| c34103f | Marcus Brubaker | 13 February 2014, 20:24:27 UTC | Merge branch 'develop' into feature/optimized_hessian_result | 13 February 2014, 20:24:27 UTC |
| cb07d1a | Daniel Lee | 12 February 2014, 14:59:03 UTC | Merge pull request #542 from stan-dev/feature/optimize_dump_reader Speed up reading R dump formatted files | 12 February 2014, 14:59:03 UTC |
| 9329578 | Daniel Lee | 12 February 2014, 02:51:50 UTC | Merge pull request #536 from stan-dev/feature/issue-532-remove_write_csv Fixes #532. Stop using write_csv and write_csv_header during optimize. | 12 February 2014, 02:51:50 UTC |
| 316847a | Daniel Lee | 12 February 2014, 01:52:15 UTC | Merge branch 'develop' into feature/optimize_dump_reader | 12 February 2014, 01:52:15 UTC |
| 1ca971c | Daniel Lee | 12 February 2014, 00:38:38 UTC | removing last remaining call to write_csv | 12 February 2014, 00:38:38 UTC |
| 5d8700a | Daniel Lee | 12 February 2014, 00:30:58 UTC | adding optimization output test. fixed newton method so it actually runs | 12 February 2014, 00:30:58 UTC |
| 63276f5 | Daniel Lee | 11 February 2014, 19:55:39 UTC | Merge pull request #550 from stan-dev/feature/issue-549-fix-correlation_matrix_test Fixes #549. | 11 February 2014, 19:55:39 UTC |
| 00d8356 | Daniel Lee | 11 February 2014, 19:30:27 UTC | Merge branch 'develop' into feature/issue-532-remove_write_csv | 11 February 2014, 19:30:27 UTC |
| 4e1e92b | Daniel Lee | 11 February 2014, 19:18:16 UTC | fixed correlation_matrix_test.cpp | 11 February 2014, 19:18:16 UTC |
| f721823 | Daniel Lee | 11 February 2014, 19:06:36 UTC | Merge pull request #548 from stan-dev/bugfix/issue-543-grad-functional-leak Fixes #543. Bugfix/issue 543 grad functional leak | 11 February 2014, 19:06:36 UTC |
| 1863ffd | Bob Carpenter | 11 February 2014, 18:14:46 UTC | re-added memory recovery for gradient to fix issue with symplectic test | 11 February 2014, 18:14:46 UTC |
| 805245e | Bob Carpenter | 11 February 2014, 13:08:32 UTC | added apply_recover functional to autodiff to catch, recover memory, rethrow, fixing leak in #543 | 11 February 2014, 13:08:32 UTC |
| c58eabd | Bob Carpenter | 11 February 2014, 11:58:02 UTC | Merge branch 'develop' of https://github.com/stan-dev/stan into develop | 11 February 2014, 11:58:02 UTC |
| b548485 | Daniel Lee | 09 February 2014, 05:17:08 UTC | Merge pull request #545 from stan-dev/bugfix/issue-543-log-prob-grad-exception-spew Fixes #543. log prob grad exception spew | 09 February 2014, 05:17:08 UTC |
| 8283406 | Bob Carpenter | 08 February 2014, 21:24:19 UTC | fixes issue #543 | 08 February 2014, 21:24:19 UTC |
| cac6bd7 | Bob Carpenter | 08 February 2014, 19:41:55 UTC | Merge branch 'develop' of https://github.com/stan-dev/stan into develop | 08 February 2014, 19:41:55 UTC |
| 0450a81 | Daniel Lee | 07 February 2014, 00:57:01 UTC | changing command.hpp to use the write_iteration function | 07 February 2014, 00:57:01 UTC |
| eb55393 | Daniel Lee | 07 February 2014, 00:55:23 UTC | changing command.hpp to use the write_iteration function | 07 February 2014, 00:55:23 UTC |
| 196f1d0 | Daniel Lee | 07 February 2014, 00:45:52 UTC | added new functions to stan/gm/command.hpp; write_iteration_csv, write_iteration; both unit tested | 07 February 2014, 00:45:52 UTC |
