Split lines with many copyright years
authorMark Abraham <mark.j.abraham@gmail.com>
Thu, 9 Jan 2020 08:17:07 +0000 (09:17 +0100)
committerMark Abraham <mark.j.abraham@gmail.com>
Thu, 9 Jan 2020 08:32:11 +0000 (09:32 +0100)
commit75443f0f3f822c3726763464f406ecc543ad700e
tree1460a15454cb8171d449de90a1572578cb388620
parent591729559fa752927f55a47aac550bb822f6fdfa
Split lines with many copyright years

The new split_copyright_years.sh script can be run every few years to
keep the line length short enough for readability, and to avoid
clang-format wanting to change the lines such that the copyright
checker no longer recognizes a valid copyright statement.

Numerous files have now been bumped for 2020 because the copyright
line has been changed. That's technically valid.

In recent merge commits, several files were changed to use year ranges
like 2012-2020. Those have been reverted to the old style, which is
thought to be more valid.

Fixes #3282

Change-Id: I9c4e4677bf22a8d48ab1b3245de257c4bbaccf9f
720 files changed:
CMakeLists.txt
admin/builds/gromacs.py
admin/copyright.py
admin/split_copyright_years.sh [new file with mode: 0755]
cmake/FindFFTW.cmake
cmake/gmxBuildTypeReference.cmake
cmake/gmxCFlags.cmake
cmake/gmxCPackUtilities.cmake
cmake/gmxDetectCpu.cmake
cmake/gmxDetectSimd.cmake
cmake/gmxManageFFTLibraries.cmake
cmake/gmxManageGPU.cmake
cmake/gmxManageMPI.cmake
cmake/gmxManageNvccConfig.cmake
cmake/gmxManageOpenCL.cmake
cmake/gmxManageOpenMP.cmake
cmake/gmxManageSimd.cmake
cmake/gmxSetBuildInformation.cmake
cmake/gmxTestCompilerProblems.cmake
cmake/gmxTestInlineASM.cmake
cmake/gmxTestMMMalloc.cmake
cmake/gmxTestMPI_IN_PLACE.cmake
cmake/gmxVersionInfo.cmake
docs/CMakeLists.txt
docs/conf.py
docs/doxygen/CMakeLists.txt
docs/doxygen/gmxtree.py
docs/doxygen/graphbuilder.py
docs/doxygen/includesorter.py
docs/manual/CMakeLists.txt
python_packaging/documentation/conf.py
share/CMakeLists.txt
share/template/CMakeLists.txt
share/template/template.cpp
src/CMakeLists.txt
src/buildinfo.h.cmakein
src/config.h.cmakein
src/external/CMakeLists.txt
src/external/build-fftw/CMakeLists.txt
src/gromacs/CMakeLists.txt
src/gromacs/analysisdata/CMakeLists.txt
src/gromacs/analysisdata/abstractdata.cpp
src/gromacs/analysisdata/abstractdata.h
src/gromacs/analysisdata/arraydata.cpp
src/gromacs/analysisdata/arraydata.h
src/gromacs/analysisdata/datamodule.h
src/gromacs/analysisdata/datamodulemanager.h
src/gromacs/analysisdata/dataproxy.cpp
src/gromacs/analysisdata/dataproxy.h
src/gromacs/analysisdata/datastorage.cpp
src/gromacs/analysisdata/modules/average.cpp
src/gromacs/analysisdata/modules/average.h
src/gromacs/analysisdata/modules/displacement.h
src/gromacs/analysisdata/modules/histogram.cpp
src/gromacs/analysisdata/modules/histogram.h
src/gromacs/analysisdata/modules/lifetime.cpp
src/gromacs/analysisdata/modules/plot.h
src/gromacs/analysisdata/tests/analysisdata.cpp
src/gromacs/analysisdata/tests/datatest.cpp
src/gromacs/analysisdata/tests/datatest.h
src/gromacs/analysisdata/tests/mock_datamodule.cpp
src/gromacs/analysisdata/tests/mock_datamodule.h
src/gromacs/awh/read_params.cpp
src/gromacs/awh/read_params.h
src/gromacs/commandline/cmdlinehelpcontext.cpp
src/gromacs/commandline/cmdlinehelpmodule.cpp
src/gromacs/commandline/cmdlinehelpmodule.h
src/gromacs/commandline/cmdlinehelpwriter.h
src/gromacs/commandline/cmdlineinit.cpp
