keyword stringclasses 7
values | repo_name stringlengths 8 98 | file_path stringlengths 4 244 | file_extension stringclasses 29
values | file_size int64 0 84.1M | line_count int64 0 1.6M | content stringlengths 1 84.1M ⌀ | language stringclasses 14
values |
|---|---|---|---|---|---|---|---|
3D | mcellteam/mcell | include/dump_state.h | .h | 4,275 | 125 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | include/datamodel_defines.h | .h | 21,796 | 524 | /******************************************************************************
*
* Copyright (C) 2019,2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
******... | Unknown |
3D | mcellteam/mcell | include/debug_config.h | .h | 7,553 | 248 | /******************************************************************************
*
* Copyright (C) 2019,2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src4/wall_utils.h | .h | 822 | 39 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/wall_overlap.h | .h | 913 | 31 | /******************************************************************************
*
* Copyright (C) 2006-2017,2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in... | Unknown |
3D | mcellteam/mcell | src4/diffuse_react_event.h | .h | 10,821 | 357 | /******************************************************************************
*
* Copyright (C) 2019,2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src4/memory_limit_checker.h | .h | 1,329 | 59 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | Unknown |
3D | mcellteam/mcell | src4/partition.h | .h | 43,641 | 1,211 | /******************************************************************************
*
* Copyright (C) 2019,2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
******... | Unknown |
3D | mcellteam/mcell | src4/base_event.cpp | .cpp | 967 | 32 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/region_utils.h | .h | 2,869 | 85 | /******************************************************************************
*
* Copyright (C) 2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/wall_overlap.cpp | .cpp | 12,445 | 399 | /******************************************************************************
*
* Copyright (C) 2006-2017,2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in... | C++ |
3D | mcellteam/mcell | src4/wall.cpp | .cpp | 13,128 | 458 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/defines.h | .h | 24,014 | 835 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/rxn_class_cleanup_event.h | .h | 879 | 37 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | Unknown |
3D | mcellteam/mcell | src4/sort_mols_by_subpart_event.h | .h | 1,079 | 40 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | Unknown |
3D | mcellteam/mcell | src4/count_buffer.cpp | .cpp | 4,112 | 178 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/rxn_class_cleanup_event.cpp | .cpp | 1,590 | 58 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | C++ |
3D | mcellteam/mcell | src4/defragmentation_event.cpp | .cpp | 3,891 | 117 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/region_expr.h | .h | 2,355 | 96 | /******************************************************************************
*
* Copyright (C) 2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/defragmentation_event.h | .h | 1,123 | 41 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/bng_data_to_datamodel_converter.cpp | .cpp | 14,160 | 426 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | C++ |
3D | mcellteam/mcell | src4/vtk_utils.cpp | .cpp | 21,189 | 671 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/release_event.cpp | .cpp | 44,760 | 1,322 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/geometry_utils.h | .h | 1,137 | 49 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/vtk_utils.h | .h | 3,548 | 119 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/count_buffer.h | .h | 3,373 | 130 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/memory_limit_checker.cpp | .cpp | 3,054 | 112 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | C++ |
3D | mcellteam/mcell | src4/species_cleanup_event.h | .h | 1,119 | 45 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | Unknown |
3D | mcellteam/mcell | src4/bng_data_to_datamodel_converter.h | .h | 1,831 | 71 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | Unknown |
3D | mcellteam/mcell | src4/run_n_iterations_end_event.h | .h | 1,212 | 52 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | Unknown |
3D | mcellteam/mcell | src4/geometry.cpp | .cpp | 40,836 | 1,347 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/wall.h | .h | 14,829 | 483 | /******************************************************************************
*
* Copyright (C) 2019-2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src4/clamp_release_event.h | .h | 1,921 | 77 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/viz_output_event.h | .h | 1,822 | 68 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/viz_output_event.cpp | .cpp | 9,622 | 323 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/geometry.h | .h | 13,503 | 412 | /******************************************************************************
*
