1 |
2004-10-20 17:54 tim |
2 |
|
3 |
* ChangeLog, src/utils/PropertyMap.cpp, src/utils/PropertyMap.hpp, |
4 |
test/utils/GenericDataTestCase.cpp, test/utils/Makefile, |
5 |
test/utils/PropertyMapTestCase.cpp, |
6 |
test/utils/PropertyMapTestCase.hpp, test/utils/UtilTest: |
7 |
GenericData and PropertyMap pass unit test. |
8 |
|
9 |
2004-10-20 16:52 gezelter |
10 |
|
11 |
* src/UseTheForce/: DUFF.cpp, WATER.cpp, DarkSide/sticky.F90, |
12 |
DarkSide/sticky_interface.h: fixed a fortran name problem |
13 |
|
14 |
2004-10-20 16:38 tim |
15 |
|
16 |
* test/utils/: GenericData.hpp, GenericDataTestCase.cpp, |
17 |
GenericDataTestCase.hpp, Makefile, PropertyMapTestCase.hpp, |
18 |
UtilTest, UtilTest.cpp: adding generic data test case |
19 |
|
20 |
2004-10-20 16:16 chuckv |
21 |
|
22 |
* configure, ac-tools/aclocal.m4, |
23 |
src/UseTheForce/DarkSide/Makefile, |
24 |
src/UseTheForce/DarkSide/mpiSimulation.F90, |
25 |
src/UseTheForce/DarkSide/mpiSimulation_interface.h, |
26 |
src/UseTheForce/DarkSide/simParallel.F90, |
27 |
src/UseTheForce/DarkSide/simParallel_interface.h, |
28 |
src/brains/mpiSimulation.cpp, src/brains/mpiSimulation.hpp: |
29 |
Fortran/C++ interface de-obfuscation project appears to be |
30 |
complete! Woo hoo! |
31 |
|
32 |
2004-10-20 15:47 chuckv |
33 |
|
34 |
* src/UseTheForce/: fortranWrapDefines.hpp, fortranWrappers.cpp, |
35 |
fortranWrappers.hpp: Fortran/C++ interface de-obfuscation project |
36 |
continues |
37 |
|
38 |
2004-10-20 15:46 chuckv |
39 |
|
40 |
* src/: UseTheForce/DUFF.cpp, UseTheForce/EAM_FF.cpp, |
41 |
UseTheForce/ForceFields.cpp, UseTheForce/ForceFields.hpp, |
42 |
UseTheForce/LJFF.cpp, UseTheForce/Makefile, UseTheForce/WATER.cpp, |
43 |
UseTheForce/doForces_interface.h, |
44 |
UseTheForce/notifyCutoffs_interface.h, UseTheForce/wrappers.F90, |
45 |
UseTheForce/DarkSide/atype_interface.h, |
46 |
UseTheForce/DarkSide/eam_interface.h, |
47 |
UseTheForce/DarkSide/gb_interface.h, |
48 |
UseTheForce/DarkSide/mpiSimulation_interface.h, |
49 |
UseTheForce/DarkSide/shapes_interface.h, |
50 |
UseTheForce/DarkSide/simulation_interface.h, |
51 |
UseTheForce/DarkSide/sticky_interface.h, brains/ForceFields.cpp, |
52 |
brains/SimInfo.cpp, brains/SimInfo.hpp: Fortran/C++ interface |
53 |
de-obfuscation project (It is a very long story) |
54 |
|
55 |
2004-10-20 13:07 tim |
56 |
|
57 |
* ChangeLog, src/math/SquareMatrix.hpp, src/math/SquareMatrix3.hpp, |
58 |
test/math/SquareMatrix3TestCase.cpp, |
59 |
test/math/SquareMatrixTestCase.cpp, |
60 |
test/math/SquareMatrixTestCase.hpp: Math library pass the unit test |
61 |
|
62 |
2004-10-20 00:52 tim |
63 |
|
64 |
* src/brains/: Snapshot.hpp, SnapshotManager.hpp: Snapshot and |
65 |
SnapshotManager in design phase |
66 |
|
67 |
2004-10-19 23:54 gezelter |
68 |
|
69 |
* src/: brains/SimSetup.cpp, utils/StringUtils.cpp: namespace |
70 |
problem prevented linking |
71 |
|
72 |
2004-10-19 23:54 gezelter |
73 |
|
74 |
* src/UseTheForce/Shapes_FF.cpp: fixed include |
75 |
|
76 |
2004-10-19 23:26 gezelter |
77 |
|
78 |
* src/utils/: Makefile, definitions.F90, definitions_module.F90, |
79 |
oopseMPI.F90, oopseMPI_module.F90, status.F90, status_module.F90: |
80 |
more fortran name mangling |
81 |
|
82 |
2004-10-19 23:23 gezelter |
83 |
|
84 |
* src/profiling/timing.F90: yet more fortran renaming |
85 |
|
86 |
2004-10-19 23:19 gezelter |
87 |
|
88 |
* src/UseTheForce/: Makefile, doForces.F90, doForces_interface.h, |
89 |
do_Forces.F90, do_Forces.h, notifyCutoffs.F90, |
90 |
notifyCutoffs_interface.h, notifycutoffs_module_interface.h, |
91 |
wrappers.F90: Fortran name cleanup continues |
92 |
|
93 |
2004-10-19 23:12 gezelter |
94 |
|
95 |
* src/UseTheForce/DarkSide/: atype.F90, simulation.F90: fixing some |
96 |
broken fortran stuff |
97 |
|
98 |
2004-10-19 23:02 gezelter |
99 |
|
100 |
* src/UseTheForce/DarkSide/: LJ.F90, Makefile, atype.F90, |
101 |
atype_interface.h, atype_module.F90, atype_module_interface.h, |
102 |
calc_LJ_FF.F90, calc_charge_charge.F90, calc_dipole_dipole.F90, |
103 |
calc_eam.F90, calc_gb.F90, calc_reaction_field.F90, |
104 |
calc_shapes.F90, calc_sticky_pair.F90, charge.F90, dipole.F90, |
105 |
eam.F90, eam_interface.h, eam_module_inteface.h, gb.F90, |
106 |
gb_interface.h, gb_module_interface.h, mpiSimulation.F90, |
107 |
mpiSimulation_interface.h, mpiSimulation_module.F90, |
108 |
mpisimulation_module_interface.h, reactionField.F90, shapes.F90, |
109 |
shapes_interface.h, shapes_module.h, simulation.F90, |
110 |
simulation_interface.h, simulation_module.F90, |
111 |
simulation_module_interface.h, sticky.F90, sticky_interface.h, |
112 |
sticky_pair_module_interface.h, switch_module.F90, switcheroo.F90: |
113 |
name sanity on the fortran side |
114 |
|
115 |
2004-10-19 19:18 tim |
116 |
|
117 |
* test/math/SquareMatrix3TestCase.hpp: [no log message] |
118 |
|
119 |
2004-10-19 18:01 tim |
120 |
|
121 |
* src/math/RectMatrix.hpp, src/math/SquareMatrix.hpp, |
122 |
src/math/SquareMatrix3.hpp, test/math/SquareMatrix3TestCase.cpp: |
123 |
except diagonalize(), all of functions in math library pass the |
124 |
test |
125 |
|
126 |
2004-10-19 17:43 chuckv |
127 |
|
128 |
* src/UseTheForce/do_Forces.h: Added correct prototypes for |
129 |
C-fortran interface functions. |
130 |
|
131 |
2004-10-19 17:37 chuckv |
132 |
|
133 |
* src/UseTheForce/DarkSide/: atype_module_interface.h, |
134 |
eam_module_inteface.h, gb_module_interface.h, |
135 |
mpisimulation_module_interface.h, simulation_module_interface.h, |
136 |
sticky_pair_module_interface.h: Added correct prototypes for |
137 |
C-fortran interface functions. |
138 |
|
139 |
2004-10-19 16:28 tim |
140 |
|
141 |
* ChangeLog, src/math/Quaternion.hpp, src/math/RectMatrix.hpp, |
142 |
src/math/SquareMatrix.hpp, src/math/Vector.hpp, |
143 |
test/math/QuaternionTestCase.cpp, test/math/QuaternionTestCase.hpp, |
144 |
test/math/RectMatrixTestCase.cpp, |
145 |
test/math/SquareMatrix3TestCase.cpp, test/math/Vector3TestCase.cpp, |
146 |
test/math/Vector3TestCase.hpp, test/math/VectorTestCase.cpp: more |
147 |
bugs get fixed at math library |
148 |
|
149 |
2004-10-19 15:43 chuckv |
150 |
|
151 |
* src/UseTheForce/: DarkSide/atype_module_interface.h, |
152 |
DarkSide/eam_module_inteface.h, DarkSide/gb_module_interface.h, |
153 |
DarkSide/mpisimulation_module_interface.h, |
154 |
DarkSide/simulation_module_interface.h, |
155 |
DarkSide/sticky_pair_module_interface.h, DarkSide/calc_eam.F90, |
