ich-env yml

build.sh

@@ -5,15 +5,27 @@ set -xeuo pipefail
 # Get the base directory of the script
 basedir=$(dirname "$(readlink -f "$0")")
 
+
 # Ensure conda is updated to a version that supports the --no-capture-output option
 # conda install -y -n base -c conda-forge "conda>=4.13.0"
 
+echo installing ich environment...
+conda env create --name ich-env -f ${basedir}/environments/ich-env.yml
+
+# Install the maap.py environment
+echo installing maap-py...
+source activate osgeo-env
+git clone --single-branch --branch v4.1.0 https://github.com/MAAP-Project/maap-py.git
+cd maap-py
+pip install -e .
+echo installed maap-py package!
+
 # Install essential packages in the base environment
 # conda install -y -n base -c conda-forge gdal
-conda install -y gdal libgdal
+# conda install -y gdal libgdal
 
 # Install Python packages using pip
-pip install pandas scikit-image empatches scikit-learn scipy numpy matplotlib tqdm futures
+# pip install pandas scikit-image empatches scikit-learn scipy numpy matplotlib tqdm futures
 
 # Create a new conda environment for your project (uncomment if needed)
 # conda create -y -n ich gdal matplotlib scipy scikit-image tqdm pandas
@@ -28,7 +40,7 @@ pip install pandas scikit-image empatches scikit-learn scipy numpy matplotlib tq
 # conda run --no-capture-output -n ich PIP_REQUIRE_VENV=0 python -m pip install -e "${basedir}"
 
 # Verify the GDAL installation and other package availability
-conda run --no-capture-output -n python python -c '
+conda run --no-capture-output -n ich-env python -c '
 try:
     from osgeo import gdal
     import warnings

environments/ich-env.yml

+name: ich-env
+channels:
+  - conda-forge
+  - defaults
+dependencies:
+  - blosc=1.21.6=h85f69ea_0
+  - bzip2=1.0.8=h2bbff1b_6
+  - ca-certificates=2024.9.24=haa95532_0
+  - freexl=2.0.0=h8276f4a_0
+  - gdal=3.9.2=py310h1e3c057_7
+  - geos=3.13.0=h5a68840_0
+  - geotiff=1.7.3=h496ac4d_3
+  - intel-openmp=2024.2.1=h57928b3_1083
+  - krb5=1.21.3=hdf4eb48_0
+  - lerc=4.0.0=h63175ca_0
+  - libarchive=3.7.4=haf234dc_0
+  - libblas=3.9.0=24_win64_mkl
+  - libcblas=3.9.0=24_win64_mkl
+  - libcurl=8.10.1=h1ee3ff0_0
+  - libdeflate=1.22=h2466b09_0
+  - libexpat=2.6.3=he0c23c2_0
+  - libffi=3.4.4=hd77b12b_1
+  - libgdal-core=3.9.2=h042995d_7
+  - libhwloc=2.11.1=default_h8125262_1000
+  - libiconv=1.17=hcfcfb64_2
+  - libjpeg-turbo=3.0.0=hcfcfb64_1
+  - libkml=1.3.0=h538826c_1021
+  - liblapack=3.9.0=24_win64_mkl
+  - libpng=1.6.44=h3ca93ac_0
+  - librttopo=1.1.0=hd4c2148_17
+  - libspatialite=5.1.0=h939089a_11
+  - libsqlite=3.46.1=h2466b09_0
+  - libssh2=1.11.0=h7dfc565_0
+  - libtiff=4.7.0=hfc51747_1
+  - libwebp-base=1.4.0=hcfcfb64_0
+  - libxml2=2.12.7=h0f24e4e_4
+  - libzlib=1.3.1=h2466b09_2
+  - lz4-c=1.9.4=hcfcfb64_0
+  - lzo=2.10=hcfcfb64_1001
+  - minizip=4.0.6=hb638d1e_0
+  - mkl=2024.1.0=h66d3029_694
+  - numpy=2.1.2=py310hb9d903e_0
+  - openssl=3.3.2=h2466b09_0
+  - pcre2=10.44=h3d7b363_2
+  - pip=24.2=py310haa95532_0
+  - proj=9.5.0=hd9569ee_0
+  - pthreads-win32=2.9.1=h2466b09_4
+  - python=3.10.15=hfaddaf0_1_cpython
+  - python_abi=3.10=5_cp310
+  - setuptools=75.1.0=py310haa95532_0
+  - snappy=1.2.1=h23299a8_0
+  - sqlite=3.45.3=h2bbff1b_0
+  - tbb=2021.13.0=hc790b64_0
+  - tk=8.6.13=h5226925_1
+  - tzdata=2024b=h04d1e81_0
+  - ucrt=10.0.22621.0=h57928b3_1
+  - uriparser=0.9.8=h5a68840_0
+  - vc=14.40=h2eaa2aa_1
+  - vc14_runtime=14.40.33810=hcc2c482_22
+  - vs2015_runtime=14.40.33810=h3bf8584_22
+  - wheel=0.44.0=py310haa95532_0
+  - xerces-c=3.2.5=he0c23c2_2
+  - xz=5.4.6=h8cc25b3_1
+  - zlib=1.3.1=h2466b09_2
+  - zstd=1.5.6=h0ea2cb4_0
+  - pip:
+      - colorama==0.4.6
+      - empatches==0.2.3
+      - packaging==24.1
+      - python-dateutil==2.9.0.post0
+      - pytz==2024.2
+      - six==1.16.0

ich.sh

@@ -3,6 +3,9 @@
 set -xuo pipefail
 
 basedir=$(dirname "$(readlink -f "$0")")
+
+source activate ich-env
+
 ich_py="python ${basedir}/src/ich/InSAR_canopy_height.py"
 
 # Ensure there is at least one file of each type