gemseo / algos

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progress_bar module

Progress bar.

class gemseo.algos.progress_bar.ProgressBar(*_, **__)

Bases: tqdm

Extend tqdm progress bar with better time units.

Use hour, day or week for slower processes.

clear(nolock=False)

Clear current bar display.

close()

Cleanup and (if leave=False) close the progressbar.

display(msg=None, pos=None)

Use self.sp to display msg in the specified pos.

Consider overloading this function when inheriting to use e.g.: self.some_frontend(**self.format_dict) instead of self.sp.

Parameters:

• msg (str, optional. What to display (default: repr(self)).) –

• pos (int, optional. Position to moveto) – (default: abs(self.pos)).

classmethod external_write_mode(file=None, nolock=False)

Disable tqdm within context and refresh tqdm when exits. Useful when writing to standard output stream

static format_interval(t)

Formats a number of seconds as a clock time, [H:]MM:SS

Parameters:

t (int) – Number of seconds.

Returns:

out – [H:]MM:SS

Return type:

str

classmethod format_meter(n, total, elapsed, **kwargs)

Return a string-based progress bar given some parameters

Parameters:

• n (int or float) – Number of finished iterations.

• total (int or float) – The expected total number of iterations. If meaningless (None), only basic progress statistics are displayed (no ETA).

• elapsed (float) – Number of seconds passed since start.

• ncols (int, optional) – The width of the entire output message. If specified, dynamically resizes {bar} to stay within this bound [default: None]. If 0, will not print any bar (only stats). The fallback is {bar:10}.

• prefix (str, optional) – Prefix message (included in total width) [default: ‘’]. Use as {desc} in bar_format string.

• ascii (bool, optional or str, optional) – If not set, use unicode (smooth blocks) to fill the meter [default: False]. The fallback is to use ASCII characters “ 123456789#”.

• unit (str, optional) – The iteration unit [default: ‘it’].

• unit_scale (bool or int or float, optional) – If 1 or True, the number of iterations will be printed with an appropriate SI metric prefix (k = 10^3, M = 10^6, etc.) [default: False]. If any other non-zero number, will scale total and n.

• rate (float, optional) – Manual override for iteration rate. If [default: None], uses n/elapsed.

• bar_format (str, optional) –

  Specify a custom bar string formatting. May impact performance. [default: ‘{l_bar}{bar}{r_bar}’], where l_bar=’{desc}: {percentage:3.0f}%|’ and r_bar=’| {n_fmt}/{total_fmt} [{elapsed}<{remaining}, ‘

  ’{rate_fmt}{postfix}]’

  Possible vars: l_bar, bar, r_bar, n, n_fmt, total, total_fmt,

  percentage, elapsed, elapsed_s, ncols, nrows, desc, unit, rate, rate_fmt, rate_noinv, rate_noinv_fmt, rate_inv, rate_inv_fmt, postfix, unit_divisor, remaining, remaining_s, eta.

  Note that a trailing “: “ is automatically removed after {desc} if the latter is empty.

• postfix (*, optional) – Similar to prefix, but placed at the end (e.g. for additional stats). Note: postfix is usually a string (not a dict) for this method, and will if possible be set to postfix = ‘, ‘ + postfix. However other types are supported (#382).

• unit_divisor (float, optional) – [default: 1000], ignored unless unit_scale is True.

• initial (int or float, optional) – The initial counter value [default: 0].

• colour (str, optional) – Bar colour (e.g. ‘green’, ‘#00ff00’).

• kwargs (Any) –

Returns:

out

Return type:

Formatted meter and stats, ready to display.

static format_num(n)

Intelligent scientific notation (.3g).

Parameters:

n (int or float or Numeric) – A Number.

Returns:

out – Formatted number.

Return type:

str

static format_sizeof(num, suffix='', divisor=1000)

Formats a number (greater than unity) with SI Order of Magnitude prefixes.

Parameters:

• num (float) – Number ( >= 1) to format.

• suffix (str, optional) –

  Post-postfix [default: ‘’].

  By default it is set to “”.

• divisor (float, optional) –

  Divisor between prefixes [default: 1000].

  By default it is set to 1000.

Returns:

out – Number with Order of Magnitude SI unit postfix.

Return type:

str

classmethod get_lock()

Get the global lock. Construct it if it does not exist.

moveto(n)

classmethod pandas(**tqdm_kwargs)

Registers the current tqdm class with

pandas.core. ( frame.DataFrame | series.Series | groupby.(generic.)DataFrameGroupBy | groupby.(generic.)SeriesGroupBy ).progress_apply

A new instance will be created every time progress_apply is called, and each instance will automatically close() upon completion.

Parameters:

tqdm_kwargs (arguments for the tqdm instance) –

Examples

>>> import pandas as pd
>>> import numpy as np
>>> from tqdm import tqdm
>>> from tqdm.gui import tqdm as tqdm_gui
>>>
>>> df = pd.DataFrame(np.random.randint(0, 100, (100000, 6)))
>>> tqdm.pandas(ncols=50)  # can use tqdm_gui, optional kwargs, etc
>>> # Now you can use `progress_apply` instead of `apply`
>>> df.groupby(0).progress_apply(lambda x: x**2)

References

<https://stackoverflow.com/questions/18603270/ progress-indicator-during-pandas-operations-python>

refresh(nolock=False, lock_args=None)

Force refresh the display of this bar.