156 |
DarkSide/atype_module.F90, DarkSide/calc_gb.F90, |
157 |
DarkSide/calc_sticky_pair.F90, DarkSide/mpiSimulation_module.F90, |
158 |
DarkSide/simulation_module.F90, do_Forces.F90, |
159 |
fortranWrapDefines.hpp, mpiComponentPlan.h, notifyCutoffs.F90, |
160 |
notifycutoffs_module_interface.h: Added new files for fortran |
161 |
interface. |
162 |
|
163 |
2004-10-19 15:43 gezelter |
164 |
|
165 |
* src/UseTheForce/Makefile: regressing |
166 |
|
167 |
2004-10-19 15:40 gezelter |
168 |
|
169 |
* src/: UseTheForce/DarkSide/calc_shapes.F90, |
170 |
UseTheForce/DarkSide/shapes_module.h, utils/StringUtils.cpp: |
171 |
working on shapes for portability |
172 |
|
173 |
2004-10-19 15:40 gezelter |
174 |
|
175 |
* src/UseTheForce/: Makefile, Shapes_FF.cpp: working on shapes |
176 |
|
177 |
2004-10-19 13:21 chrisfen |
178 |
|
179 |
* src/utils/: StringUtils.cpp, StringUtils.hpp: changed around |
180 |
findBegin |
181 |
|
182 |
2004-10-18 23:34 tim |
183 |
|
184 |
* src/math/Vector.hpp, test/math/RectMatrixTestCase.cpp: more bugs |
185 |
are fixed in Vector class |
186 |
|
187 |
2004-10-18 23:28 tim |
188 |
|
189 |
* test/math/: RectMatrixTestCase.cpp, RectMatrixTestCase.hpp: fix |
190 |
some bugs in RectMatrixTestCase |
191 |
|
192 |
2004-10-18 23:21 tim |
193 |
|
194 |
* src/math/Vector.hpp, test/math/RectMatrixTestCase.cpp, |
195 |
test/math/RectMatrixTestCase.hpp, test/math/Vector3TestCase.cpp, |
196 |
test/math/Vector3TestCase.hpp, test/math/VectorTestCase.cpp, |
197 |
test/math/VectorTestCase.hpp: implement more test cases |
198 |
|
199 |
2004-10-18 18:13 tim |
200 |
|
201 |
* ChangeLog, make/Doxyfile, src/math/Matrix3x3d.hpp, |
202 |
src/math/RectMatrix.hpp, src/math/SquareMatrix.hpp, |
203 |
src/math/SquareMatrix3.hpp, src/math/Vector.hpp, |
204 |
src/utils/StringTokenizer.hpp, test/math/Makefile, |
205 |
test/math/VectorTestCase.cpp, test/math/VectorTestCase.hpp: more |
206 |
tests on math library |
207 |
|
208 |
2004-10-18 16:03 tim |
209 |
|
210 |
* test/math/: Makefile, QuaternionTestCase.cpp, |
211 |
QuaternionTestCase.hpp, RectMatrixTestCase.cpp, |
212 |
SquareMatrix3TestCase.cpp, Vector3TestCase.cpp, |
213 |
Vector3TestCase.hpp, VectorTestCase.cpp, VectorTestCase.hpp: adding |
214 |
more testing units |
215 |
|
216 |
2004-10-18 12:07 tim |
217 |
|
218 |
* src/: brains/SimSetup.hpp, io/FileReader.hpp, math/Euler3.cpp, |
219 |
math/Euler3.hpp, math/Quaternion.hpp, math/SquareMatrix3.hpp, |
220 |
math/Vector3.hpp, types/ShapeType.cpp, types/ShapeType.hpp, |
221 |
utils/GenericFactory.hpp: fix some bugs in Quaternion class |
222 |
|
223 |
2004-10-18 11:30 gezelter |
224 |
|
225 |
* src/math/: RealSphericalHarmonic.cpp, RealSphericalHarmonic.hpp: |
226 |
Your basic run of the mill real-valued versions of Y_l^m(\theta, |
227 |
\phi) |
228 |
|
229 |
2004-10-18 11:29 gezelter |
230 |
|
231 |
* src/: math/Makefile, math/Matrix3x3d.hpp, math/Vector3.hpp, |
232 |
types/Makefile, types/ShapeType.cpp, types/ShapeType.hpp, |
233 |
utils/StringUtils.cpp, utils/StringUtils.hpp: Working on getting |
234 |
Shapes into OOPSE |
235 |
|
236 |
2004-10-18 10:21 gezelter |
237 |
|
238 |
* src/types/: ShapeType.cpp, ShapeType.hpp: Added ShapeType |
239 |
|
240 |
2004-10-18 00:23 tim |
241 |
|
242 |
* test/math/VectorTestCase.hpp: adding vector test case |
243 |
|
244 |
2004-10-18 00:23 tim |
245 |
|
246 |
* src/utils/GenericFactory.hpp: adding generic factory and vector |
247 |
test case |
248 |
|
249 |
2004-10-16 20:19 tim |
250 |
|
251 |
* src/math/: Quaternion.hpp, RectMatrix.hpp, SquareMatrix.hpp, |
252 |
SquareMatrix3.hpp, Vector.hpp, Vector3.hpp: math library in |
253 |
progress |
254 |
|
255 |
2004-10-15 20:31 tim |
256 |
|
257 |
* src/math/Quaternion.hpp: add quaternion class |
258 |
|
259 |
2004-10-15 16:11 tim |
260 |
|
261 |
* test/io/: DUFF.frc, IfstrstreamTestCase.cpp, |
262 |
IfstrstreamTestCase.hpp: adding test file |
263 |
|
264 |
2004-10-15 16:10 tim |
265 |
|
266 |
* src/io/basic_ifstrstream.hpp: fix a bunch of bugs |
267 |
|
268 |
2004-10-15 15:42 tim |
269 |
|
270 |
* src/io/basic_ifstrstream.hpp: change const_cast to statc_const |
271 |
|
272 |
2004-10-15 15:35 tim |
273 |
|
274 |
* src/io/basic_ifstrstream.hpp: fix a bug in basic_ifstrstream.hpp |
275 |
|
276 |
2004-10-15 15:34 tim |
277 |
|
278 |
* test/io/: IfstrstreamTestCase.cpp, Makefile: forget to use |
279 |
namespace oopse |
280 |
|
281 |
2004-10-15 14:38 chuckv |
282 |
|
283 |
* configure, ac-tools/aclocal.m4: Changed optimization flags for |
284 |
XLF and XLC. |
285 |
|
286 |
2004-10-15 13:28 tim |
287 |
|
288 |
* test/io/: IfstrstreamTestCase.cpp, IfstrstreamTestCase.hpp: |
289 |
adding ifstrstream test case |
290 |
|
291 |
2004-10-15 13:20 tim |
292 |
|
293 |
* src/io/basic_ifstrstream.hpp: fix include |
294 |
|
295 |
2004-10-15 13:18 tim |
296 |
|
297 |
* src/math/SquareMatrix.hpp: fix incompatible declaration in jacobi |
298 |
|
299 |
2004-10-15 13:17 tim |
300 |
|
301 |
* test/math/: Makefile, RectMatrixTestCase.cpp: adding Makefile |
302 |
|
303 |
2004-10-15 13:16 tim |
304 |
|
305 |
* test/io/: Makefile, ifstrstreamTestCase.cpp, |
306 |
ifstrstreamTestCase.hpp: adding test case for ifstrstream |
307 |
|
308 |
2004-10-15 10:37 tim |
309 |
|
310 |
* test/io/: IOTest.cpp, ifstrstreamTestCase.cpp, |
311 |
ifstrstreamTestCase.hpp: add ifstrstreamTestCase |
312 |
|
313 |
2004-10-15 10:20 tim |
314 |
|
315 |
* src/io/basic_ifstrstream.hpp: add checkFilename Option |
316 |
|
317 |
2004-10-15 10:19 tim |
318 |
|
319 |
* test/math/: RectMatrixTestCase.cpp, RectMatrixTestCase.hpp, |
320 |
SquareMatrixTestCase.cpp, SquareMatrixTestCase.hpp: add |
321 |
SquareMatrixTestCase class |
322 |
|
323 |
2004-10-15 02:52 tim |
324 |
|
325 |
* src/io/basic_ifstrstream.hpp: adding basic_ifstrstream |
326 |
|
327 |
2004-10-14 18:28 tim |
328 |
|
329 |
* src/math/: RectMatrix.hpp, SquareMatrix.hpp, SquareMatrix3.hpp, |
330 |
Vector.hpp: math library in progress |
331 |
|
332 |
2004-10-14 18:27 tim |
333 |
|
334 |
* src/io/FileReader.hpp: FileReader in progress |
335 |
|
336 |
2004-10-13 18:53 tim |
337 |
|
338 |
* src/math/: RectMatrix.hpp, SquareMatrix.hpp: Matrix in progress, |
339 |
test in isOrthogonal of SquareMatrix is failed by some reasons |
340 |
|
341 |
2004-10-13 17:28 tim |
342 |
|
343 |
* src/utils/: PropertyMap.cpp, PropertyMap.hpp: adding PropertyMap |
344 |
class |
345 |
|
346 |
2004-10-13 17:27 tim |
347 |
