Add h5netcdf, update example to Miniforge 24.11.3-0

CHANGELOG.md

@@ -12,15 +12,25 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - Fix for new odd `micromamba` behaviors
   - Set `MAMBA_ROOT_PREFIX`
   - Set `use_lockfiles: False` in `.mambarc`
+- Fix some issues using `mamba list` to list packages
 
 ### Changed
 
-- Update example Miniforge version to 24.9.2-0
+- Update example Miniforge version to 24.11.2-1
 - Pin `hvplot` version to ">=0.11.0" (see [movingpandas#326](https://github.com/movingpandas/movingpandas/issues/326#issuecomment-2457862112))
 
-
 ### Added
 
+- Added new `--basemap` option to install the basemap package
+  - NOTE: Doing this will downgrade numpy to v1. Thus, you cannot install packages that depend on numpy v2 (e.g., skimpy).
+    For now we do *NOT* default to having basemap installed. Hopefully this is temporary until such support is added
+    (see https://github.com/matplotlib/basemap/pull/611)
+- Explicit Mamba Packages
+  - h5netcdf
+  - skimpy (only if not installing basemap)
+- Explicit Pip Packages
+  - goes2go
+
 ### Removed
 
 ### Deprecated

install_miniforge.bash

@@ -73,11 +73,12 @@ fi
 # -----
 
 EXAMPLE_PY_VERSION="3.12"
-EXAMPLE_MINI_VERSION="24.9.2-0"
+EXAMPLE_MINI_VERSION="24.11.2-1"
 EXAMPLE_INSTALLDIR="/opt/GEOSpyD"
 EXAMPLE_DATE=$(date +%F)
 usage() {
-   echo "Usage: $0 --python_version <python version> --miniforge_version <miniforge> --prefix <prefix> [--micromamba | --mamba] [--blas <blas>] [--ffnet-hack]"
+   echo "Usage: $0 --python_version <python version> --miniforge_version <miniforge> --prefix <prefix>"
+   echo "                   [--micromamba | --mamba] [--blas <blas>] [--ffnet-hack] [--basemap]"
    echo ""
    echo "   Required arguments:"
    echo "      --python_version <python version> (e.g., ${EXAMPLE_PY_VERSION})"
@@ -89,6 +90,7 @@ usage() {
    echo "      --micromamba: Use micromamba installer (default)"
    echo "      --mamba: Use mamba installer"
    echo "      --ffnet-hack: Install ffnet from fork (used on Bucy due to odd issue not finding gfortran)"
+   echo "      --basemap: Install basemap (which downgrades numpy to v1 which prevents some packages from installing)"
    echo "      --help: Print this message"
    echo ""
    echo "   By default we use the micromamba installer on both Linux and macOS"
@@ -158,6 +160,7 @@ fi
 USE_MAMBA=FALSE
 USE_MICROMAMBA=TRUE
 FFNET_HACK=FALSE
+INSTALL_BASEMAP=FALSE
 
 while [[ $# -gt 0 ]]
 do
@@ -181,6 +184,9 @@ do
       --ffnet-hack)
          FFNET_HACK=TRUE
          ;;
+      --basemap)
+         INSTALL_BASEMAP=TRUE
+         ;;
       --prefix)
          MINIFORGE_DIR=$2
          shift
@@ -369,7 +375,8 @@ fi
 
 DATE=$(date +%F)
 MINIFORGE_INSTALLDIR=$MINIFORGE_DIR/${MINIFORGE_VER}/$DATE
-MINIFORGE_ENVDIR=$MINIFORGE_INSTALLDIR/envs/py${PYTHON_VER}
+MINIFORGE_ENVNAME=py${PYTHON_VER}
+MINIFORGE_ENVDIR=$MINIFORGE_INSTALLDIR/envs/${MINIFORGE_ENVNAME}
 
 CANONICAL_INSTALLER=${MINIFORGE_DISTVER}-${MINIFORGE_VER}-${MINIFORGE_ARCH}-${MACH}.sh
 if [[ "$MINIFORGE_VER" == "latest" ]]
@@ -540,14 +547,23 @@ $PACKAGE_INSTALL xesmf
 $PACKAGE_INSTALL pytest
 $PACKAGE_INSTALL xgcm
 $PACKAGE_INSTALL s3fs boto3
+$PACKAGE_INSTALL pip pipenv
 
-$PACKAGE_INSTALL numpy scipy numba
-$PACKAGE_INSTALL netcdf4 cartopy proj matplotlib
-$PACKAGE_INSTALL virtualenv pipenv configargparse
+$PACKAGE_INSTALL numpy scipy
+$PACKAGE_INSTALL numba
+$PACKAGE_INSTALL netcdf4 cartopy proj matplotlib h5netcdf
+$PACKAGE_INSTALL virtualenv configargparse
 $PACKAGE_INSTALL psycopg2 gdal xarray geotiff plotly
-$PACKAGE_INSTALL iris pyhdf pip biggus hpccm cdsapi
+$PACKAGE_INSTALL iris pyhdf biggus hpccm cdsapi
 $PACKAGE_INSTALL babel beautifulsoup4 colorama gmp jupyter jupyterlab
 $PACKAGE_INSTALL movingpandas geoviews hvplot">=0.11.0" geopandas bokeh
+# We only install skimpy if the user does not ask for basemap, as it downgrades numpy
+# to v1. So if asked we install it, if not, we can install other
+# packages that need numpy v2 (e.g., skimpy)
+if [[ $INSTALL_BASEMAP == FALSE ]]
+then
+   $PACKAGE_INSTALL skimpy
+fi
 $PACKAGE_INSTALL intake intake-parquet intake-xarray
 
 # Looks like mo_pack, libmo_pack, pyspharm, windspharm are not available on arm64
@@ -650,9 +666,16 @@ $PIP_INSTALL lxml
 $PIP_INSTALL juliandate
 $PIP_INSTALL pybufrkit
 $PIP_INSTALL pyephem
-$PIP_INSTALL basemap
+# We only install Basemap if the user asks as it downgrades numpy
+# to v1. So if asked we install it, if not, we can install other
+# packages that need numpy v2 (e.g., skimpy)
+if [[ $INSTALL_BASEMAP == TRUE ]]
+then
+   $PIP_INSTALL basemap
+fi
 $PIP_INSTALL redis
 $PIP_INSTALL Flask
+$PIP_INSTALL goes2go
 
 # some packages require a Fortran compiler. This sometimes isn't available
 # on macs (though usually is)
@@ -732,8 +755,8 @@ $PIP_INSTALL prompt_toolkit
 # Use mamba to output list of packages installed
 # ----------------------------------------------
 cd $MINIFORGE_ENVDIR
-./bin/mamba list --show-channel-urls --explicit > distribution_spec_file.txt
-./bin/mamba list --show-channel-urls > mamba_list_packages.txt
+$MINIFORGE_BINDIR/mamba list -n $MINIFORGE_ENVNAME --show-channel-urls --explicit > distribution_spec_file.txt
+$MINIFORGE_BINDIR/mamba list -n $MINIFORGE_ENVNAME --show-channel-urls > mamba_list_packages.txt
 ./bin/pip freeze > pip_freeze_packages.txt
 
 # Restore User's .mambarc and .condarc using cleanup function