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Author SHA1 Message Date
Tiago Gomes af6601837c size_t invasion 2012-05-24 22:55:20 +01:00
Tiago Gomes 5124098b6c delete unused code 2012-05-24 16:21:41 +01:00
Tiago Gomes acc5ab056a some refactorings 2012-05-24 16:14:13 +01:00
Tiago Gomes 444eaacc63 add operators to manipulate vectors of parameters 2012-05-24 14:55:30 +01:00
Tiago Gomes 6cb718942a some renamings 2012-05-23 21:23:03 +01:00
Tiago Gomes d91e91b97e prefix calls to c++ functions with cpp_ 2012-05-23 20:34:57 +01:00
Tiago Gomes 2b896aecb4 add examples to the Makefile 2012-05-23 19:59:40 +01:00
Tiago Gomes 9f236dccdd rename bp.yap and fove.yap 2012-05-23 19:15:23 +01:00
Tiago Gomes cf929b6f13 Merge branch 'master' of ssh://yap.git.sourceforge.net/gitroot/yap/yap-6.3 2012-05-23 17:59:26 +01:00
Tiago Gomes c04082dc2e move benchmarks one level up 2012-05-23 17:27:21 +01:00
Tiago Gomes 3890aafc1a update examples 2012-05-23 17:17:50 +01:00
Tiago Gomes bdef49bb20 remove city old example 2012-05-23 15:57:00 +01:00
Tiago Gomes efec94adff remove two unnecessary files 2012-05-23 15:55:39 +01:00
Tiago Gomes 584e363aa1 move graphical model examples 2012-05-23 15:48:03 +01:00
Tiago Gomes 5b38891c21 third try ... 2012-05-23 14:58:26 +01:00
Tiago Gomes 6c77afb3ae ok, second try 2012-05-23 14:56:01 +01:00
Tiago Gomes a4d181eb97 update benchmarks 2012-05-23 12:40:34 +01:00
Tiago Gomes 7c3e4ed3ab improve log information 2012-05-23 12:26:14 +01:00
Vitor Santos Costa 9e3d16022a fix YAP_AttOfVar 
beautify get atts
 2012-05-21 17:24:40 +01:00
Tiago Gomes 16cb48fea4 decrease the time required to find an elimination order 2012-05-17 17:29:31 +01:00
Vítor Santos Costa d68ef3f5a1 fix empty tries. 2012-05-17 09:56:49 +01:00
Tiago Gomes cf9a7f1413 show the maximum memory used in the benchmarks 2012-05-16 12:31:58 +01:00
Tiago Gomes 5934d9efe9 update TODO 2012-05-16 00:44:59 +01:00
Tiago Gomes 23b180b6f0 merge TinySet and SortedVector classes 2012-05-16 00:41:01 +01:00
Tiago Gomes 354071c261 update scripts 2012-05-15 20:14:13 +01:00
Tiago Gomes f7ba86d3ed kill Util::abort, s/vectorIndex/indexOf and s/isCarteesianProduct/isCartesianProduct 2012-05-15 19:41:14 +01:00
Tiago Gomes db0d2c9772 refactor and increase the scope of parfactor multiplication 2012-05-15 19:05:39 +01:00
Tiago Gomes f4bca3ceea factor overflow will not happen with bp 2012-05-15 19:02:40 +01:00
Tiago Gomes 7ec4887e77 refactor printing of a parfactor 2012-05-15 16:57:50 +01:00
Tiago Gomes 346b70145f improvements on shattering 2012-05-15 16:52:21 +01:00
Tiago Gomes 90e139f8f3 refactor ProbFormula comparation operator 2012-05-15 16:49:34 +01:00
Tiago Gomes 03f9df7dc3 fix a bug when checking of a set of log vars form a cartesian product 2012-05-15 16:46:21 +01:00
Tiago Gomes 1380adcfb5 support getting tuples of repeated log vars 2012-05-15 16:45:24 +01:00
Tiago Gomes 2061eefda2 add a way to copy a log var 2012-05-15 16:43:32 +01:00
Vitor Santos Costa 6c36a8ccd3 make it easier for outside packages to link with YAP innards. 2012-05-14 15:06:18 +01:00
Tiago Gomes 4ade4945a0 improve Util::abort 2012-05-07 17:52:47 +01:00
Tiago Gomes aeb07d43a7 add two more utility functions 2012-05-07 17:48:15 +01:00
Tiago Gomes 9d5801ef7f ony summout a group of rand vars if they not appear in another position on the parfactor 2012-05-05 23:11:32 +01:00
Tiago Gomes 8e75ef3073 shatter parfactors also against themselves 2012-05-05 21:06:27 +01:00
Tiago Gomes 660e15e2ac update the overflow check in factors, still needs more work tbd 2012-05-04 14:28:07 +01:00
Tiago Gomes 0e01a51929 remove commented code and fix a warning 2012-05-04 14:10:00 +01:00
Tiago Gomes 35d0804f9a update TODO 2012-05-03 13:15:33 +01:00
Tiago Gomes 10ac7720f7 update smokers examples 2012-05-03 11:38:49 +01:00
Tiago Gomes 2bef3f6866 minor updates 2012-05-03 00:56:19 +01:00
Vítor Santos Costa 9b0b6ec649 fix stop_low_level_trace. 
