pyuvdata 3.2.4__tar.gz → 3.2.6__tar.gz

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/.circleci/config.yml

@@ -25,19 +25,23 @@ jobs:
       - restore_cache:
           key: deps-{{ .Branch }}-{{ checksum "ci/pyuvdata_tests.yml" }}
       - run:
-          name: Install Micromamba
-          command: wget -qO- https://micro.mamba.pm/api/micromamba/linux-64/latest | sudo tar -C / -xvj bin/micromamba
+          name: Install Conda from Miniforge
+          command: |
+            wget -O Miniforge3.sh "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-$(uname)-$(uname -m).sh"
+            bash Miniforge3.sh -b -p "${HOME}/conda"
+            ${HOME}/conda/bin/conda init
       - run:
           name: configure conda environment
           command: |
-            micromamba info
             # need these to add gxx and gcc to build novas and cython
-            micromamba create --name=${ENV_NAME}  python=$PYTHON gxx gcc -f ci/${ENV_NAME}.yml -yq
+            conda create --name=${ENV_NAME} python=$PYTHON gxx gcc -yq
+            conda env update --name=${ENV_NAME} -f ci/${ENV_NAME}.yml
       - run:
-          name: Verify Mamba Config
+          name: Verify Conda Config
           command: |
-            source ./ci/_activate_current_env.sh
-            micromamba list -n ${ENV_NAME}
+            conda activate ${ENV_NAME}
+            conda info
+            conda list
             # check that the python version matches the desired one; exit immediately if not
             PYVER=`python -c "import sys; print('{:d}.{:d}'.format(sys.version_info.major, sys.version_info.minor))"`
             if [[ $PYVER != $PYTHON ]]; then
@@ -46,12 +50,12 @@ jobs:
       - run:
           name: install
           command: |
-            source ./ci/_activate_current_env.sh
+            conda activate ${ENV_NAME}
             CFLAGS="-DCYTHON_TRACE=1 -DCYTHON_TRACE_NOGIL=1" pip install --no-deps .
       - run:
           name: run pyuvdata tests
           command: |
-            source ./ci/_activate_current_env.sh
+            conda activate ${ENV_NAME}
             mkdir test-reports
             python -m pytest -n auto --dist=loadfile --cov=pyuvdata --cov-config=".coveragerc" --cov-report xml:"./coverage.xml" --junitxml="test-reports/xunit.xml"
       - save_cache:
@@ -83,19 +87,23 @@ jobs:
       - restore_cache:
           key: deps-{{ .Branch }}-{{ checksum "ci/pyuvdata_tests.yml" }}
       - run:
-          name: Install Micromamba
-          command: wget -qO- https://micro.mamba.pm/api/micromamba/linux-64/latest | sudo tar -C / -xvj bin/micromamba
+          name: Install Conda from Miniforge
+          command: |
+            wget -O Miniforge3.sh "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-$(uname)-$(uname -m).sh"
+            bash Miniforge3.sh -b -p "${HOME}/conda"
+            ${HOME}/conda/bin/conda init
       - run:
           name: configure conda environment
           command: |
-            micromamba info
             # need these to add gxx and gcc to build novas and cython
-            micromamba create --name=${ENV_NAME}  python=$PYTHON gxx gcc -f ci/${ENV_NAME}.yml -yq
+            conda create --name=${ENV_NAME} python=$PYTHON gxx gcc -yq
+            conda env update --name=${ENV_NAME} -f ci/${ENV_NAME}.yml
       - run:
-          name: Verify Mamba Config
+          name: Verify Conda Config
           command: |
-            source ./ci/_activate_current_env.sh
-            micromamba list -n ${ENV_NAME}
+            conda activate ${ENV_NAME}
+            conda info
+            conda list
             # check that the python version matches the desired one; exit immediately if not
             PYVER=`python -c "import sys; print('{:d}.{:d}'.format(sys.version_info.major, sys.version_info.minor))"`
             if [[ $PYVER != $PYTHON ]]; then
@@ -104,12 +112,12 @@ jobs:
       - run:
           name: install
           command: |
-            source ./ci/_activate_current_env.sh
+            conda activate ${ENV_NAME}
             pip install --no-deps -e .
       - run:
           name: run tutorial tests
           command: |
-            source ./ci/_activate_current_env.sh
+            conda activate ${ENV_NAME}
             cd docs
             python -m pytest -n auto --doctest-glob="*.rst" -W "error::DeprecationWarning"
             cd ..
@@ -134,9 +142,13 @@ workflows:
           name: pyuvdata_3.13
           python_version: "3.13"
           env_name: "pyuvdata_tests"
+      - pyuvdata:
+          name: pyuvdata_3.14
+          python_version: "3.14"
+          env_name: "pyuvdata_tests"
       - pyuvdata:
           name: pyuvdata_min_deps
-          python_version: "3.13"
+          python_version: "3.14"
           env_name: "pyuvdata_min_deps_tests"
       - pyuvdata:
           name: pyuvdata_min_versions

