From 1d7853b6b7f0ae18147a4802d95625bc221cd810 Mon Sep 17 00:00:00 2001 From: DaniBodor Date: Fri, 15 Sep 2023 16:58:38 +0000 Subject: [PATCH] =?UTF-8?q?Deploying=20to=20gh-pages=20from=20@=20EIT-ALIV?= =?UTF-8?q?E/eitprocessing@8bc59eb070fe483d4a06303dc8113cc580bd5d86=20?= =?UTF-8?q?=F0=9F=9A=80?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- .../eitprocessing/binreader/sequence.html | 90 ++++++++++++++---- .../eitprocessing/binreader/index.rst.txt | 42 +++++--- .../binreader/sequence/index.rst.txt | 42 +++++--- autoapi/eitprocessing/binreader/index.html | 56 ++++++++--- .../binreader/sequence/index.html | 56 ++++++++--- genindex.html | 27 +++++- objects.inv | Bin 1474 -> 1497 bytes searchindex.js | 2 +- 8 files changed, 244 insertions(+), 71 deletions(-) diff --git a/_modules/eitprocessing/binreader/sequence.html b/_modules/eitprocessing/binreader/sequence.html index 058960f5a..8b9556fdd 100644 --- a/_modules/eitprocessing/binreader/sequence.html +++ b/_modules/eitprocessing/binreader/sequence.html @@ -43,7 +43,7 @@

Source code for eitprocessing.binreader.sequence

This file contains methods related to parts of electrical impedance tomographs as they are read. """ - +from __future__ import annotations import bisect import copy import functools @@ -134,6 +134,10 @@

Source code for eitprocessing.binreader.sequence

[docs] vendor: Vendor = None
+
+[docs] + label: str | None = None
+
[docs] time: NDArray = None
@@ -166,6 +170,9 @@

Source code for eitprocessing.binreader.sequence

[docs] def __post_init__(self): + if self.label is None: + self.label = f'Sequence_{id(self)}' + self._set_vendor_class()
@@ -220,7 +227,7 @@

Source code for eitprocessing.binreader.sequence

@staticmethod
[docs] - def check_equivalence(a: "Sequence", b: "Sequence"): + def check_equivalence(a: Sequence, b: Sequence): """Checks whether content of two Sequence objects is equivalent.""" if (a_ := a.vendor) != (b_ := b.vendor): @@ -236,15 +243,21 @@

Source code for eitprocessing.binreader.sequence

[docs] - def __add__(self, other): + def __add__(self, other: Sequence) -> Sequence: return self.merge(self, other)
@classmethod
[docs] - def merge(cls, a: "Sequence", b: "Sequence") -> "Sequence": - """Merge two Sequence objects together.""" + def merge( + cls, + a: Sequence, + b: Sequence, + label: str = None, + ) -> Sequence: + """Create a merge of two Sequence objects.""" + try: Sequence.check_equivalence(a, b) except Exception as e: @@ -268,9 +281,12 @@

Source code for eitprocessing.binreader.sequence

item.time = time[item.index] return a_items + b_items + label = f'Merge of ({a.label}) and <{b.label}>' if label is None else label + return cls( path=path, vendor=a.vendor, + label=label, time=time, nframes=nframes, framerate=a.framerate, @@ -287,11 +303,12 @@

Source code for eitprocessing.binreader.sequence

def from_path( # pylint: disable=too-many-arguments, unused-argument cls, path: Path | str | List[Path | str], - vendor: Vendor | str, + vendor: Vendor | str = None, + label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None, - ) -> "Sequence": + ) -> Sequence: """Load sequence from path(s) Args: @@ -334,10 +351,11 @@

Source code for eitprocessing.binreader.sequence

cls, path: Path | str, vendor: Vendor | str, + label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None, - ) -> "Sequence": + ) -> Sequence: """Method used by `from_path` that initiates the object and calls child method for loading the data. @@ -360,6 +378,7 @@

Source code for eitprocessing.binreader.sequence

path=Path(path), vendor=vendor, nframes=max_frames, + label=label, ) obj._set_vendor_class() if framerate: @@ -389,9 +408,9 @@

Source code for eitprocessing.binreader.sequence

raise NotImplementedError(f"Data loading for {self.vendor} is not implemented")
-
-[docs] - def __getitem__(self, indices): +
+[docs] + def select_by_index(self, indices: slice, label: str | None = None): if not isinstance(indices, slice): raise NotImplementedError( "Slicing only implemented using a slice object" @@ -405,30 +424,39 @@

