Package qubx :: Module data_pulse

Module data_pulse

Reads Pulse and Patchmaster files.

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/>.

Classes

[hide private]

BundleHeader

BundleItem

GroupRecord
A GroupRecord describes a group of series, such as patch and whole cell currents obtained simultanuously, or groups of series obtained in sequence under different sets of conditions

Header

LevelFooter

QubData_PUL
One open Patchmaster file.

QubData_PUL_Analog

QubData_PUL_Signal

RootRecord

SeriesRecord

StimChannelRecord

StimRootRecord

StimSegmentRecord

StimulationRecord

SweepRecord

TraceRecord

TreeLevel

UserParamDescrType

Functions

[hide private]

ActualHeaderSize(levels)

source code

LoadOneLevel(pulmap, header, LevelRecords, LevelFooter, offset, level)

source code

LoadPUL(path)

source code

LoadStim(path)

source code

LoadTree(path, GetLevels=<__builtin__.function object>)

source code

QubData_PUL_Open(path, progressf)

source code

ReadStruct(rectype, pulmap, offset)

source code

adjust_units(units, scale)

source code

print_levels(root, indent='') source code

Variables

[hide private]

AdcOff = 0

AdcVirtual = 4

Analog = 1

AnyAmplMode = 0

AutoRangingMean = 2

AutoRangingOff = 0

AutoRangingPeak = 1

AutoRangingRelSeg = 3

BothEndian = [{'LevelFooter': <class 'qubx.data_pulse.LevelFoo...

CCAmplMode = 2

CClamp = 4

COLOR = defaultdict(<function <lambda> at 0x7fd137b1e1b8>, {0:...

COPY_ROWS_ALL = 0

COPY_ROWS_CHECKED = 3

COPY_ROWS_CRITERIA = 2

COPY_ROWS_GROUP = 1

Clip = 5

DAT2_MAGIC = 1145132082

DATASOURCE_FILE = 0

DATASOURCE_LIST = 2

DATASOURCE_SCREEN = 1

DEFAULT_MODE = 0

DOWNSAMPLE_ALL_LOGCOUNT = 2.0

DOWNSAMPLE_LOGSLOPE = 3.0

Digital = 3

Digitals = 2

GrStimParams = 10

GroupLevel = 1

IDensityMode = 3

InOut = 0

IsImon = 3

IsLeak = 1

IsVirtual = 2

IsVmon = 4

LNoStore = 3

LNone = 0

LStoreAvg = 1

LStoreEach = 2

Labs = 0

LabsLH = 2

LittleEndianBit = 0

Lrel = 1

LrelLH = 3

MAX_BOOLS = 16

MAX_FIELDS = 256

MAX_SAFENAME_LEN = 32

ModeAlternate = 4

ModeDec = 1

ModeDecInterleaved = 3

ModeInc = 0

ModeIncInterleaved = 2

ModeLogAlternate = 9

ModeLogDec = 6

ModeLogDecInterleaved = 8

ModeLogInc = 5

ModeLogIncInterleaved = 7

NoMode = 6

OnCell = 1

OutOut = 2

ParamDescrSize = 24

RTLD_GLOBAL = 256

RTLD_LOCAL = 0

Readers = {'.acquire': {'pattern': '*.acquire', 'create': <cla...

RootLevel = 0

SAVEBUFLEN = 262144

STIM_LABELS = ('Constant', 'Signal', 'Expression')

STIM_TYPES = (0, 1, 2)

STIM_TYPE_CONST = 0

STIM_TYPE_EXPR = 2

STIM_TYPE_SIGNAL = 1

SeUserParamNo = 4

SegmentChirpwave = 5

SegmentConstSine = 3

SegmentConstant = 0

SegmentContinuous = 2

SegmentRamp = 1

SegmentSquarewave = 4

SeriesLevel = 2

ShowDropped = False

SizeBoolean = 1

SizeByte = 1

SizeCalibDate = 16

SizeCard16 = 2

SizeCard32 = 4

SizeChar = 1

SizeEnum = 1

SizeInt16 = 2

SizeInt32 = 4

SizeLongReal = 8

SizeReal = 4

SizeSerialNumber = 8

SizeSet16 = 2

SizeStateVersion = 8

String32Size = 32

String400Size = 400

String80Size = 80

String8Size = 8

SwUserParamNo = 4

SweepLevel = 3

TREE_MAGIC = 1416783205

TraceLevel = 4

TrigNone = 0

TrigSeries = 1

TrigSweep = 2

TrigSweepNoLeak = 3

UNSET_VALUE = 86738.82583

VCAmplMode = 1

VClamp = 5

WholeCell = 3

Writers = {'.csv': {'pattern': '*.csv', 'ext': '.csv', 'save':...

