Travis integration

.pytest_cache/v/cache/nodeids

@@ -0,0 +1,3 @@
+[
+  "tests/test_dummy.py::test_dummy"
+]

.travis.yml

@@ -0,0 +1,60 @@
+os: trusty
+
+before_install:
+  - sudo apt-get update
+  # Install MONC's dependencies
+  - sudo apt-get install -y mpich fftw3-dev
+  # Install MONC's python libraries
+  - sudo apt-get install -y python-numpy python-scipy python-matplotlib ipython ipython-notebook
+  # install pytest for running tests
+  - sudo apt-get install -y python-logilab-common
+  # Install HDF5 compiled for parallel use
+  - sudo apt-get install -y libhdf5-mpich2-dev
+  # Install GNU m4:
+  - sudo apt-get install -y m4
+
+install:
+  - export NETCDF_C_VERSION=4.4.0
+  - export NETCDF_FORTRAN_VERSION=4.4.3
+  - export FCM_VERSION=2017.10.0
+  # Download:
+  - wget https://github.com/Unidata/netcdf-c/archive/v${NETCDF_C_VERSION}.tar.gz
+  - tar -xf v${NETCDF_C_VERSION}.tar.gz
+  - cd netcdf-c-${NETCDF_C_VERSION}/
+  # Configure:
+  - CC=mpicc CPPFLAGS=-I/usr/include/hdf5/mpich LDFLAGS=-L/usr/lib/x86_64-linux-gnu/hdf5/mpich ./configure --enable-parallel-tests --disable-dap --prefix=/usr
+  # Build and install:
+  # - make check
+  - sudo make install
+  # change directory to home
+  - cd
+  # Build NetCDF Fortran static libraries
+  # Download:
+  - wget https://github.com/Unidata/netcdf-fortran/archive/v${NETCDF_FORTRAN_VERSION}.tar.gz
+  - tar -xf v${NETCDF_FORTRAN_VERSION}.tar.gz
+  - cd netcdf-fortran-${NETCDF_FORTRAN_VERSION}/
+  # Configure:
+  - H5DIR=/usr
+  - NCDIR=/usr
+  - NFDIR=/usr
+  - ODIR=/usr
+  - CC=mpicc FC=mpif90 F77=mpif77 CPPFLAGS="-I${NCDIR}/include  -I${H5DIR}/include/hdf5/mpich -I${ODIR}/include" LDFLAGS="-L${NCDIR}/lib -L${H5DIR}/lib/x86_64-linux-gnu/hdf5/mpich -L${ODIR}/lib" LD_LIBRARY_PATH=${NCDIR}/lib:${H5DIR}/lib:${ODIR}/lib LIBS="-lnetcdf -lhdf5_hl -lhdf5 -lz" ./configure --disable-shared --prefix=${NCDIR}
+  # Build and install:
+  # - make check
+  - sudo make install
+  # change directory to home
+  - cd
+  # Install FCM (used for compilation)
+  - wget https://github.com/metomi/fcm/archive/${FCM_VERSION}.tar.gz
+  - tar -xf ${FCM_VERSION}.tar.gz
+  - export PATH=`pwd`/fcm-${FCM_VERSION}/bin:$PATH
+  # Compile MONC with FCM
+  # change to where Travis has checked out our repository
+  - cd $TRAVIS_BUILD_DIR
+  - ls
+  - fcm make -f fcm-make/monc-ubuntu-14.04-gnu.cfg
+
+script:
+  - pytest
+  # run straka test for now to ensure that MONC runs
+  - mpirun -np 4 build/bin/monc_driver.exe --config=tests/straka_short.mcf

README.md

@@ -1,14 +1,16 @@
 **This github-based fork of MONC is rapidly changing, with automated testing,
 docs, etc being set up**
 
+[![Build Status](https://travis-ci.org/leifdenby/monc.svg?branch=master)](https://travis-ci.org/leifdenby/monc)
+
 MONC is a highly scalable Large Eddy Simulation (LES) model that has been
 developed to simulate clouds and turbulent flows at high resolution (~ 10s of
 metres) on large domains. The MONC project was initially funded through a Joint
-Weather and Climate Research Program (JWCRP) enabling post via [NERC research
-grant](http://gtr.rcuk.ac.uk/project/F1023ACF-76FF-4AD4-8E22-BA4A74451AD0
-NE/L01338X/1), which facilitated a collaboration between Met Office scientists
-and computational scientists at [EPCC](http://www.epcc.ed.ac.uk/) to
-undertake the development of MONC.
+Weather and Climate Research Program (JWCRP) enabling post via NERC research
+grant [NE/L01338X/1](http://gtr.rcuk.ac.uk/project/F1023ACF-76FF-4AD4-8E22-BA4A74451AD0),
+which facilitated a collaboration between Met Office scientists and
+computational scientists at [EPCC](http://www.epcc.ed.ac.uk/) to undertake the
+development of MONC.
 