|
348 |
* test/math/: MainTest.cpp, RectMatrixTestCase.cpp, |
349 |
RectMatrixTestCase.hpp: adding testing unit |
350 |
|
351 |
2004-10-13 17:24 tim |
352 |
|
353 |
* src/math/: RectMatrix.hpp, Vector.hpp: adding RectMatrix |
354 |
|
355 |
2004-10-13 01:51 tim |
356 |
|
357 |
* src/math/: SquareMatrix.hpp, SquareMatrix3.hpp, Vector.hpp, |
358 |
Vector3.hpp: refactory vector and matrix classes |
359 |
|
360 |
2004-10-13 01:50 tim |
361 |
|
362 |
* src/math/Vector3d.hpp: Remove some Makefile.in |
363 |
|
364 |
2004-10-12 18:57 tim |
365 |
|
366 |
* src/math/: Matrix3x3d.hpp, Vector3d.hpp: add Vector3d.hpp and |
367 |
Matrix3x3d.hpp |
368 |
|
369 |
2004-10-12 14:08 tim |
370 |
|
371 |
* doc/: cppstyle.html, style.css: adding c++ coding style |
372 |
|
373 |
2004-10-11 17:15 tim |
374 |
|
375 |
* src/: constraints/AbstractClasses.hpp, |
376 |
integrators/AbstractClasses.hpp, primitives/AbstractClasses.hpp: |
377 |
change #include "mpi.h" to #include <mpi.h> in AbstractClasses.hpp |
378 |
|
379 |
2004-10-11 16:54 tim |
380 |
|
381 |
* scripts/filepp: fix a bug in filepp |
382 |
|
383 |
2004-10-11 16:13 tim |
384 |
|
385 |
* make/Makefile.in: using filepp to generate dependencies instead |
386 |
of compilers |
387 |
|
388 |
2004-10-11 16:10 tim |
389 |
|
390 |
* scripts/filepp: filepp can be used to generate dependencies for |
391 |
c/c++ now |
392 |
|
393 |
2004-10-11 13:40 tim |
394 |
|
395 |
* make/Makefile.in: remove -module from F90Options |
396 |
|
397 |
2004-10-11 13:01 tim |
398 |
|
399 |
* make/Makefile.in: adding rules to move fortran 90 module to |
400 |
target directory |
401 |
|
402 |
2004-10-11 10:43 gezelter |
403 |
|
404 |
* make/Makefile.in: fixed makefile.in |
405 |
|
406 |
2004-10-11 09:51 tim |
407 |
|
408 |
* scripts/filepp: remove "use bytes" which causes problem in sgi |
409 |
machine |
410 |
|
411 |
2004-10-11 09:26 tim |
412 |
|
413 |
* forceFields/Makefile: add Makefile |
414 |
|
415 |
2004-10-11 09:23 tim |
416 |
|
417 |
* samples/: water/dimer/Makefile, water/spce/Makefile, |
418 |
water/ssd/Makefile, water/ssde/Makefile, water/tip3p_ice/Makefile, |
419 |
water/tip4p/Makefile, zcons/Makefile: fix Makefile under water |
420 |
directory |
421 |
|
422 |
2004-10-11 09:23 tim |
423 |
|
424 |
* samples/argon/Makefile: remove argon.dump and argon.eor from |
425 |
Makefile |
426 |
|
427 |
2004-10-09 01:01 tim |
428 |
|
429 |
* samples/: alkane/Makefile.in, argon/Makefile.in, |
430 |
lipid/Makefile.in, metals/Makefile.in, minimizer/Makefile.in: |
431 |
Remove some Makefile.in |
432 |
|
433 |
2004-10-08 18:15 tim |
434 |
|
435 |
* make/Makefile.in: [no log message] |
436 |
|
437 |
2004-10-08 17:51 tim |
438 |
|
439 |
* make/Makefile.in: fix make install |
440 |
|
441 |
2004-10-08 17:10 tim |
442 |
|
443 |
* make/Makefile.in: adding make install |
444 |
|
445 |
2004-10-08 17:04 tim |
446 |
|
447 |
* samples/: alkane/Makefile, argon/Makefile, lipid/Makefile, |
448 |
metals/Makefile, minimizer/Makefile, water/Makefile.in, |
449 |
water/dimer/Makefile, water/dimer/Makefile.in, water/spce/Makefile, |
450 |
water/spce/Makefile.in, water/ssd/Makefile, water/ssd/Makefile.in, |
451 |
water/ssde/Makefile, water/ssde/Makefile.in, |
452 |
water/tip3p_ice/Makefile, water/tip3p_ice/Makefile.in, |
453 |
water/tip4p/Makefile, water/tip4p/Makefile.in, zcons/Makefile, |
454 |
zcons/Makefile.in: add Makefile to sample directory |
455 |
|
456 |
2004-10-06 18:03 gezelter |
457 |
|
458 |
* src/utils/: getopt.c, getopt1.c, gnugetopt.h: moved the getopt |
459 |
stuff |
460 |
|
461 |
2004-10-06 18:03 gezelter |
462 |
|
463 |
* configure, ac-tools/aclocal.m4, ac-tools/configure.in, |
464 |
make/Doxyfile, src/applications/getopt.c, |
465 |
src/applications/getopt1.c, src/applications/gnugetopt.h: more |
466 |
build fixes |
467 |
|
468 |
2004-10-06 17:20 tim |
469 |
|
470 |
* make/: Doxyfile, Makefile.in: adding doxygen configuration file |
471 |
|
472 |
2004-10-06 17:19 tim |
473 |
|
474 |
* scripts/filepp: filepp can handle different fortran module case |
475 |
and suffix |
476 |
|
477 |
2004-10-06 16:27 gezelter |
478 |
|
479 |
* src/restraints/Restraints.cpp: Chris doesn't know about the |
480 |
OOPSE-2.0 directory structure yet |
481 |
|
482 |
2004-10-06 16:27 gezelter |
483 |
|
484 |
* ChangeLog: Yeah yeah, we'lll get around to it later |
485 |
|
486 |
2004-10-06 16:22 gezelter |
487 |
|
488 |
* configure, ac-tools/configure.in, ac-tools/fortran90.m4, |
489 |
make/Makefile.in: cleaning up build process |
490 |
|
491 |
2004-10-06 15:01 chrisfen |
492 |
|
493 |
* src/restraints/Restraints.cpp: made the file reading in |
494 |
restraints more intelligent - no longer gives uninformative seg |
495 |
faults |
496 |
|
497 |
2004-10-06 14:55 gezelter |
498 |
|
499 |
* src/applications/simpleBuilder/Make.ftemp.old: cleaning up |
500 |
|
501 |
2004-10-06 14:51 gezelter |
502 |
|
503 |
* LICENSE, MPIobj/dummy, make/Makefile, obj/dummy, |
504 |
scripts/cleanSrc, src/brains/Makedepend: Cleaning up a bit |
505 |
|
506 |
2004-10-06 13:53 tim |
507 |
|
508 |
* make/: Makefile, Makefile.in: fix make statistics |
509 |
|
510 |
2004-10-06 13:18 tim |
511 |
|
512 |
* make/: Makefile, Makefile.in: adding GNU make functions to |
513 |
combine all of the static libraries to a big library |
514 |
|
515 |
2004-10-05 17:57 tim |
516 |
|
517 |
* make/: Makefile, Makefile.in: adding shared library flag |
518 |
|
519 |
2004-10-05 14:37 tim |
520 |
|
521 |
* src/: Makefile, UseTheForce/Makefile, |
522 |
UseTheForce/mpiSimulation_module.F90, |
523 |
UseTheForce/DarkSide/Makefile, |
524 |
UseTheForce/DarkSide/mpiSimulation_module.F90, math/Makefile: move |
525 |
mpiSimulation_module to DarkSide |
526 |
|
527 |
2004-10-05 14:35 tim |
528 |
|
529 |
* make/: Makefile, Makefile.in: building MPI version;using static |
530 |
library instead of shared library |
531 |
|
532 |
2004-10-05 09:14 tim |
533 |
|
534 |
* make/: Makefile, Makefile.in: pass __FORTRAN90 instead of __F90 |
535 |
to filepp |
536 |
|
537 |
2004-10-04 15:56 tim |
538 |
|
539 |
* make/: Makefile, Makefile.in: add make cvslog |
540 |
|
541 |
2004-10-04 11:24 gezelter |
542 |
|
543 |
* make/: Makefile, Makefile.in: more work on the parallel build |
544 |
|
545 |
2004-10-04 11:06 gezelter |
546 |
|
547 |
* make/: Makefile, Makefile.in: changes to backport declare flags |
548 |
|
549 |
2004-10-04 10:27 gezelter |
550 |
|
551 |
* src/UseTheForce/: ForceFields.hpp, Shapes_FF.cpp, |