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/.github/workflows/macosx_windows_ci.yaml

@@ -26,7 +26,7 @@ jobs:
       fail-fast: false
       matrix:
         os: [macos-latest, windows-latest]
-        python-version: ["3.11", "3.12", "3.13"]
+        python-version: ["3.11", "3.12", "3.13", "3.14"]
         include:
           - env_name: pyuvdata_tests_windows
             os: windows-latest

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/.github/workflows/numba_test.yaml

@@ -14,8 +14,6 @@ concurrency:
 
 jobs:
   numba_test:
-    env:
-      PYTHON: 3.13
     name: Numba Utils Tests
     runs-on: ubuntu-latest
     steps:
@@ -26,20 +24,16 @@ jobs:
       - name: Setup Python
         uses: actions/setup-python@v5
         with:
-          python-version: ${{ env.PYTHON }}
+          python-version-file: pyproject.toml
 
       - name: Install
         run: |
-          CFLAGS="-DCYTHON_TRACE=1 -DCYTHON_TRACE_NOGIL=1" pip install -e .[dev]
+          CFLAGS="-DCYTHON_TRACE=1 -DCYTHON_TRACE_NOGIL=1" pip install -e .[test]
           pip install pytest-xdist
 
       - name: Environment Info
         run: |
           pip list
-          PYVER=`python -c "import sys; print('{:d}.{:d}'.format(sys.version_info.major, sys.version_info.minor))"`
-          if [[ $PYVER != ${{ env.PYTHON }} ]]; then
-            exit 1;
-          fi
 
       - name: Run Tests
         run: |

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/.github/workflows/publish-to-test-pypi.yaml

@@ -19,17 +19,21 @@ jobs:
       matrix:
         buildplat:
           - [ubuntu-latest, manylinux, x86_64]
-          - [macos-13, macosx, x86_64]
+          - [macos-15-intel, macosx, x86_64]
           - [macos-latest, macosx, arm64]
           - [windows-latest, win, AMD64]
-        python: ["cp311", "cp312", "cp313"]
+        python: ["cp311", "cp312", "cp313", "cp314"]
+        exclude:
+          # exclude intel macs on python 3.14 because there's no compatible numba wheel
+          - buildplat: [macos-15-intel, macosx, x86_64]
+            python: "cp314"
     steps:
       - uses: actions/checkout@main
         with:
           fetch-depth: 0
 
       - name: Build wheels
-        uses: pypa/cibuildwheel@v2.23
+        uses: pypa/cibuildwheel@v3.3
         env:
           CIBW_BUILD: ${{ matrix.python }}-${{ matrix.buildplat[1] }}*
           CIBW_ARCHS: ${{ matrix.buildplat[2] }}

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/.github/workflows/warning_test.yaml

@@ -14,10 +14,22 @@ concurrency:
 
 jobs:
   warning_test:
-    env:
-      PYTHON: 3.12
     name: Warning Test
+    env:
+      PYTEST_OPTIONS: ${{ case(matrix.coverage == true, '--cov=pyuvdata --cov-config=.coveragerc --cov-report xml:coverage.xml', '') }}
     runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - python-version: 3.13
+            pip-options: "dev"
+            coverage: true
+          # currently (April 2026), python-casacore does not build properly from pypi on python 3.14
+          # also, cython's coverage plugin causes errors when building from pypi on python 3.14
+          - python-version: 3.14
+            pip-options: "test"
+            coverage: false
     steps:
       - uses: actions/checkout@main
         with:
@@ -26,24 +38,20 @@ jobs:
       - name: Setup Python
         uses: actions/setup-python@v5
         with:
-          python-version: ${{ env.PYTHON }}
+          python-version: ${{ matrix.python-version }}
 