* Copyright (C) 2019-2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src4/partition.cpp | .cpp | 38,732 | 1,088 | /******************************************************************************
*
* Copyright (C) 2019-2021 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
******... | C++ |
3D | mcellteam/mcell | src4/base_event.h | .h | 5,533 | 144 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/custom_function_call_event.h | .h | 2,166 | 73 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/grid_position.cpp | .cpp | 27,801 | 810 | /******************************************************************************
*
* Copyright (C) 2006-2017,2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in... | C++ |
3D | mcellteam/mcell | src4/defines.cpp | .cpp | 1,482 | 78 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/mol_order_shuffle_event.h | .h | 922 | 37 |
/******************************************************************************
*
* Copyright (C) 2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICE... | Unknown |
3D | mcellteam/mcell | src4/species_cleanup_event.cpp | .cpp | 3,084 | 106 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | C++ |
3D | mcellteam/mcell | src4/mcell4_iface_for_mcell3.h | .h | 788 | 23 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | Unknown |
3D | mcellteam/mcell | src4/mol_or_rxn_count_event.h | .h | 7,499 | 263 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/world.cpp | .cpp | 38,150 | 1,089 | /******************************************************************************
*
* Copyright (C) 2019-2021 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
******... | C++ |
3D | mcellteam/mcell | src4/mcell3_world_converter.cpp | .cpp | 72,818 | 1,947 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/molecule.cpp | .cpp | 4,263 | 169 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/mol_or_rxn_count_event.cpp | .cpp | 27,976 | 863 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/release_event.h | .h | 9,650 | 303 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/diffuse_react_event.cpp | .cpp | 114,555 | 3,151 | /******************************************************************************
*
* Copyright (C) 2019,2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C++ |
3D | mcellteam/mcell | src4/bngl_exporter.cpp | .cpp | 24,033 | 660 | /******************************************************************************
*
* Copyright (C) 2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/collision_structs.h | .h | 6,684 | 244 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/region_utils.cpp | .cpp | 12,307 | 360 | /******************************************************************************
*
* Copyright (C) 2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/scheduler.cpp | .cpp | 10,658 | 362 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/collision_structs.cpp | .cpp | 3,582 | 125 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/region_expr.cpp | .cpp | 4,153 | 157 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/sort_mols_by_subpart_event.cpp | .cpp | 2,889 | 101 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | C++ |
3D | mcellteam/mcell | src4/molecule.h | .h | 8,086 | 265 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/simulation_config.h | .h | 4,566 | 142 | /******************************************************************************
*
* Copyright (C) 2019,2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
******... | Unknown |
3D | mcellteam/mcell | src4/simulation_stats.cpp | .cpp | 4,382 | 130 | /******************************************************************************
*
* Copyright (C) 2019-2021 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
******... | C++ |
3D | mcellteam/mcell | src4/simulation_config.cpp | .cpp | 5,762 | 187 | /******************************************************************************
*
* Copyright (C) 2019,2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
******... | C++ |
3D | mcellteam/mcell | src4/mol_order_shuffle_event.cpp | .cpp | 940 | 38 | /******************************************************************************
*
* Copyright (C) 2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/simulation_stats.h | .h | 3,880 | 163 | /******************************************************************************
*
* Copyright (C) 2019-2021 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
******... | Unknown |
3D | mcellteam/mcell | src4/clamp_release_event.cpp | .cpp | 7,579 | 241 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | C++ |
3D | mcellteam/mcell | src4/scheduler.h | .h | 5,859 | 198 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/bngl_exporter.h | .h | 1,407 | 58 | /******************************************************************************
*
* Copyright (C) 2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/dyn_vertex_structs.h | .h | 1,794 | 60 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/mcell3_world_converter.h | .h | 5,072 | 154 | /******************************************************************************
*
* Copyright (C) 2019 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICEN... | Unknown |