552 |
DarkSide/Makefile, DarkSide/calc_shapes.F90: Started work merging |
553 |
shapes |
554 |
|
555 |
2004-10-01 23:40 tim |
556 |
|
557 |
* scripts/: filepp, sfmakedepend: remove sfmakedepend from cvs tree |
558 |
|
559 |
2004-10-01 23:22 tim |
560 |
|
561 |
* make/: Makefile, Makefile.in: add oopse_ as library prefix |
562 |
|
563 |
2004-10-01 16:59 tim |
564 |
|
565 |
* make/: Makefile, Makefile.in: fix a space trimming bug in filepp |
566 |
|
567 |
2004-10-01 16:22 gezelter |
568 |
|
569 |
* Makefile, ac-tools/aclocal.m4, make/Makefile, make/Makefile.in: A |
570 |
few minor build changes |
571 |
|
572 |
2004-10-01 16:11 tim |
573 |
|
574 |
* scripts/filepp: adding fortran90 make dependency tool |
575 |
|
576 |
2004-09-30 10:41 tim |
577 |
|
578 |
* make/: Makefile, Makefile.in: make clean is smart enough to only |
579 |
remove object files belong to current package. turn off silent |
580 |
mode |
581 |
|
582 |
2004-09-29 16:55 tim |
583 |
|
584 |
* src/: Makefile, UseTheForce/Makefile, |
585 |
UseTheForce/DarkSide/Makefile, applications/dump2Xyz/Makefile, |
586 |
applications/oopse/Makefile, applications/simpleBuilder/Makefile, |
587 |
brains/Makedepend, brains/Makefile, constraints/Makefile, |
588 |
integrators/Makefile, io/Makefile, math/Makefile, |
589 |
minimizers/Makefile, primitives/Makefile, profiling/Makefile, |
590 |
restraints/Makefile, types/Makefile, utils/Makefile, |
591 |
visitors/Makefile: define DEV_ROOT as relative path |
592 |
|
593 |
2004-09-29 16:54 tim |
594 |
|
595 |
* make/: Makefile, Makefile.in: get the relative path by shell |
596 |
script |
597 |
|
598 |
2004-09-29 16:32 tim |
599 |
|
600 |
* make/Makefile: eliminate DEV_ROOT by relative path |
601 |
|
602 |
2004-09-29 13:37 tim |
603 |
|
604 |
* make/Makefile.in: add PackageLibs; fix dependency rule |
605 |
|
606 |
2004-09-29 12:57 gezelter |
607 |
|
608 |
* configure, ac-tools/configure.in: updates |
609 |
|
610 |
2004-09-29 12:56 gezelter |
611 |
|
612 |
* make/: Make.conf.in, Makefile.in: Working on make stuff |
613 |
|
614 |
2004-09-29 12:46 tim |
615 |
|
616 |
* Makefile: If makefile does not exist, print error message |
617 |
|
618 |
2004-09-29 12:12 tim |
619 |
|
620 |
* make/: Make.conf.in, Makefile: fix dependencies rule |
621 |
|
622 |
2004-09-29 10:58 gezelter |
623 |
|
624 |
* Makefile, make/Makefile: still working on build process |
625 |
|
626 |
2004-09-29 10:00 tim |
627 |
|
628 |
* make/Makefile: add print statment to rules |
629 |
|
630 |
2004-09-29 09:59 tim |
631 |
|
632 |
* src/: UseTheForce/Makefile, UseTheForce/DarkSide/Makefile, |
633 |
applications/dump2Xyz/Makefile, applications/oopse/Makefile, |
634 |
applications/simpleBuilder/Makefile, brains/Makefile, |
635 |
constraints/Makefile, integrators/Makefile, io/Makefile, |
636 |
math/Makefile, minimizers/Makefile, primitives/Makefile, |
637 |
profiling/Makefile, restraints/Makefile, types/Makefile, |
638 |
utils/Makefile, visitors/Makefile: change Makefile to relative path |
639 |
|
640 |
2004-09-28 21:55 tim |
641 |
|
642 |
* src/utils/: StringUtils.c, StringUtils.h: remove StringUtils.c |
643 |
which cause headache in bulding libutils |
644 |
|
645 |
2004-09-28 18:24 tim |
646 |
|
647 |
* src/applications/: BaseLattice.cpp, BaseLattice.hpp, |
648 |
Dump2XYZ.cpp, Dump2XYZ.ggo, Dump2XYZCmd.c, Dump2XYZCmd.h, |
649 |
Lattice.cpp, Lattice.hpp, LatticeCreator.cpp, LatticeCreator.hpp, |
650 |
LatticeFactory.cpp, LatticeFactory.hpp, MoLocator.cpp, |
651 |
MoLocator.hpp, Vector3d.hpp, cmdline.c, cmdline.h, nanoBuilder.cpp, |
652 |
nanoBuilder.hpp, oopse.cpp, simpleBuilder.cpp, simpleBuilder.ggo, |
653 |
simpleBuilderCmd.c, simpleBuilderCmd.h, dump2Xyz/Dump2XYZ.cpp, |
654 |
dump2Xyz/Dump2XYZ.ggo, dump2Xyz/Dump2XYZCmd.c, |
655 |
dump2Xyz/Dump2XYZCmd.h, dump2Xyz/Makefile, oopse/Makefile, |
656 |
oopse/oopse.cpp, simpleBuilder/BaseLattice.cpp, |
657 |
simpleBuilder/BaseLattice.hpp, simpleBuilder/Lattice.cpp, |
658 |
simpleBuilder/Lattice.hpp, simpleBuilder/LatticeCreator.cpp, |
659 |
simpleBuilder/LatticeCreator.hpp, simpleBuilder/LatticeFactory.cpp, |
660 |
simpleBuilder/LatticeFactory.hpp, simpleBuilder/Make.ftemp.old, |
661 |
simpleBuilder/Makefile, simpleBuilder/MoLocator.cpp, |
662 |
simpleBuilder/MoLocator.hpp, simpleBuilder/Vector3d.hpp, |
663 |
simpleBuilder/simpleBuilder.cpp, simpleBuilder/simpleBuilder.ggo, |
664 |
simpleBuilder/simpleBuilderCmd.c, simpleBuilder/simpleBuilderCmd.h: |
665 |
change directory structure of application. Every executable file is |
666 |
replaced in seperate directory |
667 |
|
668 |
2004-09-28 17:15 gezelter |
669 |
|
670 |
* lib/dummy: Keep that lib around, please. |
671 |
|
672 |
2004-09-28 17:14 gezelter |
673 |
|
674 |
* Makefile, configure, ac-tools/configure.in, make/Make.conf.in: |
675 |
starting a configure version |
676 |
|
677 |
2004-09-28 16:08 tim |
678 |
|
679 |
* src/: UseTheForce/Makefile, UseTheForce/notifyCutoffs.F90, |
680 |
UseTheForce/DarkSide/Makefile, |
681 |
UseTheForce/DarkSide/notifyCutoffs.F90, |
682 |
UseTheForce/DarkSide/simulation_module.F90, brains/Makedepend, |
683 |
brains/Makefile, brains/simulation_module.F90: move fortran files |
684 |
around to solve dependency problem |
685 |
|
686 |
2004-09-28 15:43 tim |
687 |
|
688 |
* Makefile, src/UseTheForce/ForceFields.hpp, |
689 |
src/UseTheForce/Makefile, src/applications/BaseLattice.hpp, |
690 |
src/applications/Makedepend, src/applications/Makefile, |
691 |
src/brains/Makedepend, src/brains/simulation_module.F90, |
692 |
src/integrators/AllIntegrator.hpp, src/math/Euler3.cpp, |
693 |
src/math/Makefile, src/minimizers/OOPSEMinimizer.cpp, |
694 |
src/utils/Makefile: [no log message] |
695 |
|
696 |
2004-09-28 15:41 tim |
697 |
|
698 |
* make/Makefile, scripts/sfmakedepend: fix fortran dependency |
699 |
problem |
700 |
|
701 |
2004-09-28 11:13 tim |
702 |
|
703 |
* make/Makefile, src/io/BASSlex.l, src/io/BASSyacc.y, |
704 |
src/io/Makefile: add yacc and lex rules |
705 |
|
706 |
2004-09-27 15:24 tim |
707 |
|
708 |
* make/Makefile: adding include path to F90Options |
709 |
|
710 |
2004-09-27 15:13 tim |
711 |
|
712 |
* make/Makefile: change suffix from .cc to .cpp |
713 |
|
714 |
2004-09-24 11:27 tim |
715 |
|
716 |
* src/: UseTheForce/DUFF.cpp, UseTheForce/EAM_FF.cpp, |
717 |
UseTheForce/ForceFields.cpp, UseTheForce/ForceFields.hpp, |
718 |
UseTheForce/LJFF.cpp, UseTheForce/WATER.cpp, |
719 |