Source code for eitprocessing.binreader.sequence

if indices.stop is None: indices = slice(indices.start, self.nframes, indices.step) - obj = self.deepcopy() + obj = self.deepcopy() #TODO: consider to make this more efficient for large data obj.time = self.time[indices] obj.nframes = len(obj.time) - obj.framesets = {k: v[indices] for k, v in self.framesets.items()} + obj.label = f'Slice ({indices.start}-{indices.stop}) of <{self.label}>' if label is None else label - r = range(indices.start, indices.stop) + range_ = range(indices.start, indices.stop) for attr in ["events", "timing_errors", "phases"]: - setattr(obj, attr, [x for x in getattr(obj, attr) if x.index in r]) + setattr(obj, attr, [x for x in getattr(obj, attr) if x.index in range_]) for x in getattr(obj, attr): x.index -= indices.start return obj
+ +
+[docs] + def __getitem__(self, indices: slice): + return self.select_by_index(indices)
+ + +
[docs] - def select_by_time( + def select_by_time( #pylint: disable=too-many-arguments self, start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False, - ) -> "Sequence": + label: str = None, + ) -> Sequence: """Select subset of sequence by the `Sequence.time` information (i.e. based on the time stamp). @@ -474,12 +502,36 @@

Source code for eitprocessing.binreader.sequence

else: end_index = bisect.bisect_left(self.time, end) - 1 - return self[start_index:end_index]
+ return self.select_by_index(slice(start_index,end_index), label = label)
+
[docs] - deepcopy = copy.deepcopy
+ def deepcopy( + self, + label: str = None, + relabel: bool = True, + ) -> Sequence: + """Create a deep copy of `Sequence` object. + + Args: + label (str): Create a new `label` for the copy. + Defaults to None, which will trigger behavior described for relabel (below) + relabel (bool): If `True` (default), the label of self is re-used for the copy, + otherwise the following label is assigned f"Deepcopy of {self.label}". + Note that this setting is ignored if a label is given. + + Returns: + Sequence: a deep copy of self + """ + + obj = copy.deepcopy(self) + if label: + obj.label = label + elif relabel: + obj.label = f'Deepcopy of {self.label}' + return obj
diff --git a/_sources/autoapi/eitprocessing/binreader/index.rst.txt b/_sources/autoapi/eitprocessing/binreader/index.rst.txt index d99a422c4..0a3eae863 100644 --- a/_sources/autoapi/eitprocessing/binreader/index.rst.txt +++ b/_sources/autoapi/eitprocessing/binreader/index.rst.txt @@ -209,6 +209,11 @@ Classes + .. py:attribute:: label + :type: str | None + + + .. py:attribute:: time :type: numpy.typing.NDArray @@ -244,10 +249,6 @@ Classes - .. py:attribute:: deepcopy - - - .. py:method:: __post_init__() @@ -273,16 +274,16 @@ Classes Checks whether content of two Sequence objects is equivalent. - .. py:method:: __add__(other) + .. py:method:: __add__(other: Sequence) -> Sequence - .. py:method:: merge(a: Sequence, b: Sequence) -> Sequence + .. py:method:: merge(a: Sequence, b: Sequence, label: str = None) -> Sequence :classmethod: - Merge two Sequence objects together. + Create a merge of two Sequence objects. - .. py:method:: from_path(path: pathlib.Path | str | List[pathlib.Path | str], vendor: Vendor | str, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) -> Sequence + .. py:method:: from_path(path: pathlib.Path | str | List[pathlib.Path | str], vendor: Vendor | str = None, label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) -> Sequence :classmethod: Load sequence from path(s) @@ -311,7 +312,7 @@ Classes :rtype: Sequence - .. py:method:: _load_file(path: pathlib.Path | str, vendor: Vendor | str, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) -> Sequence + .. py:method:: _load_file(path: pathlib.Path | str, vendor: Vendor | str, label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) -> Sequence :classmethod: Method used by `from_path` that initiates the object and calls @@ -326,10 +327,13 @@ Classes Needs to be implemented in child class. - .. py:method:: __getitem__(indices) + .. py:method:: select_by_index(indices: slice, label: str | None = None) + + .. py:method:: __getitem__(indices: slice) - .. py:method:: select_by_time(start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False) -> Sequence + + .. py:method:: select_by_time(start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False, label: str = None) -> Sequence Select subset of sequence by the `Sequence.time` information (i.e. based on the time stamp). @@ -355,6 +359,22 @@ Classes :rtype: Sequence + .. py:method:: deepcopy(label: str = None, relabel: bool = True) -> Sequence + + Create a deep copy of `Sequence` object. + + :param label: Create a new `label` for the copy. + Defaults to None, which will trigger behavior described for relabel (below) + :type label: str + :param relabel: If `True` (default), the label of self is re-used for the copy, + otherwise the following label is assigned f"Deepcopy of {self.label}". + Note that this setting is ignored if a label is given. + :type relabel: bool + + :returns: a deep copy of self + :rtype: Sequence + + .. py:class:: TimpelSequence diff --git a/_sources/autoapi/eitprocessing/binreader/sequence/index.rst.txt b/_sources/autoapi/eitprocessing/binreader/sequence/index.rst.txt index b2fc37d78..2ce9b4f13 100644 --- a/_sources/autoapi/eitprocessing/binreader/sequence/index.rst.txt +++ b/_sources/autoapi/eitprocessing/binreader/sequence/index.rst.txt @@ -104,6 +104,11 @@ Classes + .. py:attribute:: label + :type: str | None + + + .. py:attribute:: time :type: numpy.typing.NDArray @@ -139,10 +144,6 @@ Classes - .. py:attribute:: deepcopy - - - .. py:method:: __post_init__() @@ -168,16 +169,16 @@ Classes Checks whether content of two Sequence objects is equivalent. - .. py:method:: __add__(other) + .. py:method:: __add__(other: Sequence) -> Sequence - .. py:method:: merge(a: Sequence, b: Sequence) -> Sequence + .. py:method:: merge(a: Sequence, b: Sequence, label: str = None) -> Sequence :classmethod: - Merge two Sequence objects together. + Create a merge of two Sequence objects. - .. py:method:: from_path(path: pathlib.Path | str | List[pathlib.Path | str], vendor: Vendor | str, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) -> Sequence + .. py:method:: from_path(path: pathlib.Path | str | List[pathlib.Path | str], vendor: Vendor | str = None, label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) -> Sequence :classmethod: Load sequence from path(s) @@ -206,7 +207,7 @@ Classes :rtype: Sequence - .. py:method:: _load_file(path: pathlib.Path | str, vendor: Vendor | str, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) -> Sequence + .. py:method:: _load_file(path: pathlib.Path | str, vendor: Vendor | str, label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) -> Sequence :classmethod: Method used by `from_path` that initiates the object and calls @@ -221,10 +222,13 @@ Classes Needs to be implemented in child class. - .. py:method:: __getitem__(indices) + .. py:method:: select_by_index(indices: slice, label: str | None = None) + + .. py:method:: __getitem__(indices: slice) - .. py:method:: select_by_time(start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False) -> Sequence + + .. py:method:: select_by_time(start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False, label: str = None) -> Sequence Select subset of sequence by the `Sequence.time` information (i.e. based on the time stamp). @@ -250,6 +254,22 @@ Classes :rtype: Sequence + .. py:method:: deepcopy(label: str = None, relabel: bool = True) -> Sequence + + Create a deep copy of `Sequence` object. + + :param label: Create a new `label` for the copy. + Defaults to None, which will trigger behavior described for relabel (below) + :type label: str + :param relabel: If `True` (default), the label of self is re-used for the copy, + otherwise the following label is assigned f"Deepcopy of {self.label}". + Note that this setting is ignored if a label is given. + :type relabel: bool + + :returns: a deep copy of self + :rtype: Sequence + + .. py:class:: DraegerSequence diff --git a/autoapi/eitprocessing/binreader/index.html b/autoapi/eitprocessing/binreader/index.html index 4d25dba4f..ae544ed80 100644 --- a/autoapi/eitprocessing/binreader/index.html +++ b/autoapi/eitprocessing/binreader/index.html @@ -278,6 +278,11 @@