src/gromacs/commandline/cmdlinemodulemanager.cpp
src/gromacs/commandline/cmdlinemodulemanager.h
src/gromacs/commandline/cmdlineoptionsmodule.cpp
src/gromacs/commandline/cmdlineparser.h
src/gromacs/commandline/cmdlineprogramcontext.cpp
src/gromacs/commandline/cmdlineprogramcontext.h
src/gromacs/commandline/filenm.cpp
src/gromacs/commandline/filenm.h
src/gromacs/commandline/pargs.cpp
src/gromacs/commandline/pargs.h
src/gromacs/commandline/shellcompletions.cpp
src/gromacs/commandline/tests/CMakeLists.txt
src/gromacs/commandline/tests/cmdlinehelpwriter.cpp
src/gromacs/commandline/tests/cmdlinemodulemanager.cpp
src/gromacs/commandline/tests/cmdlinemodulemanagertest.h
src/gromacs/commandline/tests/cmdlineprogramcontext.cpp
src/gromacs/commandline/tests/pargs.cpp
src/gromacs/commandline/viewit.cpp
src/gromacs/compat/tests/CMakeLists.txt
src/gromacs/correlationfunctions/autocorr.cpp
src/gromacs/correlationfunctions/integrate.cpp
src/gromacs/correlationfunctions/tests/autocorr.cpp
src/gromacs/domdec/box.cpp
src/gromacs/domdec/domdec.h
src/gromacs/domdec/domdec_constraints.cpp
src/gromacs/domdec/domdec_constraints.h
src/gromacs/domdec/domdec_internal.h
src/gromacs/domdec/domdec_setup.cpp
src/gromacs/domdec/domdec_specatomcomm.cpp
src/gromacs/domdec/domdec_specatomcomm.h
src/gromacs/domdec/domdec_vsite.cpp
src/gromacs/domdec/domdec_vsite.h
src/gromacs/domdec/ga2la.h
src/gromacs/essentialdynamics/edsam.cpp
src/gromacs/essentialdynamics/edsam.h
src/gromacs/ewald/CMakeLists.txt
src/gromacs/ewald/calculate_spline_moduli.cpp
src/gromacs/ewald/ewald.cpp
src/gromacs/ewald/ewald.h
src/gromacs/ewald/long_range_correction.cpp
src/gromacs/ewald/long_range_correction.h
src/gromacs/ewald/pme.cpp
src/gromacs/ewald/pme.h
src/gromacs/ewald/pme_gather.cpp
src/gromacs/ewald/pme_grid.cpp
src/gromacs/ewald/pme_grid.h
src/gromacs/ewald/pme_internal.h
src/gromacs/ewald/pme_load_balancing.cpp
src/gromacs/ewald/pme_load_balancing.h
src/gromacs/ewald/pme_only.cpp
src/gromacs/ewald/pme_pp.cpp
src/gromacs/ewald/pme_pp_communication.h
src/gromacs/ewald/pme_redistribute.cpp
src/gromacs/ewald/pme_simd4.h
src/gromacs/ewald/pme_solve.cpp
src/gromacs/ewald/pme_solve.h
src/gromacs/ewald/pme_spline_work.cpp
src/gromacs/ewald/pme_spread.cpp
src/gromacs/fft/calcgrid.cpp
src/gromacs/fft/calcgrid.h
src/gromacs/fft/fft.cpp
src/gromacs/fft/fft_fftpack.cpp
src/gromacs/fft/fft_fftw3.cpp
src/gromacs/fft/tests/fft.cpp
src/gromacs/fileio/checkpoint.cpp
src/gromacs/fileio/checkpoint.h
src/gromacs/fileio/confio.cpp
src/gromacs/fileio/confio.h
src/gromacs/fileio/enxio.cpp
src/gromacs/fileio/enxio.h
src/gromacs/fileio/espio.cpp
src/gromacs/fileio/espio.h
src/gromacs/fileio/filetypes.cpp
src/gromacs/fileio/g96io.cpp
src/gromacs/fileio/g96io.h
src/gromacs/fileio/gmxfio.cpp
src/gromacs/fileio/gmxfio_xdr.cpp
src/gromacs/fileio/gmxfio_xdr.h
src/gromacs/fileio/groio.cpp
src/gromacs/fileio/groio.h
src/gromacs/fileio/libxdrf.cpp
src/gromacs/fileio/matio.cpp
src/gromacs/fileio/md5.cpp
src/gromacs/fileio/md5.h
src/gromacs/fileio/mtxio.cpp
src/gromacs/fileio/oenv.cpp
src/gromacs/fileio/pdbio.cpp
src/gromacs/fileio/pdbio.h
src/gromacs/fileio/readinp.cpp
src/gromacs/fileio/readinp.h
src/gromacs/fileio/tests/CMakeLists.txt
src/gromacs/fileio/tests/tngio.cpp
src/gromacs/fileio/tngio.h
src/gromacs/fileio/tpxio.cpp
src/gromacs/fileio/tpxio.h
src/gromacs/fileio/trrio.cpp
