data=None)
- Use URLopener().open(file) instead of open(file, 'r').
- open_data(self, url, data=None)
- Use "data" URL.
- open_file(self, url)
- Use local file or FTP depending on form of URL.
- open_ftp(self, url)
- Use FTP protocol.
- open_http(self, url, data=None)
- Use HTTP protocol.
- open_https(self, url, data=None)
- Use HTTPS protocol.
- open_local_file(self, url)
- Use local file.
- open_unknown(self, fullurl, data=None)
- Overridable interface to open unknown URL type.
- open_unknown_proxy(self, proxy, fullurl, data=None)
- Overridable interface to open unknown URL type.
- retrieve(self, url, filename=None, reporthook=None, data=None)
- retrieve(url) returns (filename, headers) for a local object
or (tempfilename, headers) for a remote object.
Data and other attributes inherited from urllib.URLopener:
- version = 'Python-urllib/1.17'
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class DelimitedFile(__builtin__.tuple) |
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DelimitedFile(lines, header)
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- Method resolution order:
- DelimitedFile
- __builtin__.tuple
- __builtin__.object
Methods defined here:
- __getnewargs__(self)
- Return self as a plain tuple. Used by copy and pickle.
- __getstate__(self)
- Exclude the OrderedDict from pickling
- __repr__(self)
- Return a nicely formatted representation string
- _asdict(self)
- Return a new OrderedDict which maps field names to their values
- _replace(_self, **kwds)
- Return a new DelimitedFile object replacing specified fields with new values
Class methods defined here:
- _make(cls, iterable, new=<built-in method __new__ of type object>, len=<built-in function len>) from __builtin__.type
- Make a new DelimitedFile object from a sequence or iterable
Static methods defined here:
- __new__(_cls, lines, header)
- Create new instance of DelimitedFile(lines, header)
Data descriptors defined here:
- __dict__
- Return a new OrderedDict which maps field names to their values
- header
- Alias for field number 1
- lines
- Alias for field number 0
Data and other attributes defined here:
- _fields = ('lines', 'header')
Methods inherited from __builtin__.tuple:
- __add__(...)
- x.__add__(y) <==> x+y
- __contains__(...)
- x.__contains__(y) <==> y in x
- __eq__(...)
- x.__eq__(y) <==> x==y
- __ge__(...)
- x.__ge__(y) <==> x>=y
- __getattribute__(...)
- x.__getattribute__('name') <==> x.name
- __getitem__(...)
- x.__getitem__(y) <==> x[y]
- __getslice__(...)
- x.__getslice__(i, j) <==> x[i:j]
Use of negative indices is not supported.
- __gt__(...)
- x.__gt__(y) <==> x>y
- __hash__(...)
- x.__hash__() <==> hash(x)
- __iter__(...)
- x.__iter__() <==> iter(x)
- __le__(...)
- x.__le__(y) <==> x<=y
- __len__(...)
- x.__len__() <==> len(x)
- __lt__(...)
- x.__lt__(y) <==> x<y
- __mul__(...)
- x.__mul__(n) <==> x*n
- __ne__(...)
- x.__ne__(y) <==> x!=y
- __rmul__(...)
- x.__rmul__(n) <==> n*x
- __sizeof__(...)
- T.__sizeof__() -- size of T in memory, in bytes
- count(...)
- T.count(value) -> integer -- return number of occurrences of value
- index(...)
- T.index(value, [start, [stop]]) -> integer -- return first index of value.
Raises ValueError if the value is not present.
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class ThesaurusBasedMap |
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wrapping a thesaurus and a feature id based map for a flexible
lookup container that can use any valid gene alias
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Methods defined here:
- __getitem__(self, key)
- override the __getitem__ method for dictionary-like behaviour
- __init__(self, synonyms, wrapped_dict)
- create new instance
- __repr__(self)
- keys(self)
- Returns the keys of the thesaurus
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