| 7cfc22a | Daniel Lee | 06 February 2014, 22:58:41 UTC | Merge branch 'develop' into feature/issue-532-remove_write_csv | 06 February 2014, 22:58:41 UTC |
| 1ab0af5 | Daniel Lee | 06 February 2014, 22:57:03 UTC | Merge pull request #541 from stan-dev/feature/issue-540-fix-brittle-command-tests Fixes #540. Fix brittle command tests | 06 February 2014, 22:57:03 UTC |
| d28f298 | Daniel Lee | 06 February 2014, 22:16:07 UTC | updating command tests so they are robust to minimal changes in output | 06 February 2014, 22:16:07 UTC |
| 5864691 | Marcus Brubaker | 06 February 2014, 21:57:25 UTC | Speed up reading R dump formatted files by: - Prevent constant reallocations of std::strings - Convert to using boost::lexical_cast instead of stringstream | 06 February 2014, 21:57:25 UTC |
| 2a0d7f4 | Daniel Lee | 06 February 2014, 20:15:29 UTC | Merge pull request #526 from stan-dev/feature/issue-427 Fixes #427. Allow refresh=0 to silence all iteration output. | 06 February 2014, 20:15:29 UTC |
| 5083b3e | Daniel Lee | 06 February 2014, 19:34:28 UTC | Merge pull request #535 from stan-dev/feature/issue-534-improving-make-help Fixes #534. | 06 February 2014, 19:34:28 UTC |
| b4403e3 | Daniel Lee | 06 February 2014, 18:14:57 UTC | Merge pull request #504 from stan-dev/feature/issue_394 Fixes #394. | 06 February 2014, 18:14:57 UTC |
| 598b629 | Daniel Lee | 06 February 2014, 16:51:38 UTC | Merge pull request #349 from stan-dev/feature/add-dist-funcs Fixes #283. | 06 February 2014, 16:51:38 UTC |
| a0ca15a | Daniel Lee | 06 February 2014, 16:50:04 UTC | Merge pull request #528 from stan-dev/bugfix/issue-239-inf-vars Fixes #239. | 06 February 2014, 16:50:04 UTC |
| a373442 | Daniel Lee | 06 February 2014, 14:16:30 UTC | updating latex documentation for distance and squared_distance | 06 February 2014, 14:16:30 UTC |
| b01ccd3 | Daniel Lee | 06 February 2014, 04:40:15 UTC | removing compiler warnings from tests | 06 February 2014, 04:40:15 UTC |
| a0c3f83 | Daniel Lee | 06 February 2014, 04:36:52 UTC | Merge branch 'develop' into bugfix/issue-239-inf-vars | 06 February 2014, 04:36:52 UTC |
| 9aeafab | Daniel Lee | 06 February 2014, 04:33:08 UTC | silencing 1 doxygen warning | 06 February 2014, 04:33:08 UTC |
| b54f46e | Daniel Lee | 06 February 2014, 03:39:37 UTC | adding function signature test | 06 February 2014, 03:39:37 UTC |
| 6367006 | Daniel Lee | 06 February 2014, 03:38:15 UTC | adding function signature test | 06 February 2014, 03:38:15 UTC |
| a4f5ae3 | Daniel Lee | 06 February 2014, 03:24:42 UTC | updating function signatures order | 06 February 2014, 03:24:42 UTC |
| 0b28237 | Daniel Lee | 06 February 2014, 03:23:48 UTC | adding tests; fixed bug in templated distance function | 06 February 2014, 03:23:48 UTC |
| 86a95f7 | Daniel Lee | 06 February 2014, 01:52:16 UTC | Merge pull request #523 from stan-dev/bugfix/issue-464-diag_pre_multiply Fixes #464. | 06 February 2014, 01:52:16 UTC |
| 479e612 | Daniel Lee | 06 February 2014, 01:51:03 UTC | Merge pull request #539 from stan-dev/feature/issue-335-vect-log-prob Fixes #335. | 06 February 2014, 01:51:03 UTC |
| 848d125 | Daniel Lee | 06 February 2014, 01:49:34 UTC | Merge pull request #531 from stan-dev/bugfix/issue-476-more-catch-and-reject Fixes #476. | 06 February 2014, 01:49:34 UTC |
| b0450dd | Bob Carpenter | 05 February 2014, 16:02:31 UTC | fixes issues #335 and #533 | 05 February 2014, 16:02:31 UTC |