src/gromacs/fileio/trrio.h
src/gromacs/fileio/trxio.cpp
src/gromacs/fileio/trxio.h
src/gromacs/fileio/vmdio.h
src/gromacs/fileio/warninp.cpp
src/gromacs/fileio/warninp.h
src/gromacs/fileio/writeps.cpp
src/gromacs/fileio/xtcio.cpp
src/gromacs/fileio/xtcio.h
src/gromacs/fileio/xvgr.cpp
src/gromacs/fileio/xvgr.h
src/gromacs/gmxana/anadih.cpp
src/gromacs/gmxana/binsearch.h
src/gromacs/gmxana/cmat.cpp
src/gromacs/gmxana/dens_filter.cpp
src/gromacs/gmxana/dlist.cpp
src/gromacs/gmxana/eigio.cpp
src/gromacs/gmxana/eigio.h
src/gromacs/gmxana/fitahx.cpp
src/gromacs/gmxana/gmx_ana.h
src/gromacs/gmxana/gmx_anaeig.cpp
src/gromacs/gmxana/gmx_analyze.cpp
src/gromacs/gmxana/gmx_angle.cpp
src/gromacs/gmxana/gmx_awh.cpp
src/gromacs/gmxana/gmx_bundle.cpp
src/gromacs/gmxana/gmx_chi.cpp
src/gromacs/gmxana/gmx_cluster.cpp
src/gromacs/gmxana/gmx_clustsize.cpp
src/gromacs/gmxana/gmx_confrms.cpp
src/gromacs/gmxana/gmx_covar.cpp
src/gromacs/gmxana/gmx_current.cpp
src/gromacs/gmxana/gmx_density.cpp
src/gromacs/gmxana/gmx_densmap.cpp
src/gromacs/gmxana/gmx_dielectric.cpp
src/gromacs/gmxana/gmx_dipoles.cpp
src/gromacs/gmxana/gmx_disre.cpp
src/gromacs/gmxana/gmx_do_dssp.cpp
src/gromacs/gmxana/gmx_dyecoupl.cpp
src/gromacs/gmxana/gmx_enemat.cpp
src/gromacs/gmxana/gmx_energy.cpp
src/gromacs/gmxana/gmx_gyrate.cpp
src/gromacs/gmxana/gmx_h2order.cpp
src/gromacs/gmxana/gmx_hbond.cpp
src/gromacs/gmxana/gmx_helix.cpp
src/gromacs/gmxana/gmx_lie.cpp
src/gromacs/gmxana/gmx_make_edi.cpp
src/gromacs/gmxana/gmx_mdmat.cpp
src/gromacs/gmxana/gmx_mindist.cpp
src/gromacs/gmxana/gmx_msd.cpp
src/gromacs/gmxana/gmx_nmeig.cpp
src/gromacs/gmxana/gmx_nmens.cpp
src/gromacs/gmxana/gmx_nmr.cpp
src/gromacs/gmxana/gmx_order.cpp
src/gromacs/gmxana/gmx_polystat.cpp
src/gromacs/gmxana/gmx_potential.cpp
src/gromacs/gmxana/gmx_principal.cpp
src/gromacs/gmxana/gmx_rms.cpp
src/gromacs/gmxana/gmx_rmsdist.cpp
src/gromacs/gmxana/gmx_rmsf.cpp
src/gromacs/gmxana/gmx_rotacf.cpp
src/gromacs/gmxana/gmx_saltbr.cpp
src/gromacs/gmxana/gmx_sans.cpp
src/gromacs/gmxana/gmx_saxs.cpp
src/gromacs/gmxana/gmx_sham.cpp
src/gromacs/gmxana/gmx_sigeps.cpp
src/gromacs/gmxana/gmx_sorient.cpp
src/gromacs/gmxana/gmx_spatial.cpp
src/gromacs/gmxana/gmx_spol.cpp
src/gromacs/gmxana/gmx_tcaf.cpp
src/gromacs/gmxana/gmx_traj.cpp
src/gromacs/gmxana/gmx_trjorder.cpp
src/gromacs/gmxana/gmx_vanhove.cpp
src/gromacs/gmxana/gmx_velacc.cpp
src/gromacs/gmxana/gmx_wham.cpp
src/gromacs/gmxana/gmx_wheel.cpp
src/gromacs/gmxana/gmx_xpm2ps.cpp
src/gromacs/gmxana/gstat.h
src/gromacs/gmxana/hxprops.cpp
src/gromacs/gmxana/hxprops.h
src/gromacs/gmxana/interf.h
src/gromacs/gmxana/nrama.cpp
src/gromacs/gmxana/nsfactor.cpp
src/gromacs/gmxana/nsfactor.h
src/gromacs/gmxana/powerspect.cpp
src/gromacs/gmxana/powerspect.h
src/gromacs/gmxana/princ.cpp
src/gromacs/gmxana/princ.h
src/gromacs/gmxana/sfactor.cpp
src/gromacs/gmxana/sfactor.h
src/gromacs/gmxana/tests/CMakeLists.txt
src/gromacs/gmxana/tests/gmx_traj.cpp
src/gromacs/gmxlib/CMakeLists.txt
src/gromacs/gmxlib/network.cpp
src/gromacs/gmxlib/network.h
src/gromacs/gmxlib/nonbonded/CMakeLists.txt
src/gromacs/gmxlib/nonbonded/nb_free_energy.cpp
src/gromacs/gmxlib/nonbonded/nb_kernel.h
src/gromacs/gmxlib/nrnb.cpp
src/gromacs/gmxlib/nrnb.h
src/gromacs/gmxpreprocess/add_par.cpp
src/gromacs/gmxpreprocess/convparm.cpp
src/gromacs/gmxpreprocess/editconf.cpp