P Moura request for (?).
 2012-05-02 10:09:26 +01:00
Tiago Gomes 92d8c7dcbe add more asserts 2012-04-30 17:49:07 +01:00
Tiago Gomes ad50166bd0 fix bug in benchmarks script 2012-04-30 16:26:33 +01:00
Tiago Gomes 9971736a45 kill DEBUG constant, its not used any more 2012-04-30 14:50:14 +01:00
Tiago Gomes 7cf8c68e15 fix error message 2012-04-30 14:12:00 +01:00
Tiago Gomes d6e11ca84d delete order vars flag 2012-04-30 13:02:53 +01:00
Tiago Gomes fa8ff6d5b6 abort if the factor will become to bigger 2012-04-30 12:48:30 +01:00
Tiago Gomes 85fc4ae50a add missing files 2012-04-30 11:59:59 +01:00
Tiago Gomes a90bfb7a86 update benchmarks 2012-04-30 11:24:04 +01:00
Tiago Gomes 2fa06da3c9 disable bayes ball for now 2012-04-30 11:20:02 +01:00
Tiago Gomes 185cbe9c73 update examples 2012-04-30 11:16:11 +01:00
Tiago Gomes 56475cacbc revamp debugging plataform 2012-04-29 20:07:09 +01:00
Tiago Gomes d86e2c8386 don't raise counting log vars before multiplication 2012-04-28 01:10:04 +01:00
Tiago Gomes 1173b4c25b when expanding a counting formula, check if the expanded log vars are still counting log vars 2012-04-28 01:01:23 +01:00
Tiago Gomes 52f4aa0340 sort the parfactors by their parameters when printing 2012-04-27 19:10:22 +01:00
Vítor Santos Costa 067d6d3f4f fix problog experiment. 2012-04-27 16:30:02 +01:00
Vítor Santos Costa 5ee39c6f08 back to original version. 2012-04-27 16:20:40 +01:00
Vítor Santos Costa 6bb4db125d fix names. 2012-04-27 15:33:32 +01:00
Vítor Santos Costa 60184e230d new lbdd stuff. 2012-04-27 15:32:57 +01:00
Vítor Santos Costa ceb0c1f5ac new support file. 2012-04-27 15:32:17 +01:00
Vítor Santos Costa 823066f9da use library for learning. 2012-04-27 15:30:39 +01:00
Vítor Santos Costa fd4bf21ece fix file names. 2012-04-27 15:26:44 +01:00
Tiago Gomes 20fc2c8dd1 add debug information to variable elimination 2012-04-27 14:48:48 +01:00
Tiago Gomes 9e1a649262 raising the paramaters to some power should happen after summing out, not before 2012-04-27 14:47:30 +01:00
Tiago Gomes 7599ccd5a1 don't print the paramaters if they are more than 32 2012-04-27 01:19:28 +01:00
Tiago Gomes af063dcda8 be more precise when calculating the cost of grounding a log var in a formula 2012-04-27 01:18:54 +01:00
Tiago Gomes 995a11be83 improvements in the way we align logical variables 2012-04-26 18:00:06 +01:00
Vítor Santos Costa fd755f0b7e allow ProbLog to use lbdd. 2012-04-26 13:52:09 +01:00
Tiago Gomes cc09e77707 remove unnecessary variable 2012-04-26 00:58:06 +01:00
Tiago Gomes 689244a0d8 improve cbp by supporting factors connected to a single var two or more times 2012-04-26 00:54:06 +01:00
Tiago Gomes ad24a360ce Add a way to summout a dimension given a index instead of a variable id. 
