Gromacs  5.1.2
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Class List
Here are the classes, structs, unions and interfaces with brief descriptions:
[detail level 1234]
oNanonymous_namespace{abstractoptionstorage.cpp}
oNanonymous_namespace{analysisdata.cpp}
oNanonymous_namespace{angle.cpp}
oNanonymous_namespace{arraydata.cpp}
oNanonymous_namespace{average.cpp}
oNanonymous_namespace{basicoptions.cpp}
oNanonymous_namespace{bootstrap_loadstore.cpp}
oNanonymous_namespace{cmdlinehelpmodule.cpp}
oNanonymous_namespace{cmdlinehelpwriter.cpp}
oNanonymous_namespace{cmdlinemodulemanager.cpp}
oNanonymous_namespace{cmdlineparser.cpp}
oNanonymous_namespace{cmdlineprogramcontext.cpp}
oNanonymous_namespace{compressed_x_output.cpp}
oNanonymous_namespace{distance.cpp}
oNanonymous_namespace{domain_decomposition.cpp}
oNanonymous_namespace{evaluate.cpp}
oNanonymous_namespace{fft.cpp}
oNanonymous_namespace{filenameoption.cpp}
oNanonymous_namespace{filenameoptionmanager.cpp}
oNanonymous_namespace{freevolume.cpp}
oNanonymous_namespace{gmx_traj_tests.cpp}
oNanonymous_namespace{grompp.cpp}
oNanonymous_namespace{helpformat.cpp}
oNanonymous_namespace{helpmanager.cpp}
oNanonymous_namespace{helpwritercontext.cpp}
oNanonymous_namespace{histogram.cpp}
oNanonymous_namespace{indexutil.cpp}
oNanonymous_namespace{insert-molecules.cpp}
oNanonymous_namespace{legacymodules.cpp}Registers command-line modules for pre-5.0 binaries
oNanonymous_namespace{lifetime.cpp}
oNanonymous_namespace{listed-forces.cpp}
oNanonymous_namespace{nbsearch.cpp}
oNanonymous_namespace{option.cpp}
oNanonymous_namespace{optionsassigner.cpp}
oNanonymous_namespace{pairdist.cpp}
oNanonymous_namespace{pairs.cpp}
oNanonymous_namespace{pargs.cpp}
oNanonymous_namespace{parsetree.cpp}
oNanonymous_namespace{path.cpp}
oNanonymous_namespace{plot.cpp}
oNanonymous_namespace{poscalc.cpp}
oNanonymous_namespace{position-restraints.cpp}
oNanonymous_namespace{random.cpp}
oNanonymous_namespace{rdf.cpp}
oNanonymous_namespace{refdata.cpp}
oNanonymous_namespace{refdata_tests.cpp}
oNanonymous_namespace{rerun.cpp}
oNanonymous_namespace{sasa.cpp}
oNanonymous_namespace{select.cpp}
oNanonymous_namespace{selectioncollection.cpp}
oNanonymous_namespace{selectionoption.cpp}
oNanonymous_namespace{selhelp.cpp}
oNanonymous_namespace{shake.cpp}
oNanonymous_namespace{sm_keywords.cpp}
oNanonymous_namespace{solvate.cpp}
oNanonymous_namespace{stringutil.cpp}
oNanonymous_namespace{surfacearea.cpp}
oNanonymous_namespace{sysinfo.cpp}
oNanonymous_namespace{testasserts_tests.cpp}
oNanonymous_namespace{timeunitmanager.cpp}
oNanonymous_namespace{tngio.cpp}
oNanonymous_namespace{trajectory_writing.cpp}
oNanonymous_namespace{vectypes.cpp}
oNgmxGeneric GROMACS namespace
oCAnalysisTemplateTemplate class to serve as a basis for user analysis tools
oCcl_atomdataNonbonded atom data - both inputs and outputs
oCcl_nb_stagingStaging area for temporary data downloaded from the GPU
oCcl_nbparamParameters required for the OpenCL nonbonded calculations
oCcl_nbparam_paramsData structure shared between the OpenCL device code and OpenCL host code
oCcl_plistPair list data
oCcl_timersOpenCL events used for timing GPU kernels and H2D/D2H transfers
oCcu_atomdataNonbonded atom data - both inputs and outputs
oCcu_nbparamParameters required for the CUDA nonbonded calculations
oCcu_plistPair list data
oCcu_timersCUDA events used for timing GPU kernels and H2D/D2H transfers
oCeligible_gpu_idsHelper struct so we can parse the string with eligible GPU IDs outside do_the_tests
oCgmx_ana_index_tStores a single index group
oCgmx_ana_indexgrps_tStores a set of index groups
oCgmx_ana_indexmap_tData structure for calculating index group mappings
oCgmx_ana_pos_tStores a set of positions together with their origins
oCgmx_ana_poscalc_tData structure for position calculation
oCgmx_ana_selcollection_tInformation for a collection of selections
oCgmx_ana_selmethod_help_tHelp information for a selection method
oCgmx_ana_selmethod_tDescribes a selection method
oCgmx_ana_selparam_tDescribes a single parameter for a selection method
oCgmx_ana_selvalue_tDescribes a value of a selection expression or of a selection method parameter
oCgmx_device_info_tOpenCL GPU information
oCgmx_domdec_constraintsStruct used during constraint setup with domain decomposition
oCgmx_domdec_specat_commStruct with setup and buffers for special atom communication
oCgmx_fft_fftpackContents of the FFTPACK fft datatype