src/gromacs/gmxpreprocess/fflibutil.cpp
src/gromacs/gmxpreprocess/gen_ad.cpp
src/gromacs/gmxpreprocess/gen_maxwell_velocities.cpp
src/gromacs/gmxpreprocess/gen_vsite.cpp
src/gromacs/gmxpreprocess/genconf.cpp
src/gromacs/gmxpreprocess/genion.cpp
src/gromacs/gmxpreprocess/genrestr.cpp
src/gromacs/gmxpreprocess/gmxcpp.cpp
src/gromacs/gmxpreprocess/gpp_atomtype.cpp
src/gromacs/gmxpreprocess/gpp_bond_atomtype.cpp
src/gromacs/gmxpreprocess/grompp.cpp
src/gromacs/gmxpreprocess/grompp_impl.h
src/gromacs/gmxpreprocess/h_db.cpp
src/gromacs/gmxpreprocess/hackblock.cpp
src/gromacs/gmxpreprocess/hizzie.cpp
src/gromacs/gmxpreprocess/insert_molecules.cpp
src/gromacs/gmxpreprocess/makeexclusiondistances.cpp
src/gromacs/gmxpreprocess/nm2type.cpp
src/gromacs/gmxpreprocess/pdb2gmx.cpp
src/gromacs/gmxpreprocess/pdb2top.cpp
src/gromacs/gmxpreprocess/pgutil.cpp
src/gromacs/gmxpreprocess/readir.h
src/gromacs/gmxpreprocess/readpull.cpp
src/gromacs/gmxpreprocess/readrot.cpp
src/gromacs/gmxpreprocess/resall.cpp
src/gromacs/gmxpreprocess/solvate.cpp
src/gromacs/gmxpreprocess/specbond.cpp
src/gromacs/gmxpreprocess/ter_db.cpp
src/gromacs/gmxpreprocess/tests/solvate.cpp
src/gromacs/gmxpreprocess/tomorse.cpp
src/gromacs/gmxpreprocess/topdirs.cpp
src/gromacs/gmxpreprocess/topio.cpp
src/gromacs/gmxpreprocess/topio.h
src/gromacs/gmxpreprocess/toppush.cpp
src/gromacs/gmxpreprocess/toppush.h
src/gromacs/gmxpreprocess/toputil.cpp
src/gromacs/gmxpreprocess/vsite_parm.cpp
src/gromacs/gmxpreprocess/x2top.cpp
src/gromacs/gmxpreprocess/xlate.cpp
src/gromacs/gpu_utils/cuda_arch_utils.cuh
src/gromacs/gpu_utils/cudautils.cu
src/gromacs/gpu_utils/cudautils.cuh
src/gromacs/gpu_utils/gpu_utils.h
src/gromacs/gpu_utils/gpu_utils_ocl.cpp
src/gromacs/gpu_utils/ocl_caching.cpp
src/gromacs/gpu_utils/ocl_caching.h
src/gromacs/gpu_utils/ocl_compiler.cpp
src/gromacs/gpu_utils/ocl_compiler.h
src/gromacs/gpu_utils/oclutils.cpp
src/gromacs/gpu_utils/oclutils.h
src/gromacs/gpu_utils/pmalloc_cuda.h
src/gromacs/hardware/detecthardware.cpp
src/gromacs/hardware/detecthardware.h
src/gromacs/hardware/gpu_hw_info.h
src/gromacs/hardware/hardwaretopology.cpp
src/gromacs/hardware/hw_info.h
src/gromacs/hardware/printhardware.cpp
src/gromacs/hardware/printhardware.h
src/gromacs/imd/imd.cpp
src/gromacs/imd/imd.h
src/gromacs/imd/imdsocket.cpp
src/gromacs/linearalgebra/CMakeLists.txt
src/gromacs/linearalgebra/eigensolver.cpp
src/gromacs/linearalgebra/gmx_arpack.cpp
src/gromacs/linearalgebra/matrix.cpp
src/gromacs/linearalgebra/nrjac.cpp
src/gromacs/listed_forces/bonded.cpp
src/gromacs/listed_forces/bonded.h
src/gromacs/listed_forces/disre.cpp
src/gromacs/listed_forces/disre.h
src/gromacs/listed_forces/gpubonded.h
src/gromacs/listed_forces/listed_forces.cpp
src/gromacs/listed_forces/listed_forces.h
src/gromacs/listed_forces/manage_threading.cpp
src/gromacs/listed_forces/manage_threading.h
src/gromacs/listed_forces/orires.cpp
src/gromacs/listed_forces/orires.h
src/gromacs/listed_forces/pairs.cpp
src/gromacs/listed_forces/pairs.h
src/gromacs/listed_forces/position_restraints.cpp
src/gromacs/listed_forces/utilities.h
src/gromacs/math/3dtransforms.cpp
src/gromacs/math/CMakeLists.txt
src/gromacs/math/do_fit.cpp
src/gromacs/math/do_fit.h
src/gromacs/math/units.cpp
src/gromacs/math/utilities.cpp
src/gromacs/math/utilities.h
src/gromacs/math/vecdump.cpp
src/gromacs/math/vectypes.h