| c77c79c | Daniel Lee | 05 February 2014, 04:46:29 UTC | Merge branch 'develop' into feature/issue_394 | 05 February 2014, 04:46:29 UTC |
| 0db6efa | Daniel Lee | 04 February 2014, 20:59:47 UTC | adding doc for do_print(). added unit test. | 04 February 2014, 20:59:47 UTC |
| 339bca4 | Daniel Lee | 04 February 2014, 20:33:51 UTC | Merge branch 'develop' into bugfix/issue-476-more-catch-and-reject Conflicts: src/stan/gm/command.hpp src/stan/mcmc/hmc/hamiltonians/base_hamiltonian.hpp src/test/CmdStan/command_test.cpp | 04 February 2014, 20:33:51 UTC |
| bdd40b9 | Marcus Brubaker | 04 February 2014, 18:18:52 UTC | Add unit test for refresh=0 and refresh>0 | 04 February 2014, 18:18:52 UTC |
| b3d3596 | Marcus Brubaker | 04 February 2014, 17:59:16 UTC | Merge branch 'develop' into feature/issue-427 | 04 February 2014, 17:59:16 UTC |
| 4ed910c | Marcus Brubaker | 04 February 2014, 17:54:43 UTC | Stop using write_csv and write_csv_header during optimize. | 04 February 2014, 17:54:43 UTC |
| 973543e | Daniel Lee | 04 February 2014, 14:52:18 UTC | added spaces | 04 February 2014, 14:52:18 UTC |
| 6838be7 | Daniel Lee | 04 February 2014, 14:50:44 UTC | added spaces | 04 February 2014, 14:50:44 UTC |
| 0b01f5a | Daniel Lee | 04 February 2014, 14:42:27 UTC | updated make help message | 04 February 2014, 14:42:27 UTC |
| b26eb0a | Daniel Lee | 04 February 2014, 13:17:04 UTC | fixed failing test | 04 February 2014, 13:17:04 UTC |
| 8187f6c | Bob Carpenter | 04 February 2014, 12:49:31 UTC | Merge branch 'develop' of https://github.com/stan-dev/stan into develop | 04 February 2014, 12:49:31 UTC |
| 660aeef | Daniel Lee | 04 February 2014, 12:31:44 UTC | Merge pull request #459 from stan-dev/feature/uniform_autodiff_pattern Feature/uniform autodiff pattern | 04 February 2014, 12:31:44 UTC |
| 4af231a | Daniel Lee | 03 February 2014, 21:31:37 UTC | test file from Bob | 03 February 2014, 21:31:37 UTC |
| 53a508c | Daniel Lee | 03 February 2014, 20:37:43 UTC | Merge branch 'feature/issue_394' of https://github.com/stan-dev/stan into feature/issue_394 | 03 February 2014, 20:37:43 UTC |
| c1e85b5 | Daniel Lee | 02 February 2014, 17:12:04 UTC | Merge pull request #353 from stan-dev/feature/persistent_sampler Feature/persistent sampler | 02 February 2014, 17:12:04 UTC |
| 39e4457 | Bob Carpenter | 01 February 2014, 18:26:14 UTC | reordered terms in term grammar to fix issue #239 | 01 February 2014, 18:26:14 UTC |
| d93f65f | Bob Carpenter | 01 February 2014, 18:01:08 UTC | Merge branch 'develop' of https://github.com/stan-dev/stan into develop | 01 February 2014, 18:01:08 UTC |
| 3aa5836 | Marcus Brubaker | 31 January 2014, 21:25:13 UTC | Merge branch 'develop' into feature/issue-427 | 31 January 2014, 21:25:13 UTC |
| e30c116 | Daniel Lee | 31 January 2014, 04:04:13 UTC | adding test for stan/gm/command.hpp's init_adapt | 31 January 2014, 04:04:13 UTC |
| 3eaa23a | Bob Carpenter | 31 January 2014, 03:03:11 UTC | Merge pull request #525 from dchudz/patch-1 Thanks --- we'll take feedback however we can get it. This is a helpful change, so I'm merging it now. | 31 January 2014, 03:03:11 UTC |
| fd6960a | Daniel Lee | 31 January 2014, 01:32:59 UTC | Merge branch 'develop' into bugfix/issue-476-more-catch-and-reject Conflicts: src/test/CmdStan/command_test.cpp | 31 January 2014, 01:32:59 UTC |