Classesvendor: Vendor
+
+
+label: str | None
+
+
time: numpy.typing.NDArray
@@ -313,11 +318,6 @@

Classesphases: List[eitprocessing.binreader.phases.PhaseIndicator]

-
-
-deepcopy
-
-
__post_init__()[source]
@@ -354,18 +354,18 @@

Classes
-__add__(other)[source]
+__add__(other: Sequence) → Sequence[source]
-classmethod merge(a: Sequence, b: Sequence) → Sequence[source]
-

Merge two Sequence objects together.

+classmethod merge(a: Sequence, b: Sequence, label: str = None) → Sequence[source] +

Create a merge of two Sequence objects.

-classmethod from_path(path: pathlib.Path | str | List[pathlib.Path | str], vendor: Vendor | str, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) → Sequence[source]
+classmethod from_path(path: pathlib.Path | str | List[pathlib.Path | str], vendor: Vendor | str = None, label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) → Sequence[source]

Load sequence from path(s)

Parameters:
@@ -400,7 +400,7 @@

Classes
-classmethod _load_file(path: pathlib.Path | str, vendor: Vendor | str, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) → Sequence[source]
+classmethod _load_file(path: pathlib.Path | str, vendor: Vendor | str, label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) → Sequence[source]

Method used by from_path that initiates the object and calls child method for loading the data.

See from_path method for arguments.