src/gromacs/mdlib/CMakeLists.txt
src/gromacs/mdlib/broadcaststructs.cpp
src/gromacs/mdlib/calc_verletbuf.h
src/gromacs/mdlib/calcmu.cpp
src/gromacs/mdlib/calcmu.h
src/gromacs/mdlib/calcvir.cpp
src/gromacs/mdlib/compute_io.cpp
src/gromacs/mdlib/constr.cpp
src/gromacs/mdlib/constr.h
src/gromacs/mdlib/constraintrange.cpp
src/gromacs/mdlib/coupling.cpp
src/gromacs/mdlib/ebin.cpp
src/gromacs/mdlib/enerdata_utils.cpp
src/gromacs/mdlib/enerdata_utils.h
src/gromacs/mdlib/energyoutput.cpp
src/gromacs/mdlib/force.cpp
src/gromacs/mdlib/force.h
src/gromacs/mdlib/forcerec.h
src/gromacs/mdlib/gmx_omp_nthreads.cpp
src/gromacs/mdlib/gmx_omp_nthreads.h
src/gromacs/mdlib/groupcoord.cpp
src/gromacs/mdlib/lincs.cpp
src/gromacs/mdlib/md_support.cpp
src/gromacs/mdlib/md_support.h
src/gromacs/mdlib/mdatoms.cpp
src/gromacs/mdlib/mdatoms.h
src/gromacs/mdlib/mdebin_bar.cpp
src/gromacs/mdlib/mdebin_bar.h
src/gromacs/mdlib/mdoutf.cpp
src/gromacs/mdlib/mdoutf.h
src/gromacs/mdlib/membed.h
src/gromacs/mdlib/nsgrid.cpp
src/gromacs/mdlib/perf_est.cpp
src/gromacs/mdlib/qm_gamess.cpp
src/gromacs/mdlib/qm_gaussian.cpp
src/gromacs/mdlib/qm_mopac.cpp
src/gromacs/mdlib/qm_orca.cpp
src/gromacs/mdlib/qmmm.cpp
src/gromacs/mdlib/qmmm.h
src/gromacs/mdlib/rf_util.cpp
src/gromacs/mdlib/settle.cpp
src/gromacs/mdlib/shake.cpp
src/gromacs/mdlib/sighandler.cpp
src/gromacs/mdlib/simulationsignal.cpp
src/gromacs/mdlib/simulationsignal.h
src/gromacs/mdlib/splitter.cpp
src/gromacs/mdlib/stat.cpp
src/gromacs/mdlib/stat.h
src/gromacs/mdlib/tgroup.cpp
src/gromacs/mdlib/trajectory_writing.cpp
src/gromacs/mdlib/trajectory_writing.h
src/gromacs/mdlib/update.cpp
src/gromacs/mdlib/update.h
src/gromacs/mdlib/vcm.cpp
src/gromacs/mdlib/vcm.h
src/gromacs/mdlib/vsite.cpp
src/gromacs/mdlib/vsite.h
src/gromacs/mdlib/wall.cpp
src/gromacs/mdrun/minimize.cpp
src/gromacs/mdrun/replicaexchange.h
src/gromacs/mdrun/shellfc.cpp
src/gromacs/mdrun/shellfc.h
src/gromacs/mdrun/tpi.cpp
src/gromacs/mdrunutility/printtime.cpp
src/gromacs/mdrunutility/threadaffinity.cpp
src/gromacs/mdrunutility/threadaffinity.h
src/gromacs/mdtypes/awh_params.h
src/gromacs/mdtypes/commrec.h
src/gromacs/mdtypes/fcdata.h
src/gromacs/mdtypes/forcerec.h
src/gromacs/mdtypes/inputrec.cpp
src/gromacs/mdtypes/inputrec.h
src/gromacs/mdtypes/interaction_const.h
src/gromacs/mdtypes/md_enums.cpp
src/gromacs/mdtypes/md_enums.h
src/gromacs/mdtypes/mdatom.h
src/gromacs/mdtypes/state.cpp
src/gromacs/mdtypes/state.h
src/gromacs/nbnxm/atomdata.h
src/gromacs/nbnxm/constants.h
src/gromacs/nbnxm/cuda/CMakeLists.txt
src/gromacs/nbnxm/cuda/nbnxm_cuda.cu
src/gromacs/nbnxm/cuda/nbnxm_cuda_data_mgmt.cu
src/gromacs/nbnxm/cuda/nbnxm_cuda_kernel.cuh
src/gromacs/nbnxm/cuda/nbnxm_cuda_kernel_utils.cuh
src/gromacs/nbnxm/cuda/nbnxm_cuda_kernels.cuh
src/gromacs/nbnxm/gpu_types.h
src/gromacs/nbnxm/grid.cpp
src/gromacs/nbnxm/kernel_common.cpp
src/gromacs/nbnxm/kernel_common.h
src/gromacs/nbnxm/kernel_file_generator/kernel_simd_template.h.pre
src/gromacs/nbnxm/kernel_file_generator/make_verlet_simd_kernel_files.py
src/gromacs/nbnxm/kerneldispatch.cpp
src/gromacs/nbnxm/kernels_reference/kernel_gpu_ref.cpp
src/gromacs/nbnxm/kernels_reference/kernel_gpu_ref.h
src/gromacs/nbnxm/kernels_reference/kernel_ref.cpp
src/gromacs/nbnxm/kernels_reference/kernel_ref.h
src/gromacs/nbnxm/kernels_reference/kernel_ref_inner.h
