Switch to micromamba to fix CircleCI timeout

.circleci/config.yml

@@ -12,31 +12,31 @@ jobs:
       - checkout
 
       - run:
-          name: Install MiniForge
+          name: Install micromamba
           shell: /bin/bash -xl
           command: |
             apt update --yes && apt upgrade --yes
             apt install --yes --no-install-recommends wget ca-certificates git
 
-            cd ${HOME}
-            wget -O Miniforge3.sh \
-              "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-$(uname)-$(uname -m).sh"
-            bash Miniforge3.sh -b -p "${HOME}/conda"
-
-            # Put mamba's shell init into a profile.d file, in order to activate
-            # it even in non-interactive terminals
-            "${HOME}/conda/bin/mamba" shell hook --shell bash --root-prefix "${HOME}/conda" \
-              > /etc/profile.d/mamba-raider-circleci.sh
-            echo "mamba activate RAiDER" >> /etc/profile.d/mamba-raider-circleci.sh
+            # Put micromamba's shell init script into a profile.d file instead
+            # of .bashrc, in order to activate it even in CircleCI's
+            # non-interactive terminals.
+            mv ${HOME}/.bashrc ${HOME}/.bashrc.tmp &> /dev/null
+            # From https://mamba.readthedocs.io/en/latest/installation/micromamba-installation.html#automatic-install
+            curl -L micro.mamba.pm/install.sh | "${SHELL}"
+            mv ${HOME}/.bashrc /etc/profile.d/mamba-raider-circleci.sh
+            mv ${HOME}/.bashrc.tmp ${HOME}/.bashrc &> /dev/null
 
       - run:
           name: Create RAiDER environment
           no_output_timeout: 60m
           shell: /bin/bash -xl
           command: |
             PYTHON_VERSION="<< parameters.python-version >>"
-            sed -i "/python>=/c\ - python=${PYTHON_VERSION}" environment.yml
-            mamba env create -f environment.yml
+            # Create RAiDER enivronment
+            micromamba env create --yes -f environment.yml python=${PYTHON_VERSION}
+            # Activate the RAiDER env for the rest of the script's shells
+            echo "micromamba activate RAiDER" >> /etc/profile.d/mamba-raider-circleci.sh
 
       - run:
           name: Install RAiDER and check environment
@@ -69,6 +69,7 @@ jobs:
           name: Report coverage
           shell: /bin/bash -xl
           command: |
+            # Only run the coverage test on the latest supported version (3.12)
             PYTHON_VERSION="<< parameters.python-version >>"
             if [ "${PYTHON_VERSION}" == "3.12" ]; then
               python -m pip install coveralls

CHANGELOG.md

@@ -11,7 +11,8 @@ and uses [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 * [743](https://github.com/dbekaert/RAiDER/pull/743) - Switched from HTTPS to DAP4 for retrieving MERRA2 data, and suppressed a warning for using DAP4 for GMAO data where doing so is not possible.
 
 ### Fixed
-* [759](https://github.com/dbekaert/RAiDER/pull/759) - Added a `browse` S3 tag for `.png` files when uploaded to AWS.
+* [759](https://github.com/dbekaert/RAiDER/pull/759) - Added a `browse_images` S3 tag for `.png` files when uploaded to AWS. 
+* [757](https://github.com/dbekaert/RAiDER/pull/757) - Switched to micromamba in CircleCI tests to fix configuration issue experienced with MiniForge.
 * [741](https://github.com/dbekaert/RAiDER/pull/741) - Updated mamba setup commands in CircleCI for mamba 2.0.0.
 * [738](https://github.com/dbekaert/RAiDER/pull/738) - Resolved an InsecureRequestWarning when fetching data through CDS, such as for ERA5.
 * [734](https://github.com/dbekaert/RAiDER/pull/734) - Resolved a deprecation warning from Rasterio about the use of `statistics()`.

environment.yml

@@ -9,62 +9,62 @@ channels:
  - nodefaults
 dependencies:
  - python>=3.8
- - pip
+ - pip>=25
  # For running
- - asf_search
- - boto3
+ - asf_search>=9
+ - boto3>=1
  - cartopy
  - cdsapi
  - cfgrib
  - dask
  - dem_stitcher>=2.5.8
- - ecmwf-api-client
- - h5netcdf
- - h5py
+ - ecmwf-api-client>=1
+ - h5netcdf>=1
+ - h5py>=2
  - herbie-data<2025.2.1
  - isce3>=0.15.0
- - jsonschema==3.2.0  # this is for ASF DAAC ingest schema validation
- - lxml
- - matplotlib
- - netcdf4
- - numpy
- - pandas
- - progressbar
- - pydap>3.2.2
+ - jsonschema>=3.2.0  # this is for ASF DAAC ingest schema validation
+ - lxml>=6
+ - matplotlib>=3
+ - netcdf4>=1
+ - numpy>=1
+ - pandas>=2
+ - progressbar>=2
+ - pydap>=3.2.3
  - pyproj>=2.2.0
- - pyyaml
+ - pyyaml>=6
  - rasterio>=1.3.0
- - requests
+ - requests>=2
  - rioxarray
  - s3fs
- - scipy>1.10.0
+ - scipy>=1.10.1
  - s1_orbits
- - shapely
- - tqdm
+ - shapely>=2
+ - tqdm>=4
  - xarray
  # For packaging and testing
- - autopep8
- - cmake
- - cxx-compiler
- - cython
- - pybind11
- - pytest
- - pytest-console-scripts
- - pytest-cov
- - pytest-mock
- - pytest-timeout
+ - autopep8>=2
+ - cmake>=4
+ - cxx-compiler>=1
+ - cython>=3
+ - pybind11>=2
+ - pytest>=8
+ - pytest-console-scripts>=1
+ - pytest-cov>=6
+ - pytest-mock>=3
+ - pytest-timeout>=2
  - setuptools_scm>=6.2
- - sysroot_linux-64
+ - sysroot_linux-64>=2
  # For docs website
- - mkdocs
- - mkdocs-macros-plugin
- - mkdocs-material
- - mkdocs-material-extensions
+ - mkdocs>=1
+ - mkdocs-macros-plugin>=1
+ - mkdocs-material>=9
+ - mkdocs-material-extensions>=1
  - mkdocstrings
- - mkdocstrings-python
+ - mkdocstrings-python>=1
  # For RAiDER-docs
  - jupyter_contrib_nbextensions
- - jupyterlab
+ - jupyterlab>=3
  - wand
  # For development
- - boto3-stubs
+ - boto3-stubs>=1