3D | mcellteam/mcell | src4/world.h | .h | 9,184 | 306 | /******************************************************************************
*
* Copyright (C) 2019-2021 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src4/grid_position.h | .h | 723 | 31 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | Unknown |
3D | mcellteam/mcell | src4/mcell4_iface_for_mcell3.cpp | .cpp | 1,230 | 45 | /******************************************************************************
*
* Copyright (C) 2020 by
* The Salk Institute for Biological Studies
*
* Use of this source code is governed by an MIT-style
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*
***********... | C++ |
3D | mcellteam/mcell | src/count_util.h | .h | 2,567 | 68 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/mcell_release.h | .h | 3,932 | 85 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/mem_util.h | .h | 4,749 | 104 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/init.c | .c | 264,480 | 6,806 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/mcell_misc.c | .c | 8,106 | 251 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/react_output.c | .c | 41,417 | 1,259 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/version.sh | .sh | 4,701 | 153 | #!/bin/sh
ESCAPESCRIPT='s/\([\\"]\)/\\\\\1/g'
####################
### Gather flex info
if test -z "${LEX}"; then
LEX="flex"
fi
LEX_PATH=`which "${LEX}" 2>/dev/null`
if test -z "${LEX_PATH}"; then
LEX="(missing)"
LEX_PATH="(flex not found)"
elif test -x "${LEX_PATH}"; then
LEX_VERSION=`${LEX} --version`
e... | Shell |
3D | mcellteam/mcell | src/config-win.h | .h | 23,541 | 739 | /******************************************************************************
*
* Copyright (C) 2006-2025 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/volume_output.c | .c | 11,006 | 362 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/strfunc.h | .h | 774 | 23 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/mcell.c | .c | 3,961 | 120 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/diffuse_trimol.c | .c | 74,933 | 1,932 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/diffuse.c | .c | 186,214 | 5,322 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/nfsim_func.c | .c | 5,611 | 160 | #include "nfsim_func.h"
#include "map_c.h"
static map_t graph_reaction_map = NULL;
void initialize_rxn_diffusion_functions(struct rxn *mol_ptr);
double get_standard_diffusion(void *self);
double get_nfsim_diffusion(void *self);
double get_standard_space_step(void *self);
double get_nfsim_space_step(void *self);
doub... | C |
3D | mcellteam/mcell | src/mcell_objects.h | .h | 5,194 | 148 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/libmcell_test.c | .c | 11,093 | 260 | #include <stdio.h>
#include <stdlib.h>
#include "mcell_structs.h"
#include "mcell_misc.h"
#include "mcell_objects.h"
#include "mcell_react_out.h"
#include "mcell_reactions.h"
#include "mcell_release.h"
#include "mcell_species.h"
#include "mcell_viz.h"
#include "mcell_surfclass.h"
#include "mcell_run.h"
#define CHECKE... | C |
3D | mcellteam/mcell | src/mcell_objects.c | .c | 47,870 | 1,447 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/react_util.c | .c | 24,719 | 630 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/react_trig_nfsim.c | .c | 16,137 | 480 | #include "config.h"
//#include "hashmap.h"
#include "map_c.h"
#include "logging.h"
#include "mcell_structs.h"
#include "nfsim_func.h"
#include "react.h"
#include "react_nfsim.h"
#include "react_util.h"
#include "sym_table.h"
#include <stdlib.h>
#include <string.h>
//#include "lru.h"
map_t reaction_map = NULL;
map_t r... | C |
3D | mcellteam/mcell | src/mcell_viz.c | .c | 8,245 | 230 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/mcell_init.h | .h | 1,765 | 55 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/react_cond.c | .c | 22,391 | 629 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/mcell_init.c | .c | 23,925 | 720 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/mcell_release.c | .c | 32,595 | 928 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
3D | mcellteam/mcell | src/mcell_viz.h | .h | 1,113 | 28 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/map_c.cpp | .cpp | 10,046 | 238 |
#include <unordered_map>
#include <boost/container/small_vector.hpp>
#include <iostream>
#include <vector>
#include "map_c.h"
#include <assert.h>
using namespace std;
const unsigned long INITIAL_SIZE = 0x4;
const unsigned long BASE_ITEMS = 0x100; // this value might need to be tweaked
const unsigned long MASK =... | C++ |
3D | mcellteam/mcell | src/version_info.h | .h | 819 | 28 | /******************************************************************************
*
* Copyright (C) 2006-2025 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | Unknown |
3D | mcellteam/mcell | src/logging.c | .c | 7,632 | 278 | /******************************************************************************
*
* Copyright (C) 2006-2017 by
* The Salk Institute for Biological Studies and
* Pittsburgh Supercomputing Center, Carnegie Mellon University
*
* Use of this source code is governed by an MIT-style
* license that can be found in the ... | C |
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