@@ -412,14 +412,19 @@

Classes

Needs to be implemented in child class.

+
+
+select_by_index(indices: slice, label: str | None = None)[source]
+
+
-__getitem__(indices)[source]
+__getitem__(indices: slice)[source]
-select_by_time(start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False) → Sequence[source]
+select_by_time(start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False, label: str = None) → Sequence[source]

Select subset of sequence by the Sequence.time information (i.e. based on the time stamp).

@@ -449,6 +454,29 @@

Classes

+
+
+deepcopy(label: str = None, relabel: bool = True) → Sequence[source]
+

Create a deep copy of Sequence object.

+
+
Parameters:
+
    +

  • label (str) – Create a new label for the copy. +Defaults to None, which will trigger behavior described for relabel (below)

    • +

  • relabel (bool) – If True (default), the label of self is re-used for the copy, +otherwise the following label is assigned f”Deepcopy of {self.label}”. +Note that this setting is ignored if a label is given.

    • +
+
+
Returns:
+

a deep copy of self

+
+
Return type:
+

Sequence

+
+
+
+

@@ -554,6 +582,7 @@

Table of Contents

  • Sequence
  • TimpelSequence
      diff --git a/autoapi/eitprocessing/binreader/sequence/index.html b/autoapi/eitprocessing/binreader/sequence/index.html index f5a7131d9..a61663db2 100644 --- a/autoapi/eitprocessing/binreader/sequence/index.html +++ b/autoapi/eitprocessing/binreader/sequence/index.html @@ -146,6 +146,11 @@

      Classesvendor: Vendor[source]

    • +
    +
    +label: str | None[source]
    +
    +
    time: numpy.typing.NDArray[source]
    @@ -181,11 +186,6 @@

    Classesphases: List[eitprocessing.binreader.phases.PhaseIndicator][source]

    -
    -
    -deepcopy[source]
    -
    -
    __post_init__()[source]
    @@ -222,18 +222,18 @@

    Classes
    -__add__(other)[source]
    +__add__(other: Sequence) → Sequence[source]
    -classmethod merge(a: Sequence, b: Sequence) → Sequence[source]
    -

    Merge two Sequence objects together.

    +classmethod merge(a: Sequence, b: Sequence, label: str = None) → Sequence[source] +

    Create a merge of two Sequence objects.

    -classmethod from_path(path: pathlib.Path | str | List[pathlib.Path | str], vendor: Vendor | str, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) → Sequence[source]
    +classmethod from_path(path: pathlib.Path | str | List[pathlib.Path | str], vendor: Vendor | str = None, label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) → Sequence[source]

    Load sequence from path(s)

    Parameters:
    @@ -268,7 +268,7 @@

    Classes
    -classmethod _load_file(path: pathlib.Path | str, vendor: Vendor | str, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) → Sequence[source]
    +classmethod _load_file(path: pathlib.Path | str, vendor: Vendor | str, label: str = None, framerate: int = None, first_frame: int = 0, max_frames: int | None = None) → Sequence[source]

    Method used by from_path that initiates the object and calls child method for loading the data.

    See from_path method for arguments.

    @@ -280,14 +280,19 @@

    Classes

    Needs to be implemented in child class.

    +
    +
    +select_by_index(indices: slice, label: str | None = None)[source]
    +
    +
    -__getitem__(indices)[source]
    +__getitem__(indices: slice)[source]
    -select_by_time(start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False) → Sequence[source]
    +select_by_time(start: float | int | None = None, end: float | int | None = None, start_inclusive: bool = True, end_inclusive: bool = False, label: str = None) → Sequence[source]

    Select subset of sequence by the Sequence.time information (i.e. based on the time stamp).

    @@ -317,6 +322,29 @@

    Classes

    +
    +
    +deepcopy(label: str = None, relabel: bool = True) → Sequence[source]
    +

    Create a deep copy of Sequence object.

    +
    +
    Parameters:
    +
      +

    • label (str) – Create a new label for the copy. +Defaults to None, which will trigger behavior described for relabel (below)

      • +

    • relabel (bool) – If True (default), the label of self is re-used for the copy, +otherwise the following label is assigned f”Deepcopy of {self.label}”. +Note that this setting is ignored if a label is given.

      • +
    +
    +
    Returns:
    +

    a deep copy of self

    +
    +
    Return type:
    +

    Sequence

    +
    +
    +
    +

    @@ -395,6 +423,7 @@

    Table of Contents

  • Sequence
  • DraegerSequence +

    L

    + + +
    +

    M

      @@ -536,6 +551,12 @@

      R

      S

        +
      • select_by_index() (eitprocessing.binreader.Sequence method) + +
      • select_by_indices() (eitprocessing.binreader.Frameset method)
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