jupyter-analysis-tools 1.3.1__py3-none-any.whl → 1.4.0__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- jupyter_analysis_tools/__init__.py +4 -5
- jupyter_analysis_tools/plotting.py +25 -0
- jupyter_analysis_tools/readdata.py +31 -8
- jupyter_analysis_tools/utils.py +6 -0
- {jupyter_analysis_tools-1.3.1.dist-info → jupyter_analysis_tools-1.4.0.dist-info}/METADATA +155 -142
- jupyter_analysis_tools-1.4.0.dist-info/RECORD +16 -0
- jupyter_analysis_tools-1.3.1.dist-info/RECORD +0 -16
- {jupyter_analysis_tools-1.3.1.dist-info → jupyter_analysis_tools-1.4.0.dist-info}/WHEEL +0 -0
- {jupyter_analysis_tools-1.3.1.dist-info → jupyter_analysis_tools-1.4.0.dist-info}/licenses/AUTHORS.rst +0 -0
- {jupyter_analysis_tools-1.3.1.dist-info → jupyter_analysis_tools-1.4.0.dist-info}/licenses/LICENSE +0 -0
- {jupyter_analysis_tools-1.3.1.dist-info → jupyter_analysis_tools-1.4.0.dist-info}/top_level.txt +0 -0
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# -*- coding: utf-8 -*-
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# __init__.py
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__version__ = "1.
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__version__ = "1.4.0"
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from .binning import reBin
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from .git import checkRepo, isNBstripoutActivated, isNBstripoutInstalled, isRepo
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from .
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from .readdata import readdata
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from .
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from .utils import setLocaleUTF8
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from .plotting import createFigure, plotPDH
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from .readdata import readdata, readPDH, readPDHmeta, readSSF, readSSFZ
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from .utils import naturalKey, setLocaleUTF8
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from .widgets import PathSelector, showBoolStatus
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setLocaleUTF8()
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import matplotlib
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import matplotlib.pyplot as plt
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from .readdata import readPDH
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try:
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# increase the limit for the warning to pop up
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matplotlib.rcParams["figure.max_open_warning"] = 50
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def lineWidth():
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return plt.rcParams["lines.linewidth"]
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def plotPDH(filename, label, **kwargs):
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"""Plot a given .PDH file with the given label (shown in legend) using pandas and readPDH()."""
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q_range = kwargs.pop("q_range", None)
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print_filename = kwargs.pop("print_filename", True) # default value from readdata()
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df, _ = readPDH(filename, q_range=q_range, print_filename=print_filename)
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df["e"] = df["e"].clip(lower=0)
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defaults = dict(
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yerr="e",
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logx=True,
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logy=True,
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label=label,
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grid=True,
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figsize=(10, 5),
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xlabel=r"$q$ (nm$^{{-1}}$)",
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ylabel="Intensity",
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ecolor="lightgray",
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)
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for k, v in defaults.items():
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if k not in kwargs:
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kwargs[k] = v
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df.plot("q", "I", **kwargs)
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# -*- coding: utf-8 -*-
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# readdata.py
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import tempfile
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import warnings
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import xml.etree.ElementTree as et
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import zipfile
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from pathlib import Path
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import pandas as pd
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return df, filename
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readPDH = readdata
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def convertValue(val):
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val = val.strip()
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return result
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def readPDHmeta(
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def readPDHmeta(pathPDH):
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"""Reads the XML metadata at the end of a .PDH file to a Python dict."""
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pathPDH = Path(pathPDH)
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if pathPDH.suffix.lower() != ".pdh":
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warnings.warn("readPDHmeta() supports .pdh files only!")
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return # for PDH files
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lines = ""
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with open(
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with open(pathPDH) as fd:
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lines = fd.readlines()
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nrows = int(lines[2].split()[0])
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xml = "".join(lines[nrows + 5 :])
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return xmlPDHToDict(et.fromstring(xml))
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def readSSF(
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def readSSF(pathSSF):
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"""Reads the SAXSquant session file *pathSSF* (.SSF) to a Python dict."""
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pathSSF = Path(pathSSF)
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if pathSSF.suffix.lower() != ".ssf":
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warnings.warn("readSession() supports .ssf files only!")