 The main aim of the MONC project was to develop a high resolution atmospheric
 process research model for the community that is user friendly and scalable on

tests/straka_short.mcf

@@ -0,0 +1,128 @@
+# Global configuration
+global_configuration=global_config
+
+# Override global component defaults
+fftsolver_enabled=.true.
+iterativesolver_enabled=.false.
+pw_advection_enabled=.true.
+tvd_advection_enabled=.true.
+simplesetup_enabled=.true.
+smagorinsky_enabled=.true.
+lower_bc_enabled=.true.
+setfluxlook_enabled=.true. #This must be set to true if running with lower_bc
+viscosity_enabled=.true.
+diffusion_enabled=.true.
+simplecloud_enabled=.false.
+coriolis_enabled=.false.
+damping_enabled=.false.
+forcing_enabled=.false. 
+galilean_transformation=.false. # Needs debugging
+randomnoise_enabled=.false.
+mean_profiles_enabled=.true. #This must be set to true if running with damping
+th_advection_enabled=.false.
+cfltest_enabled=.false. # Make sure we set a sensible initial timestep
+iobridge_enabled=.true.
+scalar_diagnostics_enabled=.true.
+profile_diagnostics_enabled=.true.
+
+# Test case source code
+tank_experiments_enabled=.true.
+
+# Add bubble to initialisation
+initialisation_stage_ordering+=tank_experiments
+dynamics_group_contents=kidtestcase, pw_advection, tvd_advection, th_advection, diffusion, viscosity, coriolis, buoyancy, damping, forcing, set_consistent_lowbc, tank_experiments, lwrad_exponential, simplecloud, casim,diverr, psrce, flux_budget, diagnostics, profile_diagnostics, scalar_diagnostics, stepfields
+
+# IO server configuration
+ioserver_configuration_file="io/io_cfg_files/data_write_1file.xml"
+moncs_per_io_server=3
+sampling_frequency=4
+3d_sampling_frequency=20
+mm=5.0
+mm1=5.0
+diag_write_freq=900.0
+
+#Advection
+advection_flow_fields=tvd
+advection_theta_field=tvd
+advection_q_fields=tvd
+
+# Control configuration
+display_synopsis_frequency=100
+cfl_frequency=2
+termination_time=100.
+dtm=.25
+
+# Checkpoint configuration
+checkpoint_frequency=0
+checkpoint_file="straka_dump.nc"
+checkpoint_walltime_frequency=10
+walltime_limit=00:30:00
+
+# iterative solver
+tolerance=1.e-5
+max_iterations=500
+preconditioner_iterations=0
+include_top_level=.false.
+symm_prob=.false.
+
+# CFL configuration
+cfl_frequency=10
+cfl_cvismax=0.2
+cfl_cvelmax=0.2
+cfl_dtmmax=30.
+cfl_dtmmin=0.001
+
+# Simple setup configuration
+thref0=300.0
+surface_pressure=100000.
+surface_reference_pressure=100000.
+x_size=2
+y_size=512
+z_size=65
+dxx=100
+dyy=100
+zztop=6400.0
+kgd=1,65
+hgd=0.0, 6400.0
+rmlmax=50.
+
+enable_theta=.true.
+number_q_fields=0
+use_anelastic_equations=.true.
+origional_vertical_grid_setup=.true.
+passive_th=.false.
+passive_q=.true.
+backscatter=.false.
+use_viscosity_and_diffusion=.true.
+use_surface_fluxes=.false.
+use_time_varying_surface_values=.false.
+
+# Initialization of fields
+l_init_pl_theta=.true.
+z_init_pl_theta=0.0, 6400.
+f_init_pl_theta=300., 300.
+l_init_pl_u=.false.
+l_init_pl_v=.false.
+l_init_pl_q=.false.
+
+l_matchthref=.false.
+
+# Set up the tank
+
+l_bubbles=.true.
+l_splittank=.false.
+l_sources=.false.
+l_bubble_straka=.true.
+
+bubble_x_cen=0.0
+bubble_y_cen=25600.0
+bubble_z_cen=3000.0
+bubble_x_rad=6000000.0
+bubble_y_rad=4000.0
+bubble_z_rad=2000.0
+l_bubble_use_t=.true.
+#bubble_th_pert=-0.01
+bubble_t_pert=-15.
+bubble_edge=0.0
+bubble_lrandom=.false.
+bubble_lmoist=.false.

tests/test_dummy.py

@@ -0,0 +1,2 @@
+def test_dummy():
+    pass