UseTheForce/do_Forces.F90, UseTheForce/fortranWrapDefines.hpp, |
720 |
UseTheForce/fortranWrappers.cpp, UseTheForce/fortranWrappers.hpp, |
721 |
UseTheForce/mpiForceField.c, UseTheForce/mpiSimulation_module.F90, |
722 |
UseTheForce/DarkSide/calc_LJ_FF.F90, |
723 |
UseTheForce/DarkSide/notifyCutoffs.F90, |
724 |
UseTheForce/DarkSide/switch_module.F90, |
725 |
applications/BaseLattice.cpp, applications/Dump2XYZ.cpp, |
726 |
applications/Dump2XYZCmd.c, applications/Lattice.cpp, |
727 |
applications/Lattice.hpp, applications/LatticeCreator.cpp, |
728 |
applications/LatticeCreator.hpp, applications/LatticeFactory.cpp, |
729 |
applications/MoLocator.cpp, applications/MoLocator.hpp, |
730 |
applications/cmdline.c, applications/nanoBuilder.cpp, |
731 |
applications/oopse.cpp, applications/simpleBuilder.cpp, |
732 |
applications/simpleBuilderCmd.c, brains/Exclude.cpp, |
733 |
brains/ForceFields.cpp, brains/SimInfo.cpp, brains/SimInfo.hpp, |
734 |
brains/SimSetup.cpp, brains/SimSetup.hpp, brains/SimState.cpp, |
735 |
brains/SkipList.cpp, brains/Thermo.cpp, brains/Thermo.hpp, |
736 |
brains/mpiSimulation.cpp, brains/mpiSimulation.hpp, |
737 |
constraints/AbstractClasses.hpp, constraints/ZConstraint.cpp, |
738 |
integrators/AbstractClasses.hpp, integrators/Integrator.cpp, |
739 |
integrators/Integrator.hpp, integrators/NPT.cpp, |
740 |
integrators/NPTf.cpp, integrators/NPTi.cpp, integrators/NPTxyz.cpp, |
741 |
integrators/NVT.cpp, io/BASS_interface.cpp, io/BASS_parse.c, |
742 |
io/DumpReader.cpp, io/DumpWriter.cpp, io/Globals.cpp, |
743 |
io/Globals.hpp, io/InitializeFromFile.cpp, io/LinkedAssign.cpp, |
744 |
io/LinkedCommand.cpp, io/ReadWrite.hpp, io/StatWriter.cpp, |
745 |
io/ZConsReader.cpp, io/ZConsReader.hpp, io/ZConsWriter.cpp, |
746 |
io/ZConsWriter.hpp, io/interface.c, io/make_nodes.c, |
747 |
io/make_nodes.h, io/mpiBASS.c, io/mpiBASS.h, io/parse_interface.h, |
748 |
io/parse_tree.c, io/parse_tree.h, math/Euler3.cpp, math/MatVec3.c, |
749 |
math/MatVec3.h, math/randomSPRNG.cpp, |
750 |
minimizers/CGFamilyMinimizer.cpp, minimizers/OOPSEMinimizer.cpp, |
751 |
minimizers/OOPSEMinimizer.hpp, minimizers/PRCG.cpp, |
752 |
minimizers/SDMinimizer.cpp, primitives/AbstractClasses.hpp, |
753 |
primitives/Atom.cpp, primitives/Atom.hpp, primitives/Bend.cpp, |
754 |
primitives/BendExtensions.cpp, primitives/Bond.cpp, |
755 |
primitives/BondExtensions.cpp, primitives/CutoffGroup.hpp, |
756 |
primitives/DirectionalAtom.cpp, primitives/DirectionalAtom.hpp, |
757 |
primitives/GhostBend.cpp, primitives/Molecule.cpp, |
758 |
primitives/Molecule.hpp, primitives/RigidBody.cpp, |
759 |
primitives/RigidBody.hpp, primitives/SRI.hpp, |
760 |
primitives/StuntDouble.cpp, primitives/StuntDouble.hpp, |
761 |
primitives/Torsion.cpp, primitives/TorsionExtensions.cpp, |
762 |
profiling/mdProfile.cpp, restraints/Restraints.cpp, |
763 |
restraints/Restraints.hpp, types/AtomStamp.cpp, |
764 |
types/AtomStamp.hpp, types/BendStamp.cpp, types/BendStamp.hpp, |
765 |
types/BondStamp.cpp, types/BondStamp.hpp, types/Component.cpp, |
766 |
types/CutoffGroupStamp.cpp, types/CutoffGroupStamp.hpp, |
767 |
types/MakeStamps.cpp, types/MakeStamps.hpp, |
768 |
types/MoleculeStamp.cpp, types/MoleculeStamp.hpp, |
769 |
types/RigidBodyStamp.cpp, types/RigidBodyStamp.hpp, |
770 |
types/TorsionStamp.cpp, types/TorsionStamp.hpp, |
771 |
types/ZconStamp.cpp, types/ZconStamp.hpp, utils/GenericData.cpp, |
772 |
utils/StreamTokenizer.cpp, utils/StringUtils.c, |
773 |
utils/StringUtils.cpp, utils/Utility.cpp, utils/fError.c, |
774 |
utils/simError.c, visitors/AtomVisitor.cpp, |
775 |
visitors/AtomVisitor.hpp, visitors/CompositeVisitor.cpp, |
776 |
visitors/CompositeVisitor.hpp, visitors/OtherVisitor.cpp, |
777 |
visitors/OtherVisitor.hpp, visitors/RigidBodyVisitor.cpp, |
778 |
visitors/RigidBodyVisitor.hpp, visitors/ZconsVisitor.cpp, |
779 |
visitors/ZconsVisitor.hpp: change the #include in source files |
780 |
|
781 |
2004-09-23 23:16 gezelter |
782 |
|
783 |
* AUTHORS, ChangeLog, LICENSE, Makefile, README, configure, |
784 |
src/Makefile, src/config.h.in, src/constraints/AbstractClasses.hpp, |
785 |
src/constraints/Makefile, src/constraints/ZConstraint.cpp, |
786 |
src/UseTheForce/DUFF.cpp, src/UseTheForce/EAM_FF.cpp, |
787 |
src/UseTheForce/ForceFields.cpp, src/UseTheForce/ForceFields.hpp, |
788 |
src/UseTheForce/LJFF.cpp, src/UseTheForce/Makefile, |
789 |
src/UseTheForce/WATER.cpp, src/UseTheForce/do_Forces.F90, |
790 |
src/UseTheForce/fForceField.h, |
791 |
src/UseTheForce/fSwitchingFunction.h, |
792 |
src/UseTheForce/fortranWrapDefines.hpp, |
793 |
src/UseTheForce/fortranWrappers.cpp, |
794 |
src/UseTheForce/fortranWrappers.hpp, |
795 |
src/UseTheForce/mpiComponentPlan.h, |
796 |
src/UseTheForce/mpiForceField.c, src/UseTheForce/mpiForceField.h, |
797 |
src/UseTheForce/mpiSimulation_module.F90, |
798 |
src/UseTheForce/wrappers.F90, src/UseTheForce/DarkSide/Makefile, |
799 |
src/UseTheForce/DarkSide/atype_module.F90, |
800 |
src/UseTheForce/DarkSide/calc_LJ_FF.F90, |
801 |
src/UseTheForce/DarkSide/calc_charge_charge.F90, |
802 |
src/UseTheForce/DarkSide/calc_dipole_dipole.F90, |
803 |
src/UseTheForce/DarkSide/calc_eam.F90, |
804 |
src/UseTheForce/DarkSide/calc_gb.F90, |
805 |
src/UseTheForce/DarkSide/calc_reaction_field.F90, |
806 |
src/UseTheForce/DarkSide/calc_sticky_pair.F90, |
807 |
src/UseTheForce/DarkSide/force_globals.F90, |
808 |
src/UseTheForce/DarkSide/neighborLists.F90, |
809 |
src/UseTheForce/DarkSide/notifyCutoffs.F90, |
810 |
src/UseTheForce/DarkSide/switch_module.F90, |
811 |
src/io/BASS_interface.h, src/io/BASS_parse.c, src/io/BASS_parse.h, |
812 |
src/io/BASSlex.l, src/io/BASSyacc.y, src/io/DumpReader.cpp, |
813 |
src/io/DumpWriter.cpp, src/io/Globals.cpp, |
814 |
src/io/InitializeFromFile.cpp, src/io/LinkedAssign.hpp, |
815 |
src/io/LinkedCommand.cpp, src/io/LinkedCommand.hpp, |
816 |
src/io/Makefile, src/io/ReadWrite.hpp, src/io/StatWriter.cpp, |
817 |
src/io/ZConsReader.hpp, src/io/ZConsWriter.cpp, |
818 |
src/io/ZConsWriter.hpp, src/io/interface.c, src/io/make_nodes.c, |
819 |
src/io/make_nodes.h, src/io/mpiBASS.c, src/io/mpiBASS.h, |
820 |
src/io/node_list.h, src/io/parse_interface.h, src/io/parse_me.h, |
821 |
src/io/parse_tree.c, src/io/parse_tree.h, src/types/AtomStamp.cpp, |
822 |
src/types/AtomStamp.hpp, src/types/BendStamp.cpp, |
823 |
src/types/BendStamp.hpp, src/types/BondStamp.cpp, |
824 |