src/gromacs/nbnxm/kernels_reference/kernel_ref_outer.h
src/gromacs/nbnxm/kernels_simd_2xmm/kernel_common.h
src/gromacs/nbnxm/kernels_simd_2xmm/kernel_inner.h
src/gromacs/nbnxm/kernels_simd_2xmm/kernel_outer.h
src/gromacs/nbnxm/kernels_simd_4xm/kernel_common.h
src/gromacs/nbnxm/kernels_simd_4xm/kernel_inner.h
src/gromacs/nbnxm/kernels_simd_4xm/kernel_outer.h
src/gromacs/nbnxm/nbnxm.h
src/gromacs/nbnxm/nbnxm_geometry.cpp
src/gromacs/nbnxm/nbnxm_geometry.h
src/gromacs/nbnxm/nbnxm_gpu.h
src/gromacs/nbnxm/opencl/CMakeLists.txt
src/gromacs/nbnxm/opencl/nbnxm_ocl.cpp
src/gromacs/nbnxm/opencl/nbnxm_ocl_data_mgmt.cpp
src/gromacs/nbnxm/opencl/nbnxm_ocl_internal.h
src/gromacs/nbnxm/opencl/nbnxm_ocl_jit_support.cpp
src/gromacs/nbnxm/opencl/nbnxm_ocl_kernel_utils.clh
src/gromacs/nbnxm/opencl/nbnxm_ocl_kernels.clh
src/gromacs/nbnxm/opencl/nbnxm_ocl_types.h
src/gromacs/nbnxm/pairlist.cpp
src/gromacs/nbnxm/pairlist.h
src/gromacs/nbnxm/pairlist_simd_2xmm.h
src/gromacs/nbnxm/pairlist_simd_4xm.h
src/gromacs/nbnxm/pairlistset.cpp
src/gromacs/nbnxm/pairlistset.h
src/gromacs/nbnxm/pairlistsets.h
src/gromacs/nbnxm/pairsearch.h
src/gromacs/onlinehelp/helpformat.cpp
src/gromacs/onlinehelp/helptopic.cpp
src/gromacs/onlinehelp/helpwritercontext.cpp
src/gromacs/onlinehelp/tests/helpmanager.cpp
src/gromacs/options.h
src/gromacs/options/CMakeLists.txt
src/gromacs/options/abstractoptionstorage.h
src/gromacs/options/filenameoption.cpp
src/gromacs/options/filenameoption.h
src/gromacs/options/filenameoptionstorage.h
src/gromacs/options/options.h
src/gromacs/options/optionsassigner.h
src/gromacs/options/optionsvisitor.cpp
src/gromacs/options/optionsvisitor.h
src/gromacs/options/tests/abstractoptionstorage.cpp
src/gromacs/options/tests/filenameoption.cpp
src/gromacs/options/tests/option.cpp
src/gromacs/options/tests/timeunitmanager.cpp
src/gromacs/options/timeunitmanager.cpp
src/gromacs/pbcutil/mshift.cpp
src/gromacs/pbcutil/mshift.h
src/gromacs/pbcutil/pbc.cpp
src/gromacs/pbcutil/pbc.h
src/gromacs/pbcutil/rmpbc.cpp
src/gromacs/pulling/output.cpp
src/gromacs/pulling/output.h
src/gromacs/pulling/pull.cpp
src/gromacs/pulling/pull.h
src/gromacs/pulling/pull_internal.h
src/gromacs/pulling/pull_rotation.cpp
src/gromacs/pulling/pull_rotation.h
src/gromacs/pulling/pullutil.cpp
src/gromacs/selection.h
src/gromacs/selection/CMakeLists.txt
src/gromacs/selection/centerofmass.h
src/gromacs/selection/compiler.cpp
src/gromacs/selection/evaluate.cpp
src/gromacs/selection/evaluate.h
src/gromacs/selection/indexutil.cpp
src/gromacs/selection/keywords.h
src/gromacs/selection/mempool.cpp
src/gromacs/selection/nbsearch.cpp
src/gromacs/selection/params.cpp
src/gromacs/selection/parser.cpp
src/gromacs/selection/parser.h
src/gromacs/selection/parser.y
src/gromacs/selection/parser_internal.h
src/gromacs/selection/parsetree.cpp
src/gromacs/selection/poscalc.cpp
src/gromacs/selection/position.h
src/gromacs/selection/scanner.cpp
src/gromacs/selection/scanner.h
src/gromacs/selection/scanner.l
src/gromacs/selection/selection.cpp
src/gromacs/selection/selection.h
src/gromacs/selection/selectioncollection.h
src/gromacs/selection/selectionenums.h
src/gromacs/selection/selectionfileoptionstorage.h
src/gromacs/selection/selectionoption.h
src/gromacs/selection/selectionoptionmanager.cpp
src/gromacs/selection/selectionoptionmanager.h
src/gromacs/selection/selelem.cpp
src/gromacs/selection/selhelp.cpp
