dmyersturnbull

# Douglas Myers-Turnbull wrote this for the Kokel Lab, which has released it under the Apache Software License, Version 2.0
# See the license file here: https://gist.github.com/dmyersturnbull/bfa1c3371e7449db553aaa1e7cd3cac1
# The list of copyright owners is unknown

import matplotlib.pyplot as plt
import numpy as np
from typing import Optional, Tuple

def colored_barplot(x: np.ndarray, y: np.ndarray, colors: np.ndarray, y_ticks: Optional[np.ndarray]=None, fig_size: Tuple[float, float]=(10.0, 10.0), label_rotation: float=75):
    index = np.arange(0, len(x))

dmyersturnbull

# Douglas Myers-Turnbull wrote this for the Kokel Lab, which has released it under the Apache Software License, Version 2.0
# See the license file here: https://gist.github.com/dmyersturnbull/bfa1c3371e7449db553aaa1e7cd3cac1
# The list of copyright owners is unknown

import pandas as pd
import seaborn as sns
from scipy.spatial.distance import squareform
from sklearn import manifold
from scipy.spatial.distance import pdist
from sklearn.decomposition import PCA

dmyersturnbull

# Douglas Myers-Turnbull wrote this for the Kokel Lab, which has released it under the Apache Software License, Version 2.0
# See the license file here: https://gist.github.com/dmyersturnbull/bfa1c3371e7449db553aaa1e7cd3cac1
# The list of copyright owners is unknown

import pandas as pd
import itertools
from typing import Iterator

def marker_iterator(df: pd.DataFrame, class_column: str='class') -> Iterator[str]:
    """Returns an iterator of decent marker shapes. The order is such that similar markers aren't used unless they're needed."""

dmyersturnbull

# Douglas Myers-Turnbull wrote this for the Kokel Lab, which has released it under the Apache Software License, Version 2.0
# See the license file here: https://gist.github.com/dmyersturnbull/bfa1c3371e7449db553aaa1e7cd3cac1
# The list of copyright owners is unknown

import numpy as np
from matplotlib import pyplot as plt
import seaborn as sns
import matplotlib
import pandas as pd
from typing import Callable, Tuple, Dict, Optional, Union

dmyersturnbull

# Douglas Myers-Turnbull wrote this for the Kokel Lab, which has released it under the Apache Software License, Version 2.0
# See the license file here: https://gist.github.com/dmyersturnbull/bfa1c3371e7449db553aaa1e7cd3cac1
# The list of copyright owners is unknown

import pymysql
import contextlib
from typing import Tuple, List, Dict, Iterator

@contextlib.contextmanager
def connected(connection: pymysql.connections.Connection):

dmyersturnbull

# Douglas Myers-Turnbull wrote this for the Kokel Lab, which has released it under the Apache Software License, Version 2.0
# See the license file here: https://gist.github.com/dmyersturnbull/bfa1c3371e7449db553aaa1e7cd3cac1
# The list of copyright owners is unknown

import re
import warnings
import time

from chemspipy import ChemSpider

dmyersturnbull

                                 Apache License
                           Version 2.0, January 2004
                        http://www.apache.org/licenses/

   TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION

   1. Definitions.

      "License" shall mean the terms and conditions for use, reproduction,
      and distribution as defined by Sections 1 through 9 of this document.

dmyersturnbull

from typing import Iterator, Tuple, Dict, List

class MissingConfigEntry(Exception): pass

class TomlData:
	"""A better TOML data structure than a plain dict.
	Usage examples:
		data = TomlData({'x': {'y': {'z': 155}}})
		print(data['x.y.z'])   # prints 155

dmyersturnbull

from typing import Union
from pathlib import PurePath
  
def listen(path: Union[str, PurePath, bytes]):
    """
    Returns an audio container that Jupyter notebook will display.
    Must be run from a Jupyter notebook.
    Will raise an ImportError if IPython cannot be imported.
    :param path: The local path to the audio file
    :return: A jupyter notebook ipd.Audio object

dmyersturnbull

from IPython.display import display, Markdown, HTML
display(HTML("<style>.container { width:100% !important; }</style>"))