oCgmx_fft_fftw3Contents of the FFTW3 fft datatype
oCgmx_fft_mklContents of the Intel MKL FFT fft datatype
oCgmx_help_make_index_groupCata necessary to construct a single (protein) index group in analyse_prot()
oCgmx_IMDIMD (interactive molecular dynamics) main data structure
oCgmx_nbnxn_cuda_tMain data structure for CUDA nonbonded force calculations
oCgmx_nbnxn_kernel_timing_data_tNonbonded kernel time and call count
oCgmx_nbnxn_ocl_tMain data structure for OpenCL nonbonded force calculations
oCgmx_pme_comm_n_boxHelper struct for PP-PME communication of parameters
oCgmx_pme_comm_vir_ene_tHelper struct for PP-PME communication of virial and energy
oCgmx_pme_ppMaster PP-PME communication data structure
oCgmx_reverse_topStruct for the reverse topology: links bonded interactions to atomsx
oCgmx_sel_evaluate_tData structure for passing information required during evaluation
oCgmx_sel_lexer_tInternal data structure for the selection tokenizer state
oCgmx_sel_mempool_block_tDescribes a single block allocated from the memory pool
oCgmx_sel_mempool_tDescribes a memory pool
oCgmx_signalling_tObject used by mdrun ranks to signal to each other
oCgmx_simd_dbool_tBoolean type for double precision SIMD data
oCgmx_simd_dibool_tBoolean type for integer datatypes corresponding to double SIMD
oCgmx_simd_dint32_tInteger SIMD variable type to use for conversions to/from double
oCgmx_simd_double_tFloating-point SIMD variable type in double precision
oCgmx_simd_fbool_tBoolean type for float SIMD data
oCgmx_simd_fibool_tBoolean type for integer datatypes corresponding to float SIMD
oCgmx_simd_fint32_tInteger SIMD variable type to use for conversions to/from float
oCgmx_simd_float_tFloat SIMD variable. Supported with GMX_SIMD_HAVE_FLOAT
oCgmx_sparsematrixSparse matrix storage format
oCgmx_wallclock_gpu_tGPU timings for kernels and H2d/D2H transfers
oCgmx_walltime_accountingManages caching wall-clock time measurements for simulations
oCilist_data_tStruct for passing all data required for a function type
oCIMDEnergyBlockIMD (interactive molecular dynamics) energy record
oCIMDHeaderIMD (interactive molecular dynamics) communication structure
oCIMDSocketIMD (interactive molecular dynamics) socket structure
oCnb_stagingStaging area for temporary data downloaded from the GPU
oCocl_gpu_id_tOpenCL GPU device identificator An OpenCL device is identified by its ID. The platform ID is also included for caching reasons
oComp_module_nthreads_tStructure with the number of threads for each OpenMP multi-threaded algorithmic module in mdrun
oCpme_setup_tParameters and settings for one PP-PME setup
oCswap_compartmentStructure containing compartment-specific data
oCswap_groupThis structure contains data needed for each of the groups involved in swapping: ions, water, and channels
oCt_compare_valueData structure for comparison expression operand values
oCt_compiler_dataInternal data structure used by the compiler
oCt_groupselectionSelection of pull groups to be used in WHAM (one structure for each tpr file)
oCt_methoddata_compareData structure for comparison expression evaluation
oCt_methoddata_distanceData structure for distance-based selection method
oCt_methoddata_insolidangleData structure for the insolidangle selection method
oCt_methoddata_kwevalData structure for keyword evaluation in arbitrary groups
oCt_methoddata_kwintData structure for integer keyword expression evaluation
oCt_methoddata_kwrealData structure for real keyword expression evaluation
oCt_methoddata_mergeData structure for the merging selection modifiers
oCt_methoddata_permuteData structure for the permute selection modifier
oCt_methoddata_posData structure for position keyword evaluation
oCt_methoddata_sameData structure for the same selection method
oCt_pargsCommand-line argument definition for C code
oCt_partitionInternal data structure for the insolidangle selection method
oCt_partition_itemInternal data structure for the insolidangle selection method
oCt_register_methodHelper structure for defining selection methods
oCt_spheresurfacebinInternal data structure for the insolidangle selection method
oCt_swapMain (private) data structure for the position swapping protocol
oCt_UmbrellaHeaderParameters of the umbrella potentials
oCt_UmbrellaOptionsParameters of WHAM
oCt_UmbrellaWindowData in the umbrella histograms
\Cthread_work_tStruct for thread local work data for local topology generation