src/types/BondStamp.hpp, src/types/Component.cpp, |
825 |
src/types/Component.hpp, src/types/CutoffGroupStamp.cpp, |
826 |
src/types/CutoffGroupStamp.hpp, src/types/MakeStamps.cpp, |
827 |
src/types/MakeStamps.hpp, src/types/Makefile, |
828 |
src/types/MoleculeStamp.cpp, src/types/MoleculeStamp.hpp, |
829 |
src/types/RigidBodyStamp.cpp, src/types/RigidBodyStamp.hpp, |
830 |
src/types/TorsionStamp.cpp, src/types/TorsionStamp.hpp, |
831 |
src/types/ZconStamp.cpp, src/types/ZconStamp.hpp, |
832 |
src/applications/simpleBuilderCmd.h, src/brains/Exclude.cpp, |
833 |
src/brains/Exclude.hpp, src/brains/ForceFields.cpp, |
834 |
src/brains/Makedepend, src/brains/Makefile, src/brains/SimInfo.cpp, |
835 |
src/brains/SimInfo.hpp, src/brains/SimSetup.cpp, |
836 |
src/brains/SimSetup.hpp, src/brains/SimState.cpp, |
837 |
src/brains/SimState.hpp, src/brains/SkipList.cpp, |
838 |
src/brains/SkipList.hpp, src/brains/Thermo.cpp, |
839 |
src/brains/Thermo.hpp, src/brains/fSimulation.h, |
840 |
src/brains/mpiSimulation.cpp, src/brains/mpiSimulation.hpp, |
841 |
src/brains/simulation_module.F90, src/io/BASS_interface.cpp, |
842 |
src/io/Globals.hpp, src/io/LinkedAssign.cpp, |
843 |
src/io/ZConsReader.cpp, src/math/Euler3.cpp, src/math/Euler3.hpp, |
844 |
src/math/Makefile, src/math/MatVec3.c, src/math/MatVec3.h, |
845 |
src/math/mt19937ar.c, src/math/randomSPRNG.cpp, |
846 |
src/math/randomSPRNG.hpp, src/minimizers/CGFamilyMinimizer.cpp, |
847 |
src/minimizers/Makefile, src/minimizers/MinimizerParameterSet.hpp, |
848 |
src/minimizers/OOPSEMinimizer.cpp, |
849 |
src/minimizers/OOPSEMinimizer.hpp, src/minimizers/PRCG.cpp, |
850 |
src/minimizers/SDMinimizer.cpp, src/primitives/AbstractClasses.hpp, |
851 |
src/primitives/Atom.cpp, src/primitives/Atom.hpp, |
852 |
src/primitives/Bend.cpp, src/primitives/BendExtensions.cpp, |
853 |
src/primitives/Bond.cpp, src/primitives/BondExtensions.cpp, |
854 |
src/primitives/CutoffGroup.hpp, src/primitives/DirectionalAtom.cpp, |
855 |
src/primitives/DirectionalAtom.hpp, src/primitives/GhostBend.cpp, |
856 |
src/primitives/Makefile, src/primitives/Molecule.cpp, |
857 |
src/primitives/Molecule.hpp, src/primitives/RigidBody.cpp, |
858 |
src/primitives/RigidBody.hpp, src/primitives/SRI.hpp, |
859 |
src/primitives/StuntDouble.cpp, src/primitives/StuntDouble.hpp, |
860 |
src/primitives/Torsion.cpp, src/primitives/TorsionExtensions.cpp, |
861 |
src/restraints/Makefile, src/restraints/Restraints.cpp, |
862 |
src/restraints/Restraints.hpp, src/utils/GenericData.cpp, |
863 |
src/utils/GenericData.hpp, src/utils/Makefile, |
864 |
src/utils/StreamTokenizer.cpp, src/utils/StreamTokenizer.hpp, |
865 |
src/utils/StringUtils.c, src/utils/StringUtils.cpp, |
866 |
src/utils/StringUtils.h, src/utils/StringUtils.hpp, |
867 |
src/utils/TypeInfo.hpp, src/utils/Utility.cpp, |
868 |
src/utils/Utility.hpp, src/utils/definitions_module.F90, |
869 |
src/utils/fError.c, src/utils/oopseMPI_module.F90, |
870 |
src/utils/simError.c, src/utils/simError.h, |
871 |
src/utils/status_module.F90, src/utils/vector_class.F90, |
872 |
src/visitors/AtomVisitor.cpp, src/visitors/AtomVisitor.hpp, |
873 |
src/visitors/BaseVisitor.hpp, src/visitors/CompositeVisitor.cpp, |
874 |
src/visitors/CompositeVisitor.hpp, src/visitors/Makefile, |
875 |
src/visitors/OtherVisitor.cpp, src/visitors/OtherVisitor.hpp, |
876 |
src/visitors/RigidBodyVisitor.cpp, |
877 |
src/visitors/RigidBodyVisitor.hpp, src/visitors/ZconsVisitor.cpp, |
878 |
src/visitors/ZconsVisitor.hpp, make/Makefile, samples/Makefile.in, |
879 |
samples/metals/Au-Core-Ag-Shell_Nanoparticle.in, |
880 |
samples/metals/Au-Core-Ag-Shell_Nanoparticle.md, |
881 |
samples/metals/Au_bulk_FBD.md, samples/metals/Au_bulk_voter.md, |
882 |
samples/metals/Au_nanoparticle.md, samples/metals/Makefile.in, |
883 |
samples/zcons/Makefile.in, samples/zcons/water.md, |
884 |
samples/zcons/zconsFixed.in, samples/zcons/zconsFixed.md, |
885 |
samples/zcons/zconsMoving.in, samples/zcons/zconsMoving.md, |
886 |
src/applications/BaseLattice.cpp, src/applications/BaseLattice.hpp, |
887 |
src/applications/Dump2XYZ.cpp, src/applications/Dump2XYZ.ggo, |
888 |
src/applications/Dump2XYZCmd.c, src/applications/Dump2XYZCmd.h, |
889 |
src/applications/Lattice.cpp, src/applications/Lattice.hpp, |
890 |
src/applications/LatticeCreator.cpp, |
891 |
src/applications/LatticeCreator.hpp, |
892 |
src/applications/LatticeFactory.cpp, |
893 |
src/applications/LatticeFactory.hpp, src/applications/Makedepend, |
894 |
src/applications/Makefile, src/applications/MoLocator.cpp, |
895 |
src/applications/MoLocator.hpp, src/applications/Vector3d.hpp, |
896 |
src/applications/cmdline.c, src/applications/cmdline.h, |
897 |
src/applications/getopt.c, src/applications/getopt1.c, |
898 |
src/applications/gnugetopt.h, src/applications/nanoBuilder.cpp, |
899 |
src/applications/nanoBuilder.hpp, src/applications/oopse.cpp, |
900 |
src/applications/quickLate.c, src/applications/simpleBuilder.cpp, |
901 |
src/applications/simpleBuilder.ggo, |
902 |
src/applications/simpleBuilderCmd.c, |
903 |
src/integrators/AbstractClasses.hpp, |
904 |
src/integrators/AllIntegrator.hpp, src/integrators/Integrator.cpp, |
905 |
src/integrators/Integrator.hpp, src/integrators/Makefile, |
906 |
src/integrators/NPT.cpp, src/integrators/NPTf.cpp, |
907 |
src/integrators/NPTi.cpp, src/integrators/NPTxyz.cpp, |
908 |
src/integrators/NVT.cpp, src/profiling/Makefile, |
909 |
src/profiling/mdProfile.cpp, src/profiling/mdProfile.hpp, |
910 |
src/profiling/timing.F90, samples/metals/Au_bulk.in, |
911 |
samples/metals/Au_nanoparticle.in, samples/metals/metals.md, |
912 |
samples/water/Makefile.in, samples/water/dimer/Makefile.in, |
913 |
samples/water/dimer/two.in, samples/water/dimer/two.md, |
914 |
samples/water/dimer/water.md, samples/water/spce/Makefile.in, |
915 |
samples/water/spce/spce.in, samples/water/spce/spce.md, |
916 |
samples/water/spce/water.md, samples/water/ssde/Makefile.in, |
917 |
samples/water/ssde/ssde.in, samples/water/ssde/ssde.md, |
918 |
samples/water/ssde/water.md, samples/water/tip3p_ice/Makefile.in, |
919 |
samples/water/tip3p_ice/tp3.in, samples/water/tip3p_ice/tp3.md, |
920 |
samples/water/tip3p_ice/water.md, samples/water/ssd/Makefile.in, |
921 |
samples/water/ssd/ssd.in, samples/water/ssd/ssd.md, |
922 |
samples/water/ssd/water.md, samples/water/tip4p/tp4.in, |
923 |
samples/water/tip4p/tp4.md, samples/water/tip4p/water.md, |
924 |