| 9817a26 | dchudz | 31 January 2014, 01:06:22 UTC | clarify model block variable locality Something like this could be a helpful clarification -- I realize it's explained elsewhere, but "variable scope" in the "program blocks" chapter seems like a reasonable place to find this information. | 31 January 2014, 01:06:22 UTC |
| 51508f2 | Daniel Lee | 30 January 2014, 23:01:49 UTC | Merge branch 'develop' into feature/persistent_sampler Conflicts: make/tests | 30 January 2014, 23:01:49 UTC |
| decc3d9 | Daniel Lee | 30 January 2014, 22:25:01 UTC | reducing memory requirement for src/test/unit/memory/stack_alloc_test.cpp for Windows | 30 January 2014, 22:25:01 UTC |
| 65ea452 | Marcus Brubaker | 30 January 2014, 22:11:05 UTC | Allow both the estimated and analytic (or numerical) hessian to be dumped out. | 30 January 2014, 22:11:05 UTC |
| c791d28 | Marcus Brubaker | 30 January 2014, 21:13:22 UTC | Dump estimated Hessian from BFGS. | 30 January 2014, 21:13:22 UTC |
| f6f7093 | Daniel Lee | 30 January 2014, 21:05:56 UTC | Merge branch 'feature/issue_296' into develop | 30 January 2014, 21:05:56 UTC |
| b00b403 | Marcus Brubaker | 30 January 2014, 20:45:02 UTC | Add an option to output the Hessian to a file. | 30 January 2014, 20:45:02 UTC |
| 48a28bb | Marcus Brubaker | 30 January 2014, 20:30:06 UTC | Allow the BFGSMinimizer to return an estimate of the Hessian. | 30 January 2014, 20:30:06 UTC |
| ad1741f | Daniel Lee | 30 January 2014, 19:04:40 UTC | Merge branch 'develop' into feature/uniform_autodiff_pattern Conflicts: .gitignore make/tests src/test/CmdStan/command_test.cpp | 30 January 2014, 19:04:40 UTC |
| 00ae2c4 | Bob Carpenter | 30 January 2014, 19:03:11 UTC | Merge branch 'develop' of https://github.com/stan-dev/stan into develop | 30 January 2014, 19:03:11 UTC |
| cc8c485 | Daniel Lee | 30 January 2014, 16:43:52 UTC | updating unit-agrad-fwd/matrix/diag_post_multiply test | 30 January 2014, 16:43:52 UTC |
| cfa9064 | Marcus Brubaker | 30 January 2014, 16:15:37 UTC | Allow refresh=0 to silence all iteration output. | 30 January 2014, 16:15:37 UTC |
| 6be38bf | Daniel Lee | 30 January 2014, 16:05:34 UTC | Merge branch 'develop' into feature/add-dist-funcs Conflicts: src/stan/agrad/rev/matrix.hpp src/test/agrad/rev/matrix/squared_dist_test.cpp src/test/agrad/rev/matrix/squared_distance_test.cpp src/test/unit-agrad-rev/matrix/squared_dist_test.cpp src/test/unit/math/matrix/dist_test.cpp src/test/unit/math/matrix/squared_dist_test.cpp | 30 January 2014, 16:05:34 UTC |
| ef572c4 | Daniel Lee | 30 January 2014, 12:59:47 UTC | Merge pull request #505 from stan-dev/feature/issue-493-remove-test-dependency-on-compiling-grammars fixes #493. remove test dependency on compiling grammars | 30 January 2014, 12:59:47 UTC |
| 6440bc7 | Michael Betancout | 30 January 2014, 11:31:04 UTC | Use proper gradient template parameters | 30 January 2014, 11:31:04 UTC |
| b0baeba | Michael Betancout | 30 January 2014, 11:11:54 UTC | Bumped the number of parameters to skip to take into account new NUTS diagnostic | 30 January 2014, 11:11:54 UTC |
| 9dfd249 | Michael Betancout | 30 January 2014, 11:04:55 UTC | Updated signature of test implementation to restore valid compilation | 30 January 2014, 11:04:55 UTC |
