Package qubx_single :: Module idealize
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Module idealize

source code

Provides a visual panel (qubx.faces.Face) to idealize single-molecule data.

Uses math from qubx_single_channel

/* Copyright 2008-2014 Research Foundation State University of New York */

/* This file is part of QUB Express. */

/* QUB Express is free software; you can redistribute it and/or modify */ /* it under the terms of the GNU General Public License as published by */ /* the Free Software Foundation, either version 3 of the License, or */ /* (at your option) any later version. */

/* QUB Express is distributed in the hope that it will be useful, */ /* but WITHOUT ANY WARRANTY; without even the implied warranty of */ /* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the */ /* GNU General Public License for more details. */

/* You should have received a copy of the GNU General Public License, */ /* named LICENSE.txt, in the QUB Express program directory. If not, see */ /* <http://www.gnu.org/licenses/>. */


Version: 1.11.0

Classes [hide private]
  Idealizers
Functions [hide private]
 
get_data(segs, receiver, last_data=None) source code
 
break_segs(segs, maxpoints) source code
 
resample_baseline(baseline, resolution, first) source code
Variables [hide private]
  pybuf = ctypes.pythonapi.PyBuffer_FromReadWriteMemory
  MAXITER = 300
  MAX_POINTS_AT_ONCE = 16777216
  ALLOW_THREADS = 1
  BUFSIZE = 8192
  CLIP = 0
  COPY_ROWS_ALL = 0
  COPY_ROWS_CHECKED = 3
  COPY_ROWS_CRITERIA = 2
  COPY_ROWS_GROUP = 1
  DATASOURCE_FILE = 0
  DATASOURCE_LIST = 2
  DATASOURCE_SCREEN = 1
  ERR_CALL = 3
  ERR_DEFAULT = 521
  ERR_IGNORE = 0
  ERR_LOG = 5
  ERR_PRINT = 4
  ERR_RAISE = 2
  ERR_WARN = 1
  FACE_POP_INSIDE = 0
  FACE_POP_MAXIMIZED = 3
  FACE_POP_MINIMIZED = 2
  FACE_POP_WINDOW = 1
  FLOATING_POINT_SUPPORT = 1
  FPE_DIVIDEBYZERO = 1
  FPE_INVALID = 8
  FPE_OVERFLOW = 2
  FPE_UNDERFLOW = 4
  False_ = False
  Inf = inf
  Infinity = inf
  MAXDIMS = 32
  MAY_SHARE_BOUNDS = 0
  MAY_SHARE_EXACT = -1
  MIN_TOTAL_RATE = 1e-09
  NAN = nan
  NINF = -inf
  NZERO = -0.0
  NaN = nan
  PINF = inf
  PZERO = 0.0
  RAISE = 2
  SHIFT_DIVIDEBYZERO = 0
  SHIFT_INVALID = 9
  SHIFT_OVERFLOW = 3
  SHIFT_UNDERFLOW = 6
  STIM_TYPE_CONST = 0
  STIM_TYPE_EXPR = 2
  STIM_TYPE_SIGNAL = 1
  ScalarType = (<type 'int'>, <type 'float'>, <type 'complex'>, ...
  True_ = True
  UFUNC_BUFSIZE_DEFAULT = 8192
  UFUNC_PYVALS_NAME = 'UFUNC_PYVALS'
  WRAP = 1
  __package__ = 'qubx_single'
  absolute = <ufunc 'absolute'>
  add = <ufunc 'add'>
  arccos = <ufunc 'arccos'>
  arccosh = <ufunc 'arccosh'>
  arcsin = <ufunc 'arcsin'>
  arcsinh = <ufunc 'arcsinh'>
  arctan = <ufunc 'arctan'>
  arctan2 = <ufunc 'arctan2'>
  arctanh = <ufunc 'arctanh'>
  bitwise_and = <ufunc 'bitwise_and'>
  bitwise_not = <ufunc 'invert'>
  bitwise_or = <ufunc 'bitwise_or'>
  bitwise_xor = <ufunc 'bitwise_xor'>
  c_ = <numpy.lib.index_tricks.CClass object>
  cbrt = <ufunc 'cbrt'>