samples/alkane/Makefile.in, samples/alkane/alkanes.md, |
925 |
samples/alkane/butane.in, samples/alkane/butane.md, |
926 |
samples/argon/500.in, samples/argon/500.md, |
927 |
samples/argon/Makefile.in, samples/argon/ar864.in, |
928 |
samples/argon/ar864.md, samples/argon/argonNVT.in, |
929 |
samples/argon/argonNVT.md, samples/argon/lj.md, |
930 |
samples/lipid/5x5.in, samples/lipid/5x5.md, |
931 |
samples/lipid/Makefile.in, samples/lipid/lipid.md, |
932 |
samples/lipid/water.md, samples/minimizer/Makefile.in, |
933 |
samples/minimizer/WATER.frc, samples/minimizer/ssdEM.in, |
934 |
samples/minimizer/ssdEM.md, samples/minimizer/tip4p_two.in, |
935 |
samples/minimizer/tip4p_two.md, samples/minimizer/water.md, |
936 |
samples/water/tip4p/Makefile.in, forceFields/Ag.VC.funcfl, |
937 |
forceFields/Ag.u3.funcfl, forceFields/Ag.u6.funcfl, |
938 |
forceFields/Au.u6.funcfl, forceFields/Cu.VC.funcfl, |
939 |
forceFields/Cu.u3.funcfl, forceFields/Cu.u6.funcfl, |
940 |
forceFields/DUFF.frc, forceFields/DipoleTest.frc, |
941 |
forceFields/EAM.VC.frc, forceFields/EAM.frc, |
942 |
forceFields/EAM.u3.frc, forceFields/EAM.u6.frc, |
943 |
forceFields/Makefile.in, forceFields/Ni.u3.funcfl, |
944 |
forceFields/Ni.u6.funcfl, forceFields/Pd.VC.funcfl, |
945 |
forceFields/Pd.u6.funcfl, forceFields/Pt.u3.funcfl, |
946 |
forceFields/Pt.u6.funcfl, forceFields/WATER.frc, scripts/cleanSrc, |
947 |
scripts/cvs2cl.pl, scripts/makers, scripts/sfmakedepend, |
948 |
ac-tools/Make.conf.in, ac-tools/aclocal.m4, ac-tools/config.guess, |
949 |
ac-tools/config.sub, ac-tools/configure.in, ac-tools/fortran90.m4, |
950 |
ac-tools/install-sh, ac-tools/shtool, doc/OOPSE.pdf, |
951 |
forceFields/Al.VC.funcfl, forceFields/Au.VC.funcfl, |
952 |
forceFields/Au.u3.funcfl, forceFields/LJFF.frc, |
953 |
forceFields/Ni.VC.funcfl, forceFields/Pd.u3.funcfl, |
954 |
forceFields/Pt.VC.funcfl: Import of OOPSE v. 2.0 |
955 |
|
956 |
2004-09-23 23:16 gezelter |
957 |
|
958 |
* AUTHORS, ChangeLog, LICENSE, Makefile, README, configure, |
959 |
src/Makefile, src/config.h.in, src/constraints/AbstractClasses.hpp, |
960 |
src/constraints/Makefile, src/constraints/ZConstraint.cpp, |
961 |
src/UseTheForce/DUFF.cpp, src/UseTheForce/EAM_FF.cpp, |
962 |
src/UseTheForce/ForceFields.cpp, src/UseTheForce/ForceFields.hpp, |
963 |
src/UseTheForce/LJFF.cpp, src/UseTheForce/Makefile, |
964 |
src/UseTheForce/WATER.cpp, src/UseTheForce/do_Forces.F90, |
965 |
src/UseTheForce/fForceField.h, |
966 |
src/UseTheForce/fSwitchingFunction.h, |
967 |
src/UseTheForce/fortranWrapDefines.hpp, |
968 |
src/UseTheForce/fortranWrappers.cpp, |
969 |
src/UseTheForce/fortranWrappers.hpp, |
970 |
src/UseTheForce/mpiComponentPlan.h, |
971 |
src/UseTheForce/mpiForceField.c, src/UseTheForce/mpiForceField.h, |
972 |
src/UseTheForce/mpiSimulation_module.F90, |
973 |
src/UseTheForce/wrappers.F90, src/UseTheForce/DarkSide/Makefile, |
974 |
src/UseTheForce/DarkSide/atype_module.F90, |
975 |
src/UseTheForce/DarkSide/calc_LJ_FF.F90, |
976 |
src/UseTheForce/DarkSide/calc_charge_charge.F90, |
977 |
src/UseTheForce/DarkSide/calc_dipole_dipole.F90, |
978 |
src/UseTheForce/DarkSide/calc_eam.F90, |
979 |
src/UseTheForce/DarkSide/calc_gb.F90, |
980 |
src/UseTheForce/DarkSide/calc_reaction_field.F90, |
981 |
src/UseTheForce/DarkSide/calc_sticky_pair.F90, |
982 |
src/UseTheForce/DarkSide/force_globals.F90, |
983 |
src/UseTheForce/DarkSide/neighborLists.F90, |
984 |
src/UseTheForce/DarkSide/notifyCutoffs.F90, |
985 |
src/UseTheForce/DarkSide/switch_module.F90, |
986 |
src/io/BASS_interface.h, src/io/BASS_parse.c, src/io/BASS_parse.h, |
987 |
src/io/BASSlex.l, src/io/BASSyacc.y, src/io/DumpReader.cpp, |
988 |
src/io/DumpWriter.cpp, src/io/Globals.cpp, |
989 |
src/io/InitializeFromFile.cpp, src/io/LinkedAssign.hpp, |
990 |
src/io/LinkedCommand.cpp, src/io/LinkedCommand.hpp, |
991 |
src/io/Makefile, src/io/ReadWrite.hpp, src/io/StatWriter.cpp, |
992 |
src/io/ZConsReader.hpp, src/io/ZConsWriter.cpp, |
993 |
src/io/ZConsWriter.hpp, src/io/interface.c, src/io/make_nodes.c, |
994 |
src/io/make_nodes.h, src/io/mpiBASS.c, src/io/mpiBASS.h, |
995 |
src/io/node_list.h, src/io/parse_interface.h, src/io/parse_me.h, |
996 |
src/io/parse_tree.c, src/io/parse_tree.h, src/types/AtomStamp.cpp, |
997 |
src/types/AtomStamp.hpp, src/types/BendStamp.cpp, |
998 |
src/types/BendStamp.hpp, src/types/BondStamp.cpp, |
999 |
src/types/BondStamp.hpp, src/types/Component.cpp, |
1000 |
src/types/Component.hpp, src/types/CutoffGroupStamp.cpp, |
1001 |
src/types/CutoffGroupStamp.hpp, src/types/MakeStamps.cpp, |
1002 |
src/types/MakeStamps.hpp, src/types/Makefile, |
1003 |
src/types/MoleculeStamp.cpp, src/types/MoleculeStamp.hpp, |
1004 |
src/types/RigidBodyStamp.cpp, src/types/RigidBodyStamp.hpp, |
1005 |
src/types/TorsionStamp.cpp, src/types/TorsionStamp.hpp, |
1006 |
src/types/ZconStamp.cpp, src/types/ZconStamp.hpp, |
1007 |
src/applications/simpleBuilderCmd.h, src/brains/Exclude.cpp, |
1008 |
src/brains/Exclude.hpp, src/brains/ForceFields.cpp, |
1009 |
src/brains/Makedepend, src/brains/Makefile, src/brains/SimInfo.cpp, |
1010 |
src/brains/SimInfo.hpp, src/brains/SimSetup.cpp, |
1011 |
src/brains/SimSetup.hpp, src/brains/SimState.cpp, |
1012 |
src/brains/SimState.hpp, src/brains/SkipList.cpp, |
1013 |
src/brains/SkipList.hpp, src/brains/Thermo.cpp, |
1014 |
src/brains/Thermo.hpp, src/brains/fSimulation.h, |
1015 |
src/brains/mpiSimulation.cpp, src/brains/mpiSimulation.hpp, |
1016 |
src/brains/simulation_module.F90, src/io/BASS_interface.cpp, |
1017 |
src/io/Globals.hpp, src/io/LinkedAssign.cpp, |
1018 |
src/io/ZConsReader.cpp, src/math/Euler3.cpp, src/math/Euler3.hpp, |
1019 |
src/math/Makefile, src/math/MatVec3.c, src/math/MatVec3.h, |
1020 |
src/math/mt19937ar.c, src/math/randomSPRNG.cpp, |
1021 |
src/math/randomSPRNG.hpp, src/minimizers/CGFamilyMinimizer.cpp, |
1022 |
src/minimizers/Makefile, src/minimizers/MinimizerParameterSet.hpp, |
1023 |
src/minimizers/OOPSEMinimizer.cpp, |
1024 |
src/minimizers/OOPSEMinimizer.hpp, src/minimizers/PRCG.cpp, |
1025 |
src/minimizers/SDMinimizer.cpp, src/primitives/AbstractClasses.hpp, |
1026 |
src/primitives/Atom.cpp, src/primitives/Atom.hpp, |
1027 |
src/primitives/Bend.cpp, src/primitives/BendExtensions.cpp, |
1028 |
src/primitives/Bond.cpp, src/primitives/BondExtensions.cpp, |
1029 |
src/primitives/CutoffGroup.hpp, src/primitives/DirectionalAtom.cpp, |
1030 |