This is required for counting belief propagation.
 2012-04-25 22:59:01 +01:00
Tiago Gomes fc362fe123 reorder the parameters instead of reordering variables 2012-04-23 22:57:04 +01:00
Tiago Gomes 0ebd6d6e06 improve constructor of VarNode 2012-04-23 22:40:36 +01:00
Tiago Gomes 3397f694fe sort the variable ids when printing all posterioris 2012-04-23 22:12:04 +01:00
Vitor Santos Costa f24bf2e2cd full school 2012-04-23 07:13:58 -05:00
Vitor Santos Costa 32a905bc8b ddnnf support 2012-04-23 07:13:25 -05:00
Vitor Santos Costa 040c1c7fa7 more ddnnf stuff 2012-04-23 07:13:01 -05:00
Tiago Gomes d90fcd532b minor update 2012-04-21 17:21:54 +01:00
Tiago Gomes 8c689665a0 support setting flags in horus cli and fix a bug when ordering the variables 2012-04-21 17:14:19 +01:00
Vitor Santos Costa 22f702f8e4 ddnnfs. 2012-04-20 16:43:30 -05:00
Vitor Santos Costa 220f7e6efc support mtbdds. 2012-04-20 16:42:59 -05:00
Tiago Gomes 085ebe1e96 check for overflows when performing expansion 
case the factor size after expansion be bigger than an unsigned integer, abort the program
 2012-04-20 17:16:10 +01:00
Tiago Gomes 0ffa409a80 fix a bug when expanding potential 2012-04-20 14:50:14 +01:00
Vitor Santos Costa 178ad27db8 better understanding of ddnnf. 2012-04-20 07:07:19 -05:00
Tiago Gomes 09697b8461 heuristic to improve results with fove 2012-04-19 18:37:15 +01:00
Tiago Gomes 2b7da4bc23 refactor the way we calculate the grounding cost 2012-04-19 17:59:45 +01:00
Tiago Gomes 661ce08961 check if the factor is not zero when choosing the elimination order 2012-04-19 12:08:27 +01:00
Tiago Gomes cd1e157019 sort the colors in the signature receveied from a factor (add std namespace) 2012-04-18 19:29:43 +01:00
Tiago Gomes 7c100c96bc sort the colors in the signature receveied from a factor 2012-04-18 19:29:11 +01:00
Tiago Gomes 862e90a36b fix bug in joining constraint trees 2012-04-18 18:14:15 +01:00
Tiago Gomes 61ee95d92a use logarithms to calculate the cost of each fove operator 2012-04-18 16:40:12 +01:00
Tiago Gomes 406276b62b add missing scripts 2012-04-18 13:53:34 +01:00
Tiago Gomes a7f57bea99 several optimizations on ConstraintTree 2012-04-18 03:05:01 +01:00
Tiago Gomes cd720497f8 update groups when shattering 2012-04-18 03:04:06 +01:00
Tiago Gomes bb5d02dbc0 minor updates 2012-04-18 03:03:29 +01:00
Tiago Gomes dacf6b4e57 update examples 2012-04-18 02:57:24 +01:00
Tiago Gomes d22b5a97fd add missing scripts 2012-04-18 02:52:31 +01:00
Tiago Gomes b7e9245f26 refactor and add more benchmarks scripts 2012-04-18 02:49:33 +01:00
Tiago Gomes d8e757f9ab improvements in the way factorials are computed 2012-04-18 02:46:38 +01:00
Tiago Gomes cd8714460e add a way of calculate factorials of large numbers 2012-04-17 20:24:40 +01:00
Tiago Gomes f02d0fb798 add more api to sorted vector implementation 2012-04-17 19:02:56 +01:00