Parameters:

• nolock (bool, optional) –

  If True, does not lock. If [default: False]: calls acquire() on internal lock.

  By default it is set to False.

• lock_args (tuple, optional) – Passed to internal lock’s acquire(). If specified, will only display() if acquire() returns True.

reset(total=None)

Resets to 0 iterations for repeated use.

Consider combining with leave=True.

Parameters:

total (int or float, optional. Total to use for the new bar.) –

set_description(desc=None, refresh=True)

Set/modify description of the progress bar.

Parameters:

• desc (str, optional) –

• refresh (bool, optional) –

  Forces refresh [default: True].

  By default it is set to True.

set_description_str(desc=None, refresh=True)

Set/modify description without ‘: ‘ appended.

classmethod set_lock(lock)

Set the global lock.

set_postfix(ordered_dict=None, refresh=True, **kwargs)

Set/modify postfix (additional stats) with automatic formatting based on datatype.

Parameters:

• ordered_dict (dict or OrderedDict, optional) –

• refresh (bool, optional) –

  Forces refresh [default: True].

  By default it is set to True.

• kwargs (dict, optional) –

set_postfix_str(s='', refresh=True)

Postfix without dictionary expansion, similar to prefix handling.

status_printer(file)

Overload the status_printer method to avoid the use of closures.

Parameters:

file (io.TextIOWrapper | io.StringIO) – Specifies where to output the progress messages.

Returns:

The function to print the status in the progress bar.

Return type:

Callable[[str], None]

unpause()

Restart tqdm timer from last print time.

update(n=1)

Manually update the progress bar, useful for streams such as reading files. E.g.: >>> t = tqdm(total=filesize) # Initialise >>> for current_buffer in stream: … … … t.update(len(current_buffer)) >>> t.close() The last line is highly recommended, but possibly not necessary if t.update() will be called in such a way that filesize will be exactly reached and printed.

Parameters:

n (int or float, optional) –

Increment to add to the internal counter of iterations [default: 1]. If using float, consider specifying {n:.3f} or similar in bar_format, or specifying unit_scale.

By default it is set to 1.

Returns:

out – True if a display() was triggered.

Return type:

bool or None

classmethod wrapattr(stream, method, total=None, bytes=True, **tqdm_kwargs)

stream : file-like object. method : str, “read” or “write”. The result of read() and

the first argument of write() should have a len().

>>> with tqdm.wrapattr(file_obj, "read", total=file_obj.size) as fobj:
...     while True:
...         chunk = fobj.read(chunk_size)
...         if not chunk:
...             break

classmethod write(s, file=None, end='\n', nolock=False)

Print a message via tqdm (without overlap with bars).

property format_dict

Public API for read-only member access.

monitor = <TMonitor(Thread-2, started daemon 139640549455616)>

monitor_interval = 10

class gemseo.algos.progress_bar.TqdmToLogger(initial_value='', newline='\n')

Bases: StringIO

Redirect tqdm output to the gemseo logger.

close()

Close the IO object.

Attempting any further operation after the object is closed will raise a ValueError.

This method has no effect if the file is already closed.

detach()

Separate the underlying buffer from the TextIOBase and return it.

After the underlying buffer has been detached, the TextIO is in an unusable state.

fileno()

Returns underlying file descriptor if one exists.

OSError is raised if the IO object does not use a file descriptor.

flush()

Flush write buffers, if applicable.

This is not implemented for read-only and non-blocking streams.

getvalue()

Retrieve the entire contents of the object.

isatty()

Return whether this is an ‘interactive’ stream.

Return False if it can’t be determined.

read(size=-1, /)

Read at most size characters, returned as a string.

If the argument is negative or omitted, read until EOF is reached. Return an empty string at EOF.

readable()

Returns True if the IO object can be read.

readline(size=-1, /)

Read until newline or EOF.

Returns an empty string if EOF is hit immediately.

readlines(hint=-1, /)

Return a list of lines from the stream.

hint can be specified to control the number of lines read: no more lines will be read if the total size (in bytes/characters) of all lines so far exceeds hint.

seek(pos, whence=0, /)

Change stream position.

Seek to character offset pos relative to position indicated by whence:

0 Start of stream (the default). pos should be >= 0; 1 Current position - pos must be 0; 2 End of stream - pos must be 0.

Returns the new absolute position.

seekable()

Returns True if the IO object can be seeked.

tell()

Tell the current file position.

truncate(pos=None, /)

Truncate size to pos.

The pos argument defaults to the current file position, as returned by tell(). The current file position is unchanged. Returns the new absolute position.

writable()

Returns True if the IO object can be written.

write(buf)

Write buffer.

Parameters:

buf (str) –

Return type:

None

writelines(lines, /)

Write a list of lines to stream.

Line separators are not added, so it is usual for each of the lines provided to have a line separator at the end.

closed

encoding

Encoding of the text stream.

Subclasses should override.

errors

The error setting of the decoder or encoder.

Subclasses should override.

line_buffering

newlines