__package__ = 'qubx'

cdll = <ctypes.LibraryLoader object>

e = 2.71828182846

fallback_reader = None
hash(x)

false = False

iAdapt = 0

iLAmplitude = 1

iLCycle = 0

iLSkip = 0

iLVReversal = 2

iMaxCycles = 1

iS = 1

iSegmentNo = 2

int16 = 0

int32 = 1

memmove = <CFunctionType object at 0x7fd13875ea10>

memset = <CFunctionType object at 0x7fd13875eae0>

name_float = 'a number'

name_int = 'an integer'

pi = 3.14159265359

pybuf = ctypes.pythonapi.PyBuffer_FromReadWriteMemory

pydll = <ctypes.LibraryLoader object>

pyobj_asreadbuf = ctypes.pythonapi.PyObject_AsReadBuffer

pythonapi = <PyDLL 'None', handle 7fd13abe6168 at 7fd137f8a210>

qubfast = <CDLL 'libqubfast.so', handle 2c23810 at 7fd12ac5d110>

rdbk = 'Expired.'

rdbreak = 'supporting'

rdname = 'qubfast.txt'

real32 = 2

real64 = 3

true = True

valid_identifier = re.compile(r'^[A-Za-z_][A-Za-z_0-9]*$')

Variables Details

[hide private]

BothEndian

Value:

[{'LevelFooter': <class 'qubx.data_pulse.LevelFooter'>, 'BundleHeader'
: <class 'qubx.data_pulse.BundleHeader'>, 'LevelRecords9': [<class 'qu
bx.data_pulse.RootRecord'>, <class 'qubx.data_pulse.GroupRecord'>, <cl
ass 'qubx.data_pulse.SeriesRecord'>, <class 'qubx.data_pulse.SweepReco
rd'>, <class 'qubx.data_pulse.TraceRecord'>], 'LevelRecords7': [<class
 'qubx.data_pulse.RootRecord'>, <class 'qubx.data_pulse.GroupRecord'>,
 <class 'qubx.data_pulse.SeriesRecord'>, <class 'qubx.data_pulse.Sweep
Record'>, <class 'qubx.data_pulse.TraceRecord'>], 'Header': <class 'qu
...

COLOR

Value:

defaultdict(<function <lambda> at 0x7fd137b1e1b8>, {0: (0, 0, 0), 1: (
1, 0, 0), 2: (0, 0, 1), 3: (0, 1, 0), 4: (0, 1, 1), 5: (1, 1, 0), 6: (
1, 0, 1), 7: (0.5, 0.0, 0.0), 8: (0.525, 0.32025, 0.013125000000000012
), 9: (0.44550000000000006, 0.55, 0.027500000000000028), 10: (0.149499
99999999994, 0.575, 0.04312499999999997), 11: (0.059999999999999984, 0
.6, 0.2759999999999999), 12: (0.078125, 0.625, 0.625), 13: (0.09750000
000000002, 0.3185, 0.65), 14: (0.22949999999999962, 0.1181250000000000
4, 0.675), 15: (0.5879999999999999, 0.13999999999999996, 0.7), 16: (0.
...

Readers

Value:

{'.acquire': {'pattern': '*.acquire', 'create': <class 'qubx.data_acqu
ire.QubData_ACQ'>, 'ext': '.acquire', 'description': 'Acquire files'},
 '.csv': {'pattern': '*.csv', 'create': <function OpenTXT at 0x7fd1298
320c8>, 'ext': '.csv', 'description': 'Comma-separated files'},
 '.dat': {'pattern': '*.dat', 'create': <function QubData_PUL_Open at 
0x7fd121749b18>, 'ext': '.dat', 'description': 'DAT files'},
 '.dwt': {'pattern': '*.dwt', 'create': <function OpenDWT at 0x7fd1298
32140>, 'ext': '.dwt', 'description': 'QuB idealized data'},
...

Writers

Value:

{'.csv': {'pattern': '*.csv', 'ext': '.csv', 'save': <function Save at
 0x7fd12982e8c0>, 'description': 'Comma-separated ext files'},
 '.float32': {'pattern': '*.float32', 'ext': '.float32', 'save': <func
tion Save_Float32 at 0x7fd12982e6e0>, 'description': 'Raw binary (floa
t32)'},
 '.int16': {'pattern': '*.int16', 'ext': '.int16', 'save': <function S
ave_Int16 at 0x7fd12982e758>, 'description': 'Raw binary (int16)'},
 '.qdf': {'pattern': '*.qdf', 'ext': '.qdf', 'save': <function Save_QD
...