       - name: Install
         run: |
-          CFLAGS="-DCYTHON_TRACE=1 -DCYTHON_TRACE_NOGIL=1" pip install -e .[dev]
+          CFLAGS="-DCYTHON_TRACE=1 -DCYTHON_TRACE_NOGIL=1" pip install -e .[${{ matrix.pip-options }}]
           pip install pytest-xdist
 
       - name: Environment Info
         run: |
           pip list
-          PYVER=`python -c "import sys; print('{:d}.{:d}'.format(sys.version_info.major, sys.version_info.minor))"`
-          if [[ $PYVER != ${{ env.PYTHON }} ]]; then
-            exit 1;
-          fi
 
       - name: Run Tests
         run: |
-          pytest -W error -n auto --cov=pyuvdata --cov-config=.coveragerc --cov-report xml:coverage.xml
+          pytest -W error -n auto ${{ env.PYTEST_OPTIONS }}
 
       - uses: codecov/codecov-action@v5
         if: success()

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/.pre-commit-config.yaml

@@ -17,13 +17,13 @@ repos:
           args: ['--fix=no']
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.12.12
+    rev: v0.15.9
     hooks:
       - id: ruff
       - id: ruff-format
 
   - repo: https://github.com/PyCQA/bandit
-    rev: 1.8.6
+    rev: 1.9.4
     hooks:
       - id: bandit
         args: ["-c", "pyproject.toml", "--recursive"]

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/CHANGELOG.md

@@ -3,6 +3,41 @@ All notable changes to this project will be documented in this file.
 
 ## [Unreleased]
 
+## [3.2.6] - 2025-03-13
+
+### Added
+- Support for python 3.14.
+
+### Changed
+- Added improved handling of a few warning messages from h5py and numpy.
+
+### Fixed
+- A bug with reading ms caltables with multiple closely-spaced times.
+- Significant reduction in memory when reading UVFITS files, particularly when
+reading the entire file (no selection on read).
+
+## [3.2.5] - 2025-12-11
+
+### Changed
+- Added a `UVData.flip_conjugation` method and more detail to the uvw check warning
+message to inform users when a conjugation flip might be needed.
+- When reading MWAX correlator files , `remove_coarse_band` now defaults to
+`False` if DERIPPLE is on. Otherwise it defaults to `True`.
+- If the user has set `remove_coarse_band=True` when DERIPPLE is on, a warning is
+raised, and no pfb shape is removed.
+
+### Added
+- Support for wide-band `UVCal` gain objects with `uvcalibrate`.
+- A colormap option to the UVBeam and AnalyticBeam `plot` methods, along with
+better default colormaps for phase.
+- A NotImplementedError to `mwa_corr_fits.py` that is thrown when trying to read
+fringe-stopped data.
+
+### Fixed
+- A backwards compatibiilty issue with feed arrays in old beamfits files which
+could specify feeds as "e" or "n".
+- Compatiblity with numpy>=2.3
+
 ## [3.2.4] - 2025-09-15
 