  ceil = <ufunc 'ceil'>
  conj = <ufunc 'conjugate'>
  conjugate = <ufunc 'conjugate'>
  copysign = <ufunc 'copysign'>
  cos = <ufunc 'cos'>
  cosh = <ufunc 'cosh'>
  deg2rad = <ufunc 'deg2rad'>
  degrees = <ufunc 'degrees'>
  divide = <ufunc 'divide'>
  e = 2.71828182846
  equal = <ufunc 'equal'>
  euler_gamma = 0.577215664902
  exp = <ufunc 'exp'>
  exp2 = <ufunc 'exp2'>
  expm1 = <ufunc 'expm1'>
  fabs = <ufunc 'fabs'>
  floor = <ufunc 'floor'>
  floor_divide = <ufunc 'floor_divide'>
  fmax = <ufunc 'fmax'>
  fmin = <ufunc 'fmin'>
  fmod = <ufunc 'fmod'>
  frexp = <ufunc 'frexp'>
  greater = <ufunc 'greater'>
  greater_equal = <ufunc 'greater_equal'>
  hypot = <ufunc 'hypot'>
  index_exp = <numpy.lib.index_tricks.IndexExpression object>
  inf = inf
  infty = inf
  invert = <ufunc 'invert'>
  isfinite = <ufunc 'isfinite'>
  isinf = <ufunc 'isinf'>
  isnan = <ufunc 'isnan'>
  ldexp = <ufunc 'ldexp'>
  left_shift = <ufunc 'left_shift'>
  less = <ufunc 'less'>
  less_equal = <ufunc 'less_equal'>
  little_endian = True
  log = <ufunc 'log'>
  log10 = <ufunc 'log10'>
  log1p = <ufunc 'log1p'>
  log2 = <ufunc 'log2'>
  logaddexp = <ufunc 'logaddexp'>
  logaddexp2 = <ufunc 'logaddexp2'>
  logical_and = <ufunc 'logical_and'>
  logical_not = <ufunc 'logical_not'>
  logical_or = <ufunc 'logical_or'>
  logical_xor = <ufunc 'logical_xor'>
  maximum = <ufunc 'maximum'>
  mgrid = <numpy.lib.index_tricks.nd_grid object>
  minimum = <ufunc 'minimum'>
  mod = <ufunc 'remainder'>
  modf = <ufunc 'modf'>
  multiply = <ufunc 'multiply'>
  nan = nan
  nbytes = {<type 'numpy.bool_'>: 1, <type 'numpy.timedelta64'>:...
  negative = <ufunc 'negative'>
  newaxis = None
hash(x)
  nextafter = <ufunc 'nextafter'>
  not_equal = <ufunc 'not_equal'>
  ogrid = <numpy.lib.index_tricks.nd_grid object>
  pi = 3.14159265359
  power = <ufunc 'power'>
  r_ = <numpy.lib.index_tricks.RClass object>
  rad2deg = <ufunc 'rad2deg'>
  radians = <ufunc 'radians'>
  rdbk = 'Expired.'
  rdbreak = 'supporting'
  rdname = 'qubfast.txt'
  reciprocal = <ufunc 'reciprocal'>
  remainder = <ufunc 'remainder'>
  right_shift = <ufunc 'right_shift'>
  rint = <ufunc 'rint'>
  s_ = <numpy.lib.index_tricks.IndexExpression object>
  sctypeDict = {0: <type 'numpy.bool_'>, 1: <type 'numpy.int8'>,...
  sctypeNA = {'?': 'Bool', 'B': 'UInt8', 'Bool': <type 'numpy.bo...
  sctypes = {'complex': [<type 'numpy.complex64'>, <type 'numpy....
  sign = <ufunc 'sign'>
  signbit = <ufunc 'signbit'>
  sin = <ufunc 'sin'>
  sinh = <ufunc 'sinh'>
  spacing = <ufunc 'spacing'>
  sqrt = <ufunc 'sqrt'>
  square = <ufunc 'square'>
  subtract = <ufunc 'subtract'>
  tan = <ufunc 'tan'>
  tanh = <ufunc 'tanh'>
  true_divide = <ufunc 'true_divide'>
  trunc = <ufunc 'trunc'>
  typeDict = {0: <type 'numpy.bool_'>, 1: <type 'numpy.int8'>, 2...
  typeNA = {'?': 'Bool', 'B': 'UInt8', 'Bool': <type 'numpy.bool...
  typecodes = {'All': '?bhilqpBHILQPefdgFDGSUVOMm', 'AllFloat': ...
Variables Details [hide private]