src/gromacs/selection/selhelp.h
src/gromacs/selection/selparam.h
src/gromacs/selection/selvalue.cpp
src/gromacs/selection/sm_compare.cpp
src/gromacs/selection/sm_distance.cpp
src/gromacs/selection/sm_insolidangle.cpp
src/gromacs/selection/sm_keywords.cpp
src/gromacs/selection/sm_merge.cpp
src/gromacs/selection/sm_permute.cpp
src/gromacs/selection/sm_position.cpp
src/gromacs/selection/sm_same.cpp
src/gromacs/selection/sm_simple.cpp
src/gromacs/selection/symrec.h
src/gromacs/selection/tests/indexutil.cpp
src/gromacs/selection/tests/nbsearch.cpp
src/gromacs/selection/tests/poscalc.cpp
src/gromacs/selection/tests/toputils.cpp
src/gromacs/selection/tests/toputils.h
src/gromacs/simd/impl_arm_neon/impl_arm_neon_util_float.h
src/gromacs/simd/impl_ibm_vmx/impl_ibm_vmx_util_float.h
src/gromacs/simd/impl_ibm_vsx/impl_ibm_vsx_simd_double.h
src/gromacs/simd/impl_ibm_vsx/impl_ibm_vsx_simd_float.h
src/gromacs/simd/impl_ibm_vsx/impl_ibm_vsx_util_double.h
src/gromacs/simd/impl_ibm_vsx/impl_ibm_vsx_util_float.h
src/gromacs/simd/impl_x86_avx_128_fma/impl_x86_avx_128_fma_definitions.h
src/gromacs/simd/impl_x86_avx_256/impl_x86_avx_256_simd_double.h
src/gromacs/simd/impl_x86_avx_256/impl_x86_avx_256_simd_float.h
src/gromacs/simd/impl_x86_avx_512/impl_x86_avx_512_definitions.h
src/gromacs/simd/impl_x86_avx_512/impl_x86_avx_512_simd_double.h
src/gromacs/simd/impl_x86_avx_512/impl_x86_avx_512_simd_float.h
src/gromacs/simd/impl_x86_avx_512/impl_x86_avx_512_util_float.h
src/gromacs/simd/impl_x86_avx_512_knl/impl_x86_avx_512_knl_definitions.h
src/gromacs/simd/impl_x86_mic/impl_x86_mic_util_double.h
src/gromacs/simd/impl_x86_mic/impl_x86_mic_util_float.h
src/gromacs/simd/simd.h
src/gromacs/simd/simd_math.h
src/gromacs/simd/tests/data.h
src/gromacs/simd/tests/scalar.cpp
src/gromacs/simd/tests/scalar_math.cpp
src/gromacs/simd/tests/scalar_util.cpp
src/gromacs/simd/tests/simd.cpp
src/gromacs/simd/tests/simd.h
src/gromacs/simd/tests/simd4_floatingpoint.cpp
src/gromacs/simd/tests/simd_floatingpoint.cpp
src/gromacs/simd/tests/simd_integer.cpp
src/gromacs/statistics/statistics.cpp
src/gromacs/swap/swapcoords.cpp
src/gromacs/swap/swapcoords.h
src/gromacs/tables/forcetable.cpp
src/gromacs/tables/forcetable.h
src/gromacs/taskassignment/decidegpuusage.cpp
src/gromacs/timing/cyclecounter.cpp
src/gromacs/timing/cyclecounter.h
src/gromacs/timing/gpu_timing.h
src/gromacs/timing/wallcycle.cpp
src/gromacs/timing/wallcycle.h
src/gromacs/timing/wallcyclereporting.h
src/gromacs/timing/walltime_accounting.cpp
src/gromacs/tools/check.cpp
src/gromacs/tools/convert_tpr.cpp
src/gromacs/tools/dump.cpp
src/gromacs/tools/eneconv.cpp
src/gromacs/tools/make_ndx.cpp
src/gromacs/tools/mk_angndx.cpp
src/gromacs/tools/pme_error.cpp
src/gromacs/tools/tests/trjconv.cpp
src/gromacs/tools/trjcat.cpp
src/gromacs/tools/trjconv.cpp
src/gromacs/topology/atomprop.cpp
src/gromacs/topology/atoms.cpp
src/gromacs/topology/atoms.h
src/gromacs/topology/block.cpp
src/gromacs/topology/exclusionblocks.cpp
src/gromacs/topology/forcefieldparameters.cpp
src/gromacs/topology/forcefieldparameters.h
src/gromacs/topology/idef.cpp
src/gromacs/topology/idef.h
src/gromacs/topology/ifunc.cpp
src/gromacs/topology/ifunc.h
src/gromacs/topology/index.cpp
src/gromacs/topology/index.h
src/gromacs/topology/mtop_util.cpp
src/gromacs/topology/mtop_util.h
src/gromacs/topology/residuetypes.cpp