 ### Added

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: pyuvdata
-Version: 3.2.4
+Version: 3.2.6
 Summary: A pythonic interface for radio astronomy interferometry data
 Author-email: Bryna Hazelton <brynah@phys.washington.edu>, Adam Beardsley <adam.beardsley@winona.edu>, Daniel Jacobs <daniel.c.jacobs@gmail.com>, Garrett Keating <garrett.keating@cfa.harvard.edu>, Nicholas Kern <nkern@mit.edu>, Matthew Kolopanis <matthew.kolopanis@gmail.com>, Adam Lanman <alanman@mit.edu>, Paul La Plante <paul.laplante@unlv.edu>, Steven Murray <murray.steveng@gmail.com>, Jonathan Pober <jonathan_pober@brown.edu>, Pyxie Star <pyxiestar@gmail.com>
 Maintainer-email: Bryna Hazelton <brynah@phys.washington.edu>, Matthew Kolopanis <matthew.kolopanis@gmail.com>, Garrett Keating <garrett.keating@cfa.harvard.edu>, Steven Murray <murray.steveng@gmail.com>
@@ -20,7 +20,8 @@ License-File: LICENSE
 Requires-Dist: astropy>=6.0
 Requires-Dist: docstring-parser>=0.15
 Requires-Dist: h5py>=3.7
-Requires-Dist: numba>=0.57.0
+Requires-Dist: numba<0.63,>=0.57.0; python_version < "3.14"
+Requires-Dist: numba>=0.63; python_version >= "3.14"
 Requires-Dist: numpy>=1.23
 Requires-Dist: pyerfa>=2.0.1.1
 Requires-Dist: pyyaml>=5.4.1

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/ci/azure-piplines.yml

@@ -89,41 +89,48 @@ jobs:
       cd s
     displayName: clone $(NAME)
 
-  - bash: wget -qO- https://micro.mamba.pm/api/micromamba/linux-64/latest | sudo tar -C / -xvj bin/micromamba
-    displayName: Install Micromamba
+  - bash: |
+        wget -O Miniforge3.sh "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-$(uname)-$(uname -m).sh"
+        bash Miniforge3.sh -b -p "${HOME}/conda"
+    displayName: Install Conda from Miniforge
 
   - bash: |
-      micromamba info
-      # need to add gxx and gcc to build novas and cython
-      # numba should be removed after next pyuvdata release (>3.2.1)
-      # note different spelling of yaml extension
-      micromamba create --name=${ENV_NAME}  python=$PYTHON gxx gcc numba -f ../$(NAME)/ci/${ENV_NAME}.yaml -yq
+      # point to this conda install, not the default conda on Azure pipelines hosts
+      # need these to add gxx and gcc to build novas and cython
+      source "${HOME}/conda/etc/profile.d/conda.sh"
+      conda create --name=${ENV_NAME} python=$PYTHON gxx gcc -yq
+      conda env update --name=${ENV_NAME} -f ../$(NAME)/ci/${ENV_NAME}.yaml
     displayName: configure conda environment
 
   - bash: |
-      source ./ci/_activate_current_env.sh
-      micromamba list -n ${ENV_NAME}
+      source "${HOME}/conda/etc/profile.d/conda.sh"
+      conda activate ${ENV_NAME}
+      conda info
+      conda list
       # check that the python version matches the desired one; exit immediately if not
       PYVER=`python -c "import sys; print('{:d}.{:d}'.format(sys.version_info.major, sys.version_info.minor))"`
       if [[ $PYVER != $PYTHON ]]; then
         exit 1;
       fi
-    displayName: Verify Mamba Config
+    displayName: Verify Conda Config
 
   # install this version of pyuvdata
   - bash: |
-      source ./ci/_activate_current_env.sh
+      source "${HOME}/conda/etc/profile.d/conda.sh"
+      conda activate ${ENV_NAME}
       pip install --no-deps .
     displayName: install pyuvdata
 
   - bash: |
-      source ./ci/_activate_current_env.sh
+      source "${HOME}/conda/etc/profile.d/conda.sh"
+      conda activate ${ENV_NAME}
       cd ../$(NAME)
       pip install --no-deps .
     displayName: install $(NAME)
 
   - bash: |
-      source ./ci/_activate_current_env.sh
+      source "${HOME}/conda/etc/profile.d/conda.sh"
+      conda activate ${ENV_NAME}
       cd ../$(NAME)
       pytest ${PYTEST_ARGS}
     displayName: run $(NAME) tests

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/pyproject.toml

@@ -34,7 +34,9 @@ dependencies = [
     "astropy>=6.0",
     "docstring-parser>=0.15",
     "h5py>=3.7",
-    "numba>=0.57.0",
+    # numba above 0.63 has no wheels for intel macs but is required for python 3.14
+    "numba>=0.57.0,<0.63; python_version < '3.14'",
+    "numba>=0.63; python_version >= '3.14'",
     "numpy>=1.23",
     "pyerfa>=2.0.1.1",
     "pyyaml>=5.4.1",

