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Removed unused dependencies #615

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merged 2 commits into from
Nov 22, 2023
Merged

Removed unused dependencies #615

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cd2cadb
Removed unused dependencies
Zethson Nov 22, 2023
8c8fa09
Tutorials update
Zethson Nov 22, 2023
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2 changes: 1 addition & 1 deletion docs/tutorials/notebooks
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Submodule notebooks updated 7 files
+108 −197 diabetic_retinopathy_fate_mapping.ipynb
+1 −1 ehrapy_introduction.ipynb
+2 −4 mimic_2_causal_inference.ipynb
+4 −4 mimic_2_fate.ipynb
+7 −7 mimic_2_introduction.ipynb
+23 −23 mimic_2_survival_analysis.ipynb
+58 −58 ml_usecases.ipynb
45 changes: 14 additions & 31 deletions ehrapy/core/meta_information.py
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Original file line number Diff line number Diff line change
Expand Up @@ -4,51 +4,34 @@
from contextlib import closing
from datetime import datetime
from io import StringIO
from typing import IO, Optional

import session_info
from IPython.utils.io import Tee
from rich import print

from ehrapy import __version__
from ehrapy.logging import _versions_dependencies


def print_versions(*, output_file=None) -> None: # pragma: no cover
def print_versions(): # pragma: no cover
"""Print print versions of imported packages.

Args:
output_file: Path to output file

Examples:
>>> import ehrapy as ep
>>> ep.print_versions()
"""
stdout = sys.stdout
try:
buf = sys.stdout = StringIO()
session_info.show(
dependencies=True,
excludes=[
"builtins",
"stdlib_list",
"importlib_metadata",
# Special module present if test coverage being calculated
# https://gitlab.com/joelostblom/session_info/-/issues/10
"transformers",
"$coverage",
],
write_req_file=False,
html=False,
)
finally:
sys.stdout = stdout
output = buf.getvalue()

if output_file:
with closing(Tee(output_file, "w", channel="stdout")):
print(output)
else:
print(output)
session_info.show(
dependencies=True,
html=False,
excludes=[
"builtins",
"stdlib_list",
"importlib_metadata",
# Special module present if test coverage being calculated
# https://gitlab.com/joelostblom/session_info/-/issues/10
"$coverage",
],
)


def print_version_and_date(*, file=None): # pragma: no cover
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4 changes: 1 addition & 3 deletions pyproject.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -50,10 +50,9 @@ dependencies = [
"requests",
"scikit-learn",
"category_encoders",
"deepl",
"pynndescent",
"ipython",
"deep-translator",
"deepl",
"scikit-learn-intelex",
"fancyimpute",
"miceforest",
Expand All @@ -62,7 +61,6 @@ dependencies = [
"lifelines",
"missingno",
"thefuzz[speedup]",
"tabulate",
"fhiry",
"dowhy"
]
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