Skip to content

DEP: Fix CI tests #803

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
nkeim merged 3 commits into from
May 18, 2026
Merged

DEP: Fix CI tests #803

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
3 commits
Select commit Hold shift + click to select a range
b2b9ad2
BLD: Update Ubuntu package index before installing libhdf5
nkeim May 8, 2026
3c406e9
DEP: pandas applymap to map
nkeim May 9, 2026
8842bd9
BLD: Bump py3.10 Pandas to 1.14 to work around setuptools breakage
nkeim May 11, 2026
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
6 changes: 3 additions & 3 deletions .github/workflows/test-pip.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -14,8 +14,8 @@ jobs:
display_name: "2020"
deps: "numpy==1.19.* scipy==1.5.* matplotlib==3.3.* pandas==1.1.* tables==3.6.* scikit-learn==0.24.* numba==0.53.* llvmlite==0.36.*"
- python: "3.10"
display_name: "2021"
deps: "numpy==1.22.* scipy==1.7.* matplotlib==3.5.* pandas==1.3.* tables==3.7.* scikit-learn==1.0.* numba==0.55.* llvmlite==0.38.*"
display_name: "2021ish"
deps: "numpy==1.22.* scipy==1.7.* matplotlib==3.5.* pandas==1.4.* tables==3.7.* scikit-learn==1.0.* numba==0.55.* llvmlite==0.38.*"
- python: "3.11"
display_name: "2022"
deps: "numpy==1.24.* scipy==1.9.* matplotlib==3.6.* pandas==2.0.* tables==3.8.* scikit-learn==1.1.* numba==0.57.* llvmlite==0.40.*"
Expand All @@ -39,7 +39,7 @@ jobs:
python-version: ${{ matrix.python }}

- name: Install HDF5 library
run: sudo apt-get install libhdf5-dev
run: sudo apt-get update && sudo apt-get install -y libhdf5-dev

- name: Install python dependencies
shell: bash
Expand Down
3 changes: 2 additions & 1 deletion trackpy/plots.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -6,6 +6,7 @@
import logging

import numpy as np
from .utils import pandas_map

try:
from pims import plot_to_frame, plots_to_frame, normalize
Expand Down Expand Up @@ -640,7 +641,7 @@ def subpx_bias(f, pos_columns=None):
pos_columns = ['x', 'y', 'z']
else:
pos_columns = ['x', 'y']
axlist = f[pos_columns].applymap(lambda x: x % 1).hist()
axlist = pandas_map(f[pos_columns], lambda x: x % 1).hist()
return axlist

@make_axes
Expand Down
14 changes: 14 additions & 0 deletions trackpy/utils.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -24,6 +24,12 @@
is_pandas_since_023 = True


try:
is_pandas_since_210 = (LooseVersion(pd.__version__) >=
LooseVersion('2.1.0'))
except ValueError: # Probably a development version
is_pandas_since_210 = True

try:
is_pandas_since_220 = (LooseVersion(pd.__version__) >=
LooseVersion('2.2.0'))
Expand Down Expand Up @@ -308,6 +314,14 @@ def _pandas_concat_post_023(*args, **kwargs):
pandas_concat = pd.concat


def pandas_map(df, func):
"""Apply func element-wise to a DataFrame (compat for pandas < 2.1)."""
if is_pandas_since_210:
return df.map(func)
else:
return df.applymap(func)


def guess_pos_columns(f):
""" Guess the position columns from a given feature DataFrame """
if 'z' in f:
Expand Down
Loading