ENH: new env setup and first working dockerfile.

TimeSeries/s2planetary.py

@@ -7,7 +7,7 @@ import rasterio
 import rasterio.mask
 from osgeo import ogr
 from pyproj import Transformer as T
-from shapely import Polygon
+from shapely.geometry import Polygon
 import tqdm
 
 def fetch(shp, dt, output_fld, band_list=None):

docker/dockerfile.otb → docker/dockerfile

 ARG BASE_IMG=ubuntu:20.04
 # Base image can be either focal (20.04) or bionic (18.04) and descendants
 FROM $BASE_IMG
-LABEL description="A base image with OTB and remote modules for the MORINGAv2 platform, CIRAD/UMR TETIS"
+LABEL description="An image for the MORINGAv2 platform including a specific OTB build, CIRAD/UMR TETIS"
+LABEL maintainer="Raffaele GAETANO"
 
 WORKDIR /tmp
 
-ARG DEPS_INSTALL_PREFIX=/opt/otb
-
 # Install build dependencies
 RUN apt-get update \
     && export DEBIAN_FRONTEND=noninteractive \
@@ -47,18 +46,16 @@ RUN mkdir /tmp/SuperBuild-archives /tmp/build /opt/otb \
     && cd SuperBuild-archives \
     && OTB_VERSION=$(head -n1 /tmp/otb/RELEASE_NOTES.txt | sed -r 's/OTB-v ([0-9].[0-9]).[0-9] -.*/\1/') \
     && curl -s "https://www.orfeo-toolbox.org/packages/archives/OTB/SuperBuild-archives-$OTB_VERSION.tar.bz2" \
-        | tar -xjv --exclude 'q*' --exclude '*gl*'
-
-RUN cd /tmp/build \
+        | tar -xjv --exclude 'q*' --exclude '*gl*' \
+    && cd /tmp/build \
     && OTB_CMAKE_FLAGS=$(cat "../build-flags-otb.txt") \
     && cmake /tmp/otb/SuperBuild \
         $OTB_CMAKE_FLAGS \
         -DCMAKE_BUILD_TYPE="Release" \
         -DDOWNLOAD_LOCATION=/tmp/SuperBuild-archives \
         -DCMAKE_INSTALL_PREFIX=/opt/otb \
-    && make OTB_DEPENDS -j20
-
-RUN cd /tmp/otb/Modules/Remote \
+    && make OTB_DEPENDS -j7 \
+    && cd /tmp/otb/Modules/Remote \
     && rm -f otbGRM.remote.cmake \
     && git clone "https://gitlab.irstea.fr/remi.cresson/GRM.git" \
     && git clone -b disassembled "https://gitlab.irstea.fr/remi.cresson/LSGRM.git" \
@@ -89,12 +86,11 @@ RUN cd /tmp/otb/Modules/Remote \
         -DModule_SertitObject=OFF \
         -DOTB_WRAP_PYTHON=ON \
         -DPYTHON_EXECUTABLE=/usr/bin/python3 \
-        -DCMAKE_INSTALL_PREFIX=/opt/otb
-
-RUN sed -i 's/SetDocName/\/\/SetDocName/g' /tmp/otb/Modules/Remote/OTBPhenology/app/otbSigmoFitting.cxx \
+        -DCMAKE_INSTALL_PREFIX=/opt/otb \
+    && sed -i 's/SetDocName/\/\/SetDocName/g' /tmp/otb/Modules/Remote/OTBPhenology/app/otbSigmoFitting.cxx \
     && sed -i 's/SetDocName/\/\/SetDocName/g' /tmp/otb/Modules/Remote/otb-slic/app/otbSLIC.cxx \
     && cd /tmp/build \
-    && make -j20 \
+    && make -j7 \
     && rm -rf /tmp/* /root/.cache /opt/otb/bin/otbgui_*
 
 # Persistent environment variables
@@ -104,3 +100,19 @@ ENV LD_LIBRARY_PATH="/opt/otb/lib:$LD_LIBRARY_PATH"
 ENV OTB_APPLICATION_PATH="/opt/otb/lib/otb/applications"
 ENV PROJ_LIB="$DEPS_INSTALL_PREFIX/share/proj"
 ENV GDAL_DATA="$DEPS_INSTALL_PREFIX/share/gdal"
+
+RUN useradd -s /bin/bash -m ubuntu
+USER ubuntu
+WORKDIR /home/ubuntu
+
+RUN pip install gdal==3.4.2 \
+      rasterio \
+      geopandas \
+      scikit-learn \
+      scikit-image \
+      psutil \
+      planetary_computer \
+      theia_picker
+
+RUN mkdir moringav2
+COPY --chown=ubuntu . /home/ubuntu/moringav2
\ No newline at end of file