| 4e657fb | Daniel Lee | 29 January 2014, 21:02:08 UTC | moving test files | 29 January 2014, 21:02:08 UTC |
| e3573df | Daniel Lee | 29 January 2014, 20:54:21 UTC | Merge branch 'develop' into bugfix/issue-464-diag_pre_multiply | 29 January 2014, 20:54:21 UTC |
| 9e2aec7 | Bob Carpenter | 24 January 2014, 21:08:27 UTC | Merge branch 'develop' of https://github.com/stan-dev/stan into develop | 24 January 2014, 21:08:27 UTC |
| bb04ae5 | Daniel Lee | 23 January 2014, 02:56:55 UTC | Merge pull request #510 from stan-dev/feature/disable-failing-model-tests Feature/disable failing model tests | 23 January 2014, 02:56:55 UTC |
| 30bd2d4 | Daniel Lee | 22 January 2014, 08:15:12 UTC | Merge pull request #509 from stan-dev/bugfix/issue-499-multinomial-rng-size Fixes #499. | 22 January 2014, 08:15:12 UTC |
| 48f10cc | Bob Carpenter | 22 January 2014, 01:42:33 UTC | fixed issue with mcmc_writer_test using char rather than string | 22 January 2014, 01:42:33 UTC |
| 5e24eeb | Bob Carpenter | 22 January 2014, 01:18:22 UTC | Merge branch 'develop' of https://github.com/stan-dev/stan into develop | 22 January 2014, 01:18:22 UTC |
| 4253b49 | Daniel Lee | 21 January 2014, 17:52:26 UTC | moved location of static pattern rule to after GRAMMAR_TESTS were defined | 21 January 2014, 17:52:26 UTC |
| ec7aa20 | Daniel Lee | 21 January 2014, 17:07:37 UTC | disabling bugs_examples/vol1/seeds test | 21 January 2014, 17:07:37 UTC |
| 1001ba1 | Daniel Lee | 21 January 2014, 16:24:37 UTC | Merge branch 'develop' into bugfix/issue-499-multinomial-rng-size | 21 January 2014, 16:24:37 UTC |
| 7d8c9b2 | Daniel Lee | 21 January 2014, 00:48:03 UTC | Merge pull request #494 from stan-dev/hotfix/v2.1.1 Fixes #472 - memory leaks | 21 January 2014, 00:48:03 UTC |
| 56998bc | Bob Carpenter | 20 January 2014, 18:19:38 UTC | removed default null character from mcmc_writer and replaced with empty string | 20 January 2014, 18:19:38 UTC |
| 13a7440 | Daniel Lee | 20 January 2014, 17:00:04 UTC | remove test dependency on compiling grammars | 20 January 2014, 17:00:04 UTC |
| 4a5a56b | Daniel Lee | 20 January 2014, 16:17:02 UTC | moving test | 20 January 2014, 16:17:02 UTC |
| 731bfd6 | Daniel Lee | 20 January 2014, 16:15:59 UTC | Merge branch 'develop' into hotfix/v2.1.1 | 20 January 2014, 16:15:59 UTC |
| 6e363f8 | Daniel Lee | 20 January 2014, 16:15:52 UTC | removing bytes_allocated function from stack_alloc. The functions that were leaking have already been patched. | 20 January 2014, 16:15:52 UTC |
| 2533d1a | betanalpha | 20 January 2014, 12:12:49 UTC | Update definition of tree depth | 20 January 2014, 12:12:49 UTC |
| 7e6eb4d | betanalpha | 20 January 2014, 09:30:45 UTC | Move from using a char prefix to string prefix | 20 January 2014, 09:30:45 UTC |
| e118a80 | Daniel Lee | 20 January 2014, 01:42:43 UTC | disabling vol3/camel and vol3/hepatitis tests | 20 January 2014, 01:42:43 UTC |
| 525fe52 | Bob Carpenter | 18 January 2014, 17:39:30 UTC | updated multinomial, fixes #499 | 18 January 2014, 17:39:30 UTC |
| 98d7ddf | Bob Carpenter | 17 January 2014, 23:20:20 UTC | added pre/post-multiply tests for agrad matrix rev | 17 January 2014, 23:20:20 UTC |
| e1e668e | Bob Carpenter | 17 January 2014, 21:51:55 UTC | added tests for pre/post multiply, fixed bug in post multiply | 17 January 2014, 21:51:55 UTC |
