Draft: Update Margo and other deps, for 0.9.7

                 PATH_SUFFIXES lib)

endif()

# Read the selected headers, not a potentially stale pkg-config cache.

if(EXISTS "${ROCKSDB_INCLUDE_DIR}/rocksdb/version.h")

    file(STRINGS "${ROCKSDB_INCLUDE_DIR}/rocksdb/version.h" _rocksdb_version_lines

         REGEX "^#define ROCKSDB_(MAJOR|MINOR|PATCH) [0-9]+")

    foreach(_component MAJOR MINOR PATCH)

        string(REGEX MATCH "ROCKSDB_${_component} ([0-9]+)" _match "${_rocksdb_version_lines}")

        set(_rocksdb_${_component} "${CMAKE_MATCH_1}")

    endforeach()

    set(RocksDB_VERSION_STRING "${_rocksdb_MAJOR}.${_rocksdb_MINOR}.${_rocksdb_PATCH}")

endif()

# Allow ROCKSDB_LIBRARY to be set manually, as the location of the rocksdb library

if(NOT ROCKSDB_LIBRARY)

  include(SelectLibraryConfigurations)

FROM gekkofs/testing:0.9.7 AS builder

LABEL Description="Build environment for S3D-IO and WaComM++"

ARG DEBIAN_FRONTEND=noninteractive

RUN <<EOF

    apt-get update

    apt-get install -y --no-install-recommends \

    openmpi-bin openmpi-common gfortran libopenmpi-dev pnetcdf-bin libpnetcdf-dev libssl-dev wget nco nghttp2

    rm -rf /var/lib/apt/lists/*

    apt-get clean

    apt-get autoclean

EOF

# --- Build S3D-IO ---

WORKDIR /build/S3D-IO

RUN git clone https://github.com/wkliao/S3D-IO.git . && \

    # Note: The PNETCDF_DIR and include path might need adjustment if libpnetcdf-dev installs to a different standard location

    # or if the base image structure changes.

    sed -i -e 's/PNETCDF_DIR = ${HOME}\/PNetCDF/PNETCDF_DIR = \/usr/' \

    -e "s|\(INC[[:space:]]*=[[:space:]]*-I\$(PNETCDF_DIR)/include\)|\1 -I$(dirname "$(find /usr/lib -name pnetcdf.mod -print -quit)")|" Makefile && \

    make && \

    mv s3d_io.x /usr/local/bin/s3d_io.x

# --- Build wacommplusplus ---

WORKDIR /build/wacommplusplus

RUN git clone https://github.com/CCMMMA/wacommplusplus.git . && \

    sed -i 's|\${LIBCURL}|/usr/lib/x86_64-linux-gnu/libcurl.so|g' CMakeLists.txt && \

    sed -i 's|https://zlib.net/zlib-1.3.1.tar.gz|https://zlib.net/fossils/zlib-1.3.1.tar.gz|g' CMakeLists.txt && \

    mkdir build && cd build && \

    cmake .. && \

    make -j8 && \

    mv wacommplusplus /usr/local/bin/wacommplusplus && \

    mv external /usr/local/lib/

# ---- Final Stage ----

FROM gekkofs/testing:0.9.7

LABEL Description="Debian-based environment to test GekkoFS with apps"

ARG DEBIAN_FRONTEND=noninteractive

# Install runtime dependencies

# libpnetcdf13 (or similar, check exact name with 'apt-cache search libpnetcdf')

# libssl might be libssl1.1 or libssl3 depending on Debian version in base image

RUN apt-get update && apt-get install -y --no-install-recommends \

    openmpi-bin openmpi-common libopenmpi-dev pnetcdf-bin libssl3 libcurl4 \

    wget nco nghttp2 \

    && rm -rf /var/lib/apt/lists/* \

    && apt-get clean && \

    mkdir -p /root/wacommplusplus/build/example /root/S3D-IO

# Copy built applications from the builder stage

COPY --from=builder /usr/local/bin/s3d_io.x /root/S3D-IO

COPY --from=builder /usr/local/bin/wacommplusplus /root/wacommplusplus/build

COPY --from=builder /usr/local/lib/external /root/wacommplusplus/build/external/

WORKDIR /root/wacommplusplus/build/example

COPY rms.tar.gz /root/wacommplusplus/build/example/input/

RUN mkdir -p input processed output restarts && \

    cd input && \

    tar xzf rms.tar.gz && \

    rm rms.tar.gz

# Copy configuration files

# These files (sources.json, wacomm.json) should be in the same directory as your Dockerfile

COPY sources.json /root/wacommplusplus/build/example

COPY wacomm.json /root/wacommplusplus/build/example

ENV LD_LIBRARY_PATH=/root/wacommplusplus/build/external/lib/

.PHONY: all

amd64:

	docker build --platform linux/amd64 -t gekkofs/apps:0.9.7 .

aarch64:

	docker build --platform linux/arm64 -t gekkofs/apps:0.9.7 .

all:

	docker build -t gekkofs/apps:0.9.7 .

{

    "type": "FeatureCollection",

    "crs": {

        "type": "name",

        "properties": {

            "name": "urn:ogc:def:crs:OGC:1.3:CRS84"

        }

    },

    "features": [

        {

            "type": "Feature",

            "properties": {

                "start": -1.0,

                "end": -1.0,

                "mode": 1,

                "particlesPerHour": 100,

                "depth": 0.0,

                "id": "1"

            },

            "geometry": {

                "type": "Point",

                "coordinates": [

                    14.972061,

                    40.343286

                ]

            }

        } ] }