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return # for PDH files
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data = ""
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with open(
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with open(pathSSF, encoding="utf-8-sig") as fd:
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data = fd.read()
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return xmlPDHToDict(et.fromstring(data))
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def readSSFZ(pathSSFZ):
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"""Extracts and reads the SAXSquant session file (.SSF) to a Python dict.
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The .SSF is embedded in the .SSFZ provided by *pathSSFZ*."""
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assert pathSSFZ.is_file()
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# unpack the SSFZ to a temporary dir
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data = None
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with tempfile.TemporaryDirectory() as tempdir:
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with zipfile.ZipFile(pathSSFZ, "r") as zipfd:
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zipfd.extractall(tempdir)
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# read the session metadata from the extracted SSF file
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pathSSF = next(Path(tempdir).glob("*.ssf"))
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assert pathSSF.is_file()
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data = readSSF(pathSSF)
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return data
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jupyter_analysis_tools/utils.py
CHANGED
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import locale
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import os
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import platform
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import re
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import subprocess
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import sys
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from pathlib import Path
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return dd
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def naturalKey(name):
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"""Split string into list of strings and integers. Use as *key* function for sorting files."""
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return [int(text) if text.isdigit() else text.lower() for text in re.split(r"(\d+)", name)]
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Metadata-Version: 2.4
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Name: jupyter-analysis-tools
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Version: 1.
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Version: 1.4.0
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Summary: Yet another Python library with helpers and utilities for data analysis and processing.
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Author-email: Ingo Breßler <ingo.bressler@bam.de>, "Brian R. Pauw" <brian.pauw@bam.de>
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License-Expression: MIT
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Classifier: Programming Language :: Python
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Classifier: Programming Language :: Python :: 3
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Classifier: Programming Language :: Python :: 3 :: Only
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Classifier: Programming Language :: Python :: 3.12
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Classifier: Programming Language :: Python :: 3.13
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Classifier: Programming Language :: Python :: Implementation :: CPython
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Classifier: Framework :: Jupyter :: JupyterLab
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Classifier: Topic :: Utilities
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Classifier: Topic :: Scientific/Engineering
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Classifier: Intended Audience :: Developers
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Classifier: Intended Audience :: Science/Research
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# Jupyter Analysis Tools (v1.4.0)
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[](https://pypi.org/project/jupyter-analysis-tools)
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[](https://github.com/BAMresearch/jupyter-analysis-tools/compare/v1.4.0...main)
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[](https://en.wikipedia.org/wiki/MIT_license)
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[](https://pypi.org/project/jupyter-analysis-tools)
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[](https://pypi.org/project/jupyter-analysis-tools#files)
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[](https://pypi.org/project/jupyter-analysis-tools/)
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[](https://github.com/BAMresearch/jupyter-analysis-tools/actions/workflows/ci-cd.yml)
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[](https://BAMresearch.github.io/jupyter-analysis-tools/coverage-report/)
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Yet another Python library with helpers and utilities for data analysis and processing.
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## Installation
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https://BAMresearch.github.io/jupyter-analysis-tools
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### Testing
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===========
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# CHANGELOG
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## v1.4.0 (2025-07-28)
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* **dependencies**: removed unused requirements ([`592bfe1`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/592bfe1e592cf3776dc626d0df453d95e527f8b8))
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* feat: readSSFZ() convenience function ([`c3e882b`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/c3e882bc1d26be578b41c60c1f6b0df94cd83025))
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* **readme**: in markdown format for combining with changelog ([`eb6b904`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/eb6b904136697ddc2427369a605058e464d49351))