Vítor Santos Costa 40ce9feb76 bdd experiments 2012-04-16 23:47:36 +01:00
Tiago Gomes 5e88510a7d use convenience function 2012-04-16 21:48:13 +01:00
Tiago Gomes 6ab5a4668b change align of some functions 2012-04-16 21:47:06 +01:00
Tiago Gomes dd0ae564ef adapt to changes in CFactorGraph 2012-04-16 21:45:52 +01:00
Tiago Gomes 779f4ea2ce fix debuging information and s/ds/range 2012-04-16 21:44:04 +01:00
Tiago Gomes 66353e67ec some refactorings 2012-04-16 21:42:14 +01:00
Tiago Gomes 0d5888e238 assign evidence to the pruned factor graph 2012-04-16 21:40:28 +01:00
Tiago Gomes b27500e93f add nrVarNodes and nrFacNodes 2012-04-16 19:29:55 +01:00
Tiago Gomes 6f7d2af718 add another sorted vector implementation 2012-04-15 21:51:12 +01:00
Tiago Gomes c32ad3de0a use a sorted vector to store the node childs 2012-04-15 21:44:27 +01:00
Tiago Gomes 5e7b660f44 use iterators instead off indices 2012-04-15 03:19:15 +01:00
Vítor Santos Costa c385dc13a8 fix syntax 2012-04-15 00:02:37 +01:00
Tiago Gomes 62fedf014b workaround garbage collector error 2012-04-14 18:00:12 +01:00
Tiago Gomes f1d2889eaa fix warning about uninitialized var 2012-04-14 17:59:04 +01:00
Tiago Gomes 401ad145a5 improve the way the factor graph is constructed from a set from factors 2012-04-14 17:57:24 +01:00
Tiago Gomes f6e3bb4481 don't assert when suming numbers with negative infinity 2012-04-13 23:12:12 +01:00
Tiago Gomes 24a5fe9c23 add typedef 2012-04-13 15:56:37 +01:00
Tiago Gomes 05ef8610f4 fix warning 2012-04-13 15:47:41 +01:00
Tiago Gomes 00faccd940 implement a printSolverParameters in ground solvers 2012-04-13 15:22:24 +01:00
Tiago Gomes f3be68a552 add a way to print bool vars 2012-04-13 15:21:11 +01:00
Tiago Gomes 15c8f3abc6 ops 2012-04-12 18:46:21 +01:00
Tiago Gomes 5348c4a989 comment debug information in some prolog files 2012-04-12 18:35:29 +01:00
Vítor Santos Costa 5a8cc421d2 small pfl fixes. 2012-04-12 18:11:29 +01:00
Vítor Santos Costa c5f42cd7eb more pfl changes. 2012-04-12 17:24:39 +01:00
Vítor Santos Costa 8c2dd1f847 fix bad call for parameters. 2012-04-12 17:17:21 +01:00
Vítor Santos Costa 28ce2da3dc Merge branch 'master' of https://github.com/tacgomes/yap6.3 2012-04-12 17:07:19 +01:00
Tiago Gomes 9def6c2b15 tempary hack to fix cbp and clean in benchs.sh 2012-04-12 00:42:55 +01:00
Tiago Gomes 564958ef8d improvements on benchmarkings 2012-04-11 23:48:59 +01:00
Tiago Gomes 03013960d3 refactor the city benchmarks and introduce set_solver/1 2012-04-11 19:15:52 +01:00
Tiago Gomes f2fbbf29d8 rework the examples and erase the city network in the old format 2012-04-11 15:36:50 +01:00
Tiago Gomes 8697fcd2b4 refactorings 2012-04-10 20:43:08 +01:00
Tiago Gomes 78e86a6330 refactor ground solver interface 2012-04-10 15:00:18 +01:00
Tiago Gomes 46e6a10625 convert city dataset to new format 2012-04-10 12:56:14 +01:00
Tiago Gomes b52dc99914 refactorings 2012-04-10 12:53:52 +01:00
Tiago Gomes aa1b2e40ea