- rename edfb to differentiate the one using sphere input files from the one...

### cluster

1. cd to the `build/cluster` folder.

2. Run `edfb`:

2. Run `edfb_clu`:

   > ./edfb

   > ./edfb_clu

3. Run `clu`:

   > ./clu

*NOTE:* both `edfb` and `clu` expect an input which is assumed to be in a folder named `../../test_data/cluster/` (i.e. two levels above the current execution path)

*NOTE:* both `edfb_clu` and `clu` expect an input which is assumed to be in a folder named `../../test_data/cluster/` (i.e. two levels above the current execution path)

4. Run `np_cluster`:

5. Check the consistency between the output files (the default output file for the *FORTRAN* code is named `OCLU`, while the corresponding *C++* output has the default name of `c_OCLU`).

The default behaviour of `np_cluster` is to take the same input files as `edfb` and `clu` and to write the output in the current folder. If needed, different input and output paths can be given as command-line arguments:

The default behaviour of `np_cluster` is to take the same input files as `edfb_clu` and `clu` and to write the output in the current folder. If needed, different input and output paths can be given as command-line arguments:

   > ./np_cluster PATH_TO_DEDFB PATH_TO_DCLU OUTPUT_PATH

### sphere

1. cd to the `build/sphere` folder.

2. Run `edfb`:

2. Run `edfb_sph`:

   > ./edfb

   > ./edfb_sph

3. Run `sph`:

   > ./sph

*NOTE:* both `edfb` and `sph` expect an input which is assumed to be in a folder named `../../test_data/sphere/` (i.e. two levels above the current execution path)

*NOTE:* both `edfb_sph` and `sph` expect an input which is assumed to be in a folder named `../../test_data/sphere/` (i.e. two levels above the current execution path)

4. Run `np_sphere`:

5. Check the consistency between the output files (the default output file for the *FORTRAN* code is named `OSPH`, while the corresponding *C++* output has the default name of `c_OSPH`).

The default behaviour of `np_sphere` is to take the same input files as `edfb` and `sph` and to write the output in the current folder. If needed, different input and output paths can be given as command-line arguments:

The default behaviour of `np_sphere` is to take the same input files as `edfb_sph` and `sph` and to write the output in the current folder. If needed, different input and output paths can be given as command-line arguments:

   > ./np_sphere PATH_TO_DEDFB PATH_TO_DSPH OUTPUT_PATH

WORKDIR /root

# install the strictly needed runtime libraries needed to run the executables

# and the python check scripts

RUN DEBIAN_FRONTEND=noninteractive apt update && DEBIAN_FRONTEND=noninteractive apt upgrade && DEBIAN_FRONTEND=noninteractive apt -y install libgfortran5 libgcc-s1 libhdf5-103-1 libstdc++6 libssl3 libcurl4 libsz2 zlib1g libnghttp2-14 libidn2-0 librtmp1 libssh2-1 libpsl5 libgssapi-krb5-2 libldap-2.5-0 libzstd1 libbrotli1 libaec0 libunistring2 libgmp10 libkrb5-3 libk5crypto3 libcom-err2 libkrb5support0 libsasl2-2 libp11-kit0 libtasn1-6 libkeyutils1 libffi8 python3 python-is-python3 python3-regex && rm -rf /var/lib/apt/lists/*

RUN DEBIAN_FRONTEND=noninteractive apt update && DEBIAN_FRONTEND=noninteractive apt upgrade && DEBIAN_FRONTEND=noninteractive apt -y install libgfortran5 libgcc-s1 libhdf5-103-1 libstdc++6 libssl3 libcurl4 libsz2 zlib1g libnghttp2-14 libidn2-0 librtmp1 libssh2-1 libpsl5 libgssapi-krb5-2 libldap-2.5-0 libzstd1 libbrotli1 libaec0 libunistring2 libgmp10 libkrb5-3 libk5crypto3 libcom-err2 libkrb5support0 libsasl2-2 libp11-kit0 libtasn1-6 libkeyutils1 libffi8 python3 python-is-python3 python3-regex hdf5-tools && rm -rf /var/lib/apt/lists/*

COPY --from=np-tmcode-run-dev /root /root

# remove everything which is not needed to run the codes

RUN cd /root/np-tmcode && find build -name "*.o" -exec rm -v \{\} \; && find build -name "*.gcno" -exec rm -v \{\} \; && cd src && rm -rvf cluster libnptm trapping include sphere Makefile make.inc README.md && cd .. && rm -rvf containers && cd doc && rm -rvf src && cd build/latex && rm -rvf *.tex *.out *.sty *.ind *.log *.toc *.ilg *.idx *.aux *.eps Makefile class*.pdf

%post

	apt update

	apt -y upgrade

	apt -y install libgfortran5 libgcc-s1 libhdf5-103-1 libstdc++6 libssl3 libcurl4 libsz2 zlib1g libnghttp2-14 libidn2-0 librtmp1 libssh2-1 libpsl5 libgssapi-krb5-2 libldap-2.5-0 libzstd1 libbrotli1 libaec0 libunistring2 libgmp10 libkrb5-3 libk5crypto3 libcom-err2 libkrb5support0 libsasl2-2 libp11-kit0 libtasn1-6 libkeyutils1 libffi8 python3 python-is-python3 python3-regex

	apt -y install libgfortran5 libgcc-s1 libhdf5-103-1 libstdc++6 libssl3 libcurl4 libsz2 zlib1g libnghttp2-14 libidn2-0 librtmp1 libssh2-1 libpsl5 libgssapi-krb5-2 libldap-2.5-0 libzstd1 libbrotli1 libaec0 libunistring2 libgmp10 libkrb5-3 libk5crypto3 libcom-err2 libkrb5support0 libsasl2-2 libp11-kit0 libtasn1-6 libkeyutils1 libffi8 python3 python-is-python3 python3-regex hdf5-tools

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

	cd /usr/local/np-tmcode

	find build -name "*.o" -exec rm -v \{\} \;

	rm -rvf src/cluster /src/include /src/libntpm /src/sphere /src/trapping /src/Makefile /src/make.inc

	cd build/latex

	rm -rvf *.tex *.out *.sty *.ind *.log *.toc *.ilg *.idx *.aux *.eps Makefile class*.pdf

	cp -a /usr/bin/ld.so /usr/bin/sh /usr/bin/dash /usr/bin/mkdir /usr/bin/rm /usr/bin/cp /usr/bin/python* /usr/local/bin/

	cp -a /usr/bin/ld.so /usr/bin/sh /usr/bin/dash /usr/bin/mkdir /usr/bin/rm /usr/bin/cp /usr/bin/python* /usr/bin/h5* /usr/local/bin/

	rm -rvf /bin/* /usr/bin/* /sbin /usr/sbin /usr/games /usr/local/games

	/usr/local/bin/mkdir -p /bin

	/usr/local/bin/cp -av /usr/local/bin/* /bin/

include ../make.inc

all: clu edfb np_cluster

all: clu edfb_clu np_cluster

clu: clu.o

	$(FC) $(FCFLAGS) -o $(BUILDDIR)/clu $(BUILDDIR)/clu.o $(LDFLAGS)

edfb: edfb.o

	$(FC) $(FCFLAGS) -o $(BUILDDIR)/edfb $(BUILDDIR)/edfb.o $(LDFLAGS)

edfb_clu: edfb_clu.o

	$(FC) $(FCFLAGS) -o $(BUILDDIR)/edfb_clu $(BUILDDIR)/edfb_clu.o $(LDFLAGS)

np_cluster: $(BUILDDIR)/np_cluster.o $(BUILDDIR)/Commons.o $(BUILDDIR)/Configuration.o $(BUILDDIR)/file_io.o $(BUILDDIR)/Parsers.o $(BUILDDIR)/sph_subs.o $(BUILDDIR)/clu_subs.o $(BUILDDIR)/cluster.o

	$(CXX) $(CXXFLAGS) -o $(BUILDDIR)/np_cluster $(BUILDDIR)/np_cluster.o $(BUILDDIR)/Commons.o $(BUILDDIR)/Configuration.o $(BUILDDIR)/file_io.o $(BUILDDIR)/Parsers.o $(BUILDDIR)/sph_subs.o $(BUILDDIR)/clu_subs.o $(BUILDDIR)/cluster.o $(CXXLDFLAGS) 

	rm -f $(BUILDDIR)/*.o

wipe:

	rm -f $(BUILDDIR)/clu $(BUILDDIR)/edfb $(BUILDDIR)/*.o

	rm -f $(BUILDDIR)/clu $(BUILDDIR)/edfb_clu $(BUILDDIR)/*.o