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* **coverage**: coverage-report fix ([`1bd26b7`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/1bd26b71abcb090ef32cb2fbdd05b978bce5144c))
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* **GitHub Workflows**: remove templates, rendered by *copier update* ([`8a637a5`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/8a637a5b34df4a3ec6a4e8cae97a9d3e24ad2e5c))
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* **GitHub Workflow**: publish depends on all other job to be successful ([`efc1f22`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/efc1f223aa2da882d43b27406a2f20113c2c8879))
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* **Template**: latest GitHub Workflow templates applied ([`7d87906`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/7d87906c852cb2b57704c45db0b19c7a1ae513a2))
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* **Project**: GitHub Workflow templates fixed ([`b346b28`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/b346b282332f0f7f81b724509a4004e6a69d7791))
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* **utils.extract7z**: informative info message ([`80d2f71`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/80d2f7134992d59f0bfd7f5e7bc27772f77cd452))
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* **coverage**: fix coverage artifact name for multiple matrix.os ([`f471599`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/f471599b8c86e29fd20b78f7cbd9291c3a6dd98a))
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* **testing**: test on Windows as well ([`4a83c39`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/4a83c3924bcb820ef0728af40b86a0f6622dfef2))
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* **utils.makeNetworkdriveAbsolute**: new routines for translating a windows drive letter mount to its network location ([`823a6bf`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/823a6bfe126829381bc14d34578f342f4b9d3e8f))
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* **pyproject**: revert specify readme+changelog document types ([`1baa762`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/1baa762d441fe0a1b7b663b9d0589de857277426))
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* **pyproject**: specify readme+changelog document types to render overview on pypi correctly ([`6e4d1e5`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/6e4d1e56640b604f971ddca8dabd8d1aff5c9bf1))
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* **ghpages**: make sure .nojekyll exists after purging old html docs ([`4847845`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/4847845cc06884b6e589b26897e83411d649ef4d))
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* **readme**: trigger new version after style changes ([`8b2b5e9`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/8b2b5e93c0f24ae59afaa764abdc508e994946b4))
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* **__init__**: imports format ([`6f07790`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/6f07790a04e43736b1c0fbce0eac54d0b661a7cf))
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* **utils**: satisfy flake8 ([`9657474`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/9657474e94a4d9887c4a6b653e0ffa403e666d02))
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* **readdata**: satisfy flake8 ([`36bf6e8`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/36bf6e8be67a2ebd345c5557c2352710bcebed82))
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* **workflow**: publish only if the docs are good ([`a663ed3`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/a663ed3d1fd87079a4fd7cf419132a129280a562))
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* **utils**: fix imports ([`ddd5369`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/ddd5369b8037f583c6900aea25522a56126c9d32))
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* **readdata**: readSSF() renamed from readSession(), tests added with expected JSON output ([`e2197f6`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/e2197f6bcb032c1bc1a9a7435e024dda763228c4))
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* **readPDHmeta**: routine for reading metadata part from .PDH and .SSF files ([`ea6a1d5`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/ea6a1d554f3763fc05022ae8e4e8909f0993cd43))
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* **readdata**: path separator depends on platform ([`1b2866f`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/1b2866f13307c2cf2dedc59f36d7372442ddbfd8))
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* **readdata**: testdata files and testing, using pathlib instead of old os.path ([`aeacfa4`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/aeacfa4a949d7293f2cd3ce5e3004fddf20ecc02))
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* **packaging**: add dependencies for project and testing ([`2729a45`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/2729a45958893c9acd07af9463bbf7d657db626b))
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* **utils**: reformat doc strings ([`1cf9b9b`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/1cf9b9b969e075a75a41e19bfb526378b68a0ed7))
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* **notebook_utils**: remove method for finding notebook file path currentNBpath() ([`13a5a60`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/13a5a60436c7926c478f2ab3f2c309a86b653218))
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* **utils**: appendToPATH() using pathlib, verifed test included ([`35f37fc`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/35f37fc19cdcf4b575dc0525400f3c0212bb0faf))
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* **semver**: allow message tag *enh* for enhancements ([`0810b4f`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/0810b4fd58e1b2383313496b657a800078260c83))
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* **index**: show link to github project on left sidebar ([`3fad5a8`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/3fad5a870801904a636a114d70ff418886c3f2a6))
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* **notebook_utils**: whitespace ([`30feb51`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/30feb51175fa55c694cc88995a94e7ff26303b9b))
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## v0.1.6 (2024-03-25)
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### Bug fixes
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* notebook_utils