src/gromacs/topology/symtab.cpp
src/gromacs/topology/topology.cpp
src/gromacs/topology/topology.h
src/gromacs/topology/topsort.cpp
src/gromacs/topology/topsort.h
src/gromacs/trajectory/energyframe.h
src/gromacs/trajectory/trajectoryframe.h
src/gromacs/trajectoryanalysis/CMakeLists.txt
src/gromacs/trajectoryanalysis/analysismodule.h
src/gromacs/trajectoryanalysis/analysissettings_impl.h
src/gromacs/trajectoryanalysis/cmdlinerunner.h
src/gromacs/trajectoryanalysis/modules.cpp
src/gromacs/trajectoryanalysis/modules/angle.h
src/gromacs/trajectoryanalysis/modules/distance.h
src/gromacs/trajectoryanalysis/modules/freevolume.cpp
src/gromacs/trajectoryanalysis/modules/rdf.cpp
src/gromacs/trajectoryanalysis/modules/sasa.cpp
src/gromacs/trajectoryanalysis/modules/select.cpp
src/gromacs/trajectoryanalysis/modules/surfacearea.cpp
src/gromacs/trajectoryanalysis/runnercommon.h
src/gromacs/trajectoryanalysis/tests/CMakeLists.txt
src/gromacs/trajectoryanalysis/tests/moduletest.cpp
src/gromacs/trajectoryanalysis/tests/surfacearea.cpp
src/gromacs/utility/CMakeLists.txt
src/gromacs/utility/arrayref.h
src/gromacs/utility/basedefinitions.h
src/gromacs/utility/basenetwork.cpp
src/gromacs/utility/baseversion-gen.cpp.cmakein
src/gromacs/utility/baseversion_gen.h
src/gromacs/utility/binaryinformation.cpp
src/gromacs/utility/binaryinformation.h
src/gromacs/utility/classhelpers.h
src/gromacs/utility/compare.cpp
src/gromacs/utility/compare.h
src/gromacs/utility/cstringutil.cpp
src/gromacs/utility/cstringutil.h
src/gromacs/utility/cuda_version_information.cu
src/gromacs/utility/datafilefinder.cpp
src/gromacs/utility/directoryenumerator.cpp
src/gromacs/utility/errorcodes.cpp
src/gromacs/utility/errorcodes.h
src/gromacs/utility/exceptions.h
src/gromacs/utility/fatalerror.cpp
src/gromacs/utility/futil.cpp
src/gromacs/utility/gmxmpi.h
src/gromacs/utility/gmxomp.cpp
src/gromacs/utility/gmxomp.h
src/gromacs/utility/init.cpp
src/gromacs/utility/path.h
src/gromacs/utility/pleasecite.cpp
src/gromacs/utility/programcontext.cpp
src/gromacs/utility/real.h
src/gromacs/utility/smalloc.cpp
src/gromacs/utility/snprintf.h
src/gromacs/utility/strdb.cpp
src/gromacs/utility/sysinfo.cpp
src/gromacs/utility/tests/CMakeLists.txt
src/gromacs/utility/tests/stringutil.cpp
src/gromacs/utility/txtdump.cpp
src/gromacs/utility/unique_cptr.h
src/programs/CMakeLists.txt
src/programs/gmx.cpp
src/programs/legacymodules.cpp
src/programs/mdrun/tests/CMakeLists.txt
src/programs/mdrun/tests/interactiveMD.cpp
src/programs/mdrun/tests/moduletest.cpp
src/programs/mdrun/tests/moduletest.h
src/programs/mdrun/tests/multisim.cpp
src/programs/mdrun/tests/multisimtest.cpp
src/programs/mdrun/tests/multisimtest.h
src/programs/mdrun/tests/replicaexchange.cpp
src/programs/mdrun/tests/rerun.cpp
src/programs/mdrun/tests/swapcoords.cpp
src/programs/mdrun/tests/trajectory_writing.cpp
src/programs/view/dialogs.cpp
src/programs/view/fgrid.cpp
src/programs/view/manager.cpp
src/programs/view/nmol.cpp
src/testutils/CMakeLists.txt
src/testutils/TestMacros.cmake
src/testutils/cmdlinetest.cpp
src/testutils/cmdlinetest.h
src/testutils/stringtest.h
src/testutils/testasserts.h
src/testutils/testfilemanager.cpp
src/testutils/testfilemanager.h
src/testutils/testinit.cpp
src/testutils/testinit.h
src/testutils/testoptions.h
src/testutils/tests/refdata_tests.cpp
tests/CMakeLists.txt