ScalarType

Value:
(<type 'int'>,
 <type 'float'>,
 <type 'complex'>,
 <type 'long'>,
 <type 'bool'>,
 <type 'str'>,
 <type 'unicode'>,
 <type 'buffer'>,
...

nbytes

Value:
{<type 'numpy.bool_'>: 1, <type 'numpy.timedelta64'>: 8, <type 'numpy.\
float16'>: 2, <type 'numpy.uint8'>: 1, <type 'numpy.int8'>: 1, <type '\
numpy.object_'>: 8, <type 'numpy.datetime64'>: 8, <type 'numpy.uint64'\
>: 8, <type 'numpy.int64'>: 8, <type 'numpy.void'>: 0, <type 'numpy.co\
mplex256'>: 32, <type 'numpy.float128'>: 16, <type 'numpy.uint64'>: 8,\
 <type 'numpy.int64'>: 8, <type 'numpy.unicode_'>: 0, <type 'numpy.com\
plex128'>: 16, <type 'numpy.float64'>: 8, <type 'numpy.uint32'>: 4, <t\
ype 'numpy.int32'>: 4, <type 'numpy.string_'>: 0, <type 'numpy.complex\
...

sctypeDict

Value:
{0: <type 'numpy.bool_'>,
 1: <type 'numpy.int8'>,
 2: <type 'numpy.uint8'>,
 3: <type 'numpy.int16'>,
 4: <type 'numpy.uint16'>,
 5: <type 'numpy.int32'>,
 6: <type 'numpy.uint32'>,
 7: <type 'numpy.int64'>,
...

sctypeNA

Value:
{'?': 'Bool',
 'B': 'UInt8',
 'Bool': <type 'numpy.bool_'>,
 'Complex128': <type 'numpy.complex256'>,
 'Complex32': <type 'numpy.complex64'>,
 'Complex64': <type 'numpy.complex128'>,
 'D': 'Complex64',
 'Datetime64': <type 'numpy.datetime64'>,
...

sctypes

Value:
{'complex': [<type 'numpy.complex64'>,
             <type 'numpy.complex128'>,
             <type 'numpy.complex256'>],
 'float': [<type 'numpy.float16'>,
           <type 'numpy.float32'>,
           <type 'numpy.float64'>,
           <type 'numpy.float128'>],
 'int': [<type 'numpy.int8'>, <type 'numpy.int16'>, <type 'numpy.int32\
...

typeDict

Value:
{0: <type 'numpy.bool_'>,
 1: <type 'numpy.int8'>,
 2: <type 'numpy.uint8'>,
 3: <type 'numpy.int16'>,
 4: <type 'numpy.uint16'>,
 5: <type 'numpy.int32'>,
 6: <type 'numpy.uint32'>,
 7: <type 'numpy.int64'>,
...

typeNA

Value:
{'?': 'Bool',
 'B': 'UInt8',
 'Bool': <type 'numpy.bool_'>,
 'Complex128': <type 'numpy.complex256'>,
 'Complex32': <type 'numpy.complex64'>,
 'Complex64': <type 'numpy.complex128'>,
 'D': 'Complex64',
 'Datetime64': <type 'numpy.datetime64'>,
...

typecodes

Value:
{'All': '?bhilqpBHILQPefdgFDGSUVOMm',
 'AllFloat': 'efdgFDG',
 'AllInteger': 'bBhHiIlLqQpP',
 'Character': 'c',
 'Complex': 'FDG',
 'Datetime': 'Mm',
 'Float': 'efdg',
 'Integer': 'bhilqp',
...