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/src/pyuvdata/analytic_beam.py

@@ -646,6 +646,7 @@ class AnalyticBeam:
         beam_type: str,
         freq: float,
         complex_type: str = "real",
+        colormap: str | None = None,
         logcolor: bool | None = None,
         plt_kwargs: dict | None = None,
         norm_kwargs: dict | None = None,
@@ -666,6 +667,11 @@ class AnalyticBeam:
             What to plot for complex beams, options are: [real, imag, abs, phase].
             Defaults to "real" for complex beams. Ignored for real beams
             (i.e. power beams, same feed).
+        colormap : str, optional
+            Matplotlib colormap to use. Defaults to "twlight" if complex_type="phase"
+            and logcolor=False, otherwise it defaults to "viridis" if the data to be
+            plotted is positive definite (e.g. if complex_type="abs") and "PRGn"
+            otherwise.
         logcolor : bool, optional
             Option to use log scaling for the color. Defaults to True for power
             beams and False for E-field beams. Results in using
@@ -690,6 +696,7 @@ class AnalyticBeam:
             beam_type=beam_type,
             freq=freq,
             complex_type=complex_type,
+            colormap=colormap,
             logcolor=logcolor,
             plt_kwargs=plt_kwargs,
             norm_kwargs=norm_kwargs,

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/src/pyuvdata/parameter.py

@@ -1183,7 +1183,7 @@ class LocationParameter(UVParameter):
         """Detect if this location is on the moon."""
         # figure out if this is on the moon. Doing it this way limits
         # attempted imports of lunarsky
-        if isinstance(self.value, EarthLocation):
+        if self.value is None or isinstance(self.value, EarthLocation):
             return False
         else:
             try:

{pyuvdata-3.2.4 → pyuvdata-3.2.6}/src/pyuvdata/utils/array_collapse.py

@@ -14,6 +14,8 @@ def mean_collapse(
     """
     Collapse by averaging data.
 
+    Bools are cast to integers prior to calculations.
+
     This is similar to np.average, except it handles infs (by giving them
     zero weight) and zero weight axes (by forcing result to be inf with zero
     output weight).
@@ -34,6 +36,8 @@ def mean_collapse(
 
     """
     arr = deepcopy(arr)  # avoid changing outside
+    if isinstance(arr.item(0), bool):
+        arr = arr.astype(int)
     if weights is None:
         weights = np.ones_like(arr)
     else:
@@ -46,7 +50,7 @@ def mean_collapse(
         weights_square_out = np.sum(weights_square, axis=axis)
     out = np.sum(weights * arr, axis=axis)
     where = weight_out > 1e-10
-    out = np.true_divide(out, weight_out, where=where)
+    out = np.true_divide(out, weight_out, where=where, out=None)
     out = np.where(where, out, np.inf)
     if return_weights and return_weights_square:
         return out, weight_out, weights_square_out
@@ -64,6 +68,8 @@ def absmean_collapse(
     """
     Collapse by averaging absolute value of data.
 
+    Bools are cast to integers prior to calculations.
+
     Parameters
     ----------
     arr : array
@@ -79,6 +85,9 @@ def absmean_collapse(
         whether to return the sum of the squares of the weights. Default is False.
 
     """
+    arr = deepcopy(arr)  # avoid changing outside
+    if isinstance(arr.item(0), bool):
+        arr = arr.astype(int)
     return mean_collapse(
         np.abs(arr),
         weights=weights,
@@ -94,6 +103,8 @@ def quadmean_collapse(
     """
     Collapse by averaging in quadrature.
 
+    Bools are cast to integers prior to calculations.
+
     Parameters
     ----------
     arr : array
@@ -109,6 +120,9 @@ def quadmean_collapse(
         whether to return the sum of the squares of the weights. Default is False.
 
     """
+    arr = deepcopy(arr)  # avoid changing outside
+    if isinstance(arr.item(0), bool):
+        arr = arr.astype(int)
     out = mean_collapse(
         np.abs(arr) ** 2,
         weights=weights,