src/primitives/DirectionalAtom.hpp, src/primitives/GhostBend.cpp, |
1031 |
src/primitives/Makefile, src/primitives/Molecule.cpp, |
1032 |
src/primitives/Molecule.hpp, src/primitives/RigidBody.cpp, |
1033 |
src/primitives/RigidBody.hpp, src/primitives/SRI.hpp, |
1034 |
src/primitives/StuntDouble.cpp, src/primitives/StuntDouble.hpp, |
1035 |
src/primitives/Torsion.cpp, src/primitives/TorsionExtensions.cpp, |
1036 |
src/restraints/Makefile, src/restraints/Restraints.cpp, |
1037 |
src/restraints/Restraints.hpp, src/utils/GenericData.cpp, |
1038 |
src/utils/GenericData.hpp, src/utils/Makefile, |
1039 |
src/utils/StreamTokenizer.cpp, src/utils/StreamTokenizer.hpp, |
1040 |
src/utils/StringUtils.c, src/utils/StringUtils.cpp, |
1041 |
src/utils/StringUtils.h, src/utils/StringUtils.hpp, |
1042 |
src/utils/TypeInfo.hpp, src/utils/Utility.cpp, |
1043 |
src/utils/Utility.hpp, src/utils/definitions_module.F90, |
1044 |
src/utils/fError.c, src/utils/oopseMPI_module.F90, |
1045 |
src/utils/simError.c, src/utils/simError.h, |
1046 |
src/utils/status_module.F90, src/utils/vector_class.F90, |
1047 |
src/visitors/AtomVisitor.cpp, src/visitors/AtomVisitor.hpp, |
1048 |
src/visitors/BaseVisitor.hpp, src/visitors/CompositeVisitor.cpp, |
1049 |
src/visitors/CompositeVisitor.hpp, src/visitors/Makefile, |
1050 |
src/visitors/OtherVisitor.cpp, src/visitors/OtherVisitor.hpp, |
1051 |
src/visitors/RigidBodyVisitor.cpp, |
1052 |
src/visitors/RigidBodyVisitor.hpp, src/visitors/ZconsVisitor.cpp, |
1053 |
src/visitors/ZconsVisitor.hpp, make/Makefile, samples/Makefile.in, |
1054 |
samples/metals/Au-Core-Ag-Shell_Nanoparticle.in, |
1055 |
samples/metals/Au-Core-Ag-Shell_Nanoparticle.md, |
1056 |
samples/metals/Au_bulk_FBD.md, samples/metals/Au_bulk_voter.md, |
1057 |
samples/metals/Au_nanoparticle.md, samples/metals/Makefile.in, |
1058 |
samples/zcons/Makefile.in, samples/zcons/water.md, |
1059 |
samples/zcons/zconsFixed.in, samples/zcons/zconsFixed.md, |
1060 |
samples/zcons/zconsMoving.in, samples/zcons/zconsMoving.md, |
1061 |
src/applications/BaseLattice.cpp, src/applications/BaseLattice.hpp, |
1062 |
src/applications/Dump2XYZ.cpp, src/applications/Dump2XYZ.ggo, |
1063 |
src/applications/Dump2XYZCmd.c, src/applications/Dump2XYZCmd.h, |
1064 |
src/applications/Lattice.cpp, src/applications/Lattice.hpp, |
1065 |
src/applications/LatticeCreator.cpp, |
1066 |
src/applications/LatticeCreator.hpp, |
1067 |
src/applications/LatticeFactory.cpp, |
1068 |
src/applications/LatticeFactory.hpp, src/applications/Makedepend, |
1069 |
src/applications/Makefile, src/applications/MoLocator.cpp, |
1070 |
src/applications/MoLocator.hpp, src/applications/Vector3d.hpp, |
1071 |
src/applications/cmdline.c, src/applications/cmdline.h, |
1072 |
src/applications/getopt.c, src/applications/getopt1.c, |
1073 |
src/applications/gnugetopt.h, src/applications/nanoBuilder.cpp, |
1074 |
src/applications/nanoBuilder.hpp, src/applications/oopse.cpp, |
1075 |
src/applications/quickLate.c, src/applications/simpleBuilder.cpp, |
1076 |
src/applications/simpleBuilder.ggo, |
1077 |
src/applications/simpleBuilderCmd.c, |
1078 |
src/integrators/AbstractClasses.hpp, |
1079 |
src/integrators/AllIntegrator.hpp, src/integrators/Integrator.cpp, |
1080 |
src/integrators/Integrator.hpp, src/integrators/Makefile, |
1081 |
src/integrators/NPT.cpp, src/integrators/NPTf.cpp, |
1082 |
src/integrators/NPTi.cpp, src/integrators/NPTxyz.cpp, |
1083 |
src/integrators/NVT.cpp, src/profiling/Makefile, |
1084 |
src/profiling/mdProfile.cpp, src/profiling/mdProfile.hpp, |
1085 |
src/profiling/timing.F90, samples/metals/Au_bulk.in, |
1086 |
samples/metals/Au_nanoparticle.in, samples/metals/metals.md, |
1087 |
samples/water/Makefile.in, samples/water/dimer/Makefile.in, |
1088 |
samples/water/dimer/two.in, samples/water/dimer/two.md, |
1089 |
samples/water/dimer/water.md, samples/water/spce/Makefile.in, |
1090 |
samples/water/spce/spce.in, samples/water/spce/spce.md, |
1091 |
samples/water/spce/water.md, samples/water/ssde/Makefile.in, |
1092 |
samples/water/ssde/ssde.in, samples/water/ssde/ssde.md, |
1093 |
samples/water/ssde/water.md, samples/water/tip3p_ice/Makefile.in, |
1094 |
samples/water/tip3p_ice/tp3.in, samples/water/tip3p_ice/tp3.md, |
1095 |
samples/water/tip3p_ice/water.md, samples/water/ssd/Makefile.in, |
1096 |
samples/water/ssd/ssd.in, samples/water/ssd/ssd.md, |
1097 |
samples/water/ssd/water.md, samples/water/tip4p/tp4.in, |
1098 |
samples/water/tip4p/tp4.md, samples/water/tip4p/water.md, |
1099 |
samples/alkane/Makefile.in, samples/alkane/alkanes.md, |
1100 |
samples/alkane/butane.in, samples/alkane/butane.md, |
1101 |
samples/argon/500.in, samples/argon/500.md, |
1102 |
samples/argon/Makefile.in, samples/argon/ar864.in, |
1103 |
samples/argon/ar864.md, samples/argon/argonNVT.in, |
1104 |
samples/argon/argonNVT.md, samples/argon/lj.md, |
1105 |
samples/lipid/5x5.in, samples/lipid/5x5.md, |
1106 |
samples/lipid/Makefile.in, samples/lipid/lipid.md, |
1107 |
samples/lipid/water.md, samples/minimizer/Makefile.in, |
1108 |
samples/minimizer/WATER.frc, samples/minimizer/ssdEM.in, |
1109 |
samples/minimizer/ssdEM.md, samples/minimizer/tip4p_two.in, |
1110 |
samples/minimizer/tip4p_two.md, samples/minimizer/water.md, |
1111 |
samples/water/tip4p/Makefile.in, forceFields/Ag.VC.funcfl, |
1112 |
forceFields/Ag.u3.funcfl, forceFields/Ag.u6.funcfl, |
1113 |
forceFields/Au.u6.funcfl, forceFields/Cu.VC.funcfl, |
1114 |
forceFields/Cu.u3.funcfl, forceFields/Cu.u6.funcfl, |
1115 |
forceFields/DUFF.frc, forceFields/DipoleTest.frc, |
1116 |
forceFields/EAM.VC.frc, forceFields/EAM.frc, |
1117 |
forceFields/EAM.u3.frc, forceFields/EAM.u6.frc, |
1118 |
forceFields/Makefile.in, forceFields/Ni.u3.funcfl, |
1119 |
forceFields/Ni.u6.funcfl, forceFields/Pd.VC.funcfl, |
1120 |
forceFields/Pd.u6.funcfl, forceFields/Pt.u3.funcfl, |
1121 |
forceFields/Pt.u6.funcfl, forceFields/WATER.frc, scripts/cleanSrc, |
1122 |
scripts/cvs2cl.pl, scripts/makers, scripts/sfmakedepend, |
1123 |
ac-tools/Make.conf.in, ac-tools/aclocal.m4, ac-tools/config.guess, |
1124 |
ac-tools/config.sub, ac-tools/configure.in, ac-tools/fortran90.m4, |
1125 |
ac-tools/install-sh, ac-tools/shtool, doc/OOPSE.pdf, |
1126 |
forceFields/Al.VC.funcfl, forceFields/Au.VC.funcfl, |
1127 |
forceFields/Au.u3.funcfl, forceFields/LJFF.frc, |
1128 |
forceFields/Ni.VC.funcfl, forceFields/Pd.u3.funcfl, |
1129 |
forceFields/Pt.VC.funcfl: Initial revision |
1130 |
|