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* **notebook_utils**: notebookapp import path changed ([`27266db`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/27266db0c62a1e35be8bfb90194b001f29d4534c))
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## v0.1.6-dev.1 (2023-03-27)
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### Documentation
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* analysis
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* **analysis**: minor fix ([`601a6f7`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/601a6f7dbbf383810add39620748808c51af6fa3))
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## v0.1.5 (2023-03-27)
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### Bug fixes
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-
* reBin
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* **reBin**: module renamed to binning, fixes name clashes with docs gen ([`ec959fb`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/ec959fb9e1b51d69cdceaf7784b27df22aa6f4d4))
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### Code style
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* format
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* **format**: fix whitespace and quotes with black ([`b0b7dba`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/b0b7dbaac59528ead6c663165c8d4dab3aabcdfe))
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* binning
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* **binning**: fix quoting by using black formatter ([`61603f7`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/61603f7de8640437ccd277faefc2d31fa1e1e232))
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### Documentation
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* cleanup
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* **cleanup**: removed obsolete module doc, replaced by autosummary generated files ([`c0d4256`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/c0d4256a5bcbb83a9a9c0ca0dd3001b9d111cb4b))
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* format
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+
* **format**: fix formatting with black ([`5de80d4`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/5de80d4d528bfb2bf106fa38d2cd8f30f6421f19))
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## v0.1.5-dev.1 (2023-03-27)
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### Code style
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* config
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+
* **config**: string normalization, double quotes ([`e8edbc4`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/e8edbc437b3c6876fae1ff72ad24edbcbe82a8f8))
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### Documentation
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* General
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* **General**: config updated by cookiecutter ([`6c9ddfb`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/6c9ddfb9777cb344378f5a0d86e204dc016a2068))
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## v0.1.4 (2023-03-03)
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### Bug fixes
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-
* readme
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+
* **readme**: license link ([`f98f736`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/f98f7362dd0278210894f138dd7646c8bc92cc9f))
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## v0.1.3 (2023-03-03)
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### Bug fixes
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* tox
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+
* **tox**: clean env ([`0135426`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/013542651eb2bd9a7e2d3b2e8ef837c38501b578))
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* Package
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+
* **Package**: cookiecutterrc updated ([`7b29a17`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/7b29a1764f972379086abb51194604423c9714f2))
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-
* tox
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+
* **tox**: cleanup env removed pckg build files ([`ecd8648`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/ecd86485ec0fe67f646d06ca134fe97310f7a3f5))
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* GitHubAction
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+
* **GitHubAction**: migrate to pathlib.Path in template rendering ([`d3ae5db`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/d3ae5db8f657e929f4139bb17bb746f7b03961d3))
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### Code style
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* pyproject.toml
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+
* **pyproject.toml**: use double quotes ([`8f902a2`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/8f902a25b0578babc6e2ad3b72cc7adff94361e2))
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### Documentation
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* readme
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+
* **readme**: adjust version numbers in readme as well ([`5700694`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/57006942e6625faf9f36dca1bac0719706b4d000))
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* readme
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+
* **readme**: using test.pypi.org links ([`240e58c`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/240e58c87ef0cf0dc3d195f237a09c8e8a717e75))
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* Package
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+
* **Package**: update project description ([`704a0b5`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/704a0b50a727ef36f685d27ce068103ffa60ca99))
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-
* comments
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+
* **comments**: add some, remove obsolete ([`efe2689`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/efe2689707f410a18cce331f9cd3732fa2190640))
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### Refactoring
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* docs
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+
* **docs**: config adjusted by cookiecutter ([`84e00f0`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/84e00f061bc5780a0b3457ec95847b266dcfa2cc))
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* metadata
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+
* **metadata**: update project meta data ([`9d6982c`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/9d6982c960fef68b4c155d05162491f2b6e8b4d0))
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### Testing
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* tox
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* **tox**: find sys Python version when generating files if not specified explicitly ([`e690193`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/e690193e2a7f3f34dd8457b459c82ec1b9643e0e))
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## v0.1.2 (2023-02-24)
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### Bug fixes
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-
* Documentation
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+
* **Documentation**: doctest format in *distrib* ([`5942972`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/59429724fd41e62c7717fa185e7f5c5c1e5b50d9))
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### Documentation
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* distrib
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+
* **distrib**: generate entries of submodule *distrib* ([`c8055c6`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/c8055c65ac1d49a757ee30f9cd34fc18e8445944))
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## v0.1.2-dev.1 (2023-02-24)
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### Documentation
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* utils
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+
* **utils**: generate entries of submodule *utils* ([`762a548`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/762a548a967cf54aed7a58f9d84e4cf6e98e25f7))
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### Unknown
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### Unknown Scope
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* v0.1.1 ([`738fdd4`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/738fdd44b27881360f51f540f28cda4aed2e9005))
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@@ -400,29 +413,29 @@ Note, to combine the coverage data from all the tox environments run:
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### Bug fixes
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* docs
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* **docs**: allow markdown format in changelog ([`593356b`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/593356bb0fb6ea7a6c028b99032ed9742708cb6b))
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## v0.1.1-dev.4 (2023-02-23)
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### Documentation
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* readme
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* **readme**: updated links and badges ([`2e0329d`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/2e0329d510bb5c090d093818c0536993c6292a8a))
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## v0.1.1-dev.1 (2023-02-23)
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### Bug fixes
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* **tox**: removed tox-wheel settings ([`cacbfe3`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/cacbfe36af39f613efc4651bed4c8875c80c60c5))
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* **config**: clean up version definition ([`c18c67f`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/c18c67fae8852f2acdd79ffe3bcb89aa5821c797))
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* docs: removed disabled config ([`3059ff9`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/3059ff9fba6a17b845441cd283c0f498c05beab2))
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* docs: disabled incompatible sidebar config with furo theme ([`61959be`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/61959be18f26e304042c21872f50dda23635caae))
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* added tox-wheel to ci required packages ([`7eae72c`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/7eae72c4a2e977c3efc56b5d9c8da76d67d44536))
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* docs: updated urls and gh workflow spec ([`66a0704`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/66a07049567a524a82633547c8006ed1630238c1))
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* tbump config updated ([`e17de91`](https://github.com/BAMresearch/jupyter-analysis-tools/commit/e17de9111659992b9419efc7e07c58172737e285))
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jupyter_analysis_tools/analysis.py,sha256=AiAvUO648f0PYXqLfal1kDH926neasE5c1RYFu9wtYg,1768
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jupyter_analysis_tools/binning.py,sha256=d6eXRC3IOnnJIF25OfEASyWedT71EX2nF7jAgGJ9suQ,14536
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jupyter_analysis_tools/datalocations.py,sha256=BakfiZOMcBwp-_DAn7l57lGWZmZGNnk0j73V75nLBUA,4322
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jupyter_analysis_tools/distrib.py,sha256=uyh2jXDdXR6dfd36CAoE5_psoFF0bfA6l1wletPD7Xo,16515
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jupyter_analysis_tools-1.4.0.dist-info/licenses/AUTHORS.rst,sha256=-twUESsY0XqFQ0MIC0ylKhglNwL8lyHmGXriM3RF-2s,93
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jupyter_analysis_tools-1.4.0.dist-info/METADATA,sha256=6L8JnF7qjkcZXnoQYK5js7yqZwjY3pkR5sil6isACLg,43853
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jupyter_analysis_tools-1.4.0.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
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jupyter_analysis_tools-1.4.0.dist-info/top_level.txt,sha256=ei_0x-BF85FLoJ_h67ySwDFowtqus_gI4_0GR466PEU,23
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jupyter_analysis_tools/binning.py,sha256=d6eXRC3IOnnJIF25OfEASyWedT71EX2nF7jAgGJ9suQ,14536
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jupyter_analysis_tools/datalocations.py,sha256=BakfiZOMcBwp-_DAn7l57lGWZmZGNnk0j73V75nLBUA,4322
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jupyter_analysis_tools-1.3.1.dist-info/licenses/AUTHORS.rst,sha256=-twUESsY0XqFQ0MIC0ylKhglNwL8lyHmGXriM3RF-2s,93
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jupyter_analysis_tools-1.3.1.dist-info/licenses/LICENSE,sha256=jRVl3hmCq0Qv1wifm-EelEKhFWecdoWdhcxSte4a1_c,1125
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jupyter_analysis_tools-1.3.1.dist-info/METADATA,sha256=iEQjE_vlu3WStYGwgA9zRZRATlkowo6VLpS6zVXeTiA,41021
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jupyter_analysis_tools-1.3.1.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
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jupyter_analysis_tools-1.3.1.dist-info/top_level.txt,sha256=ei_0x-BF85FLoJ_h67ySwDFowtqus_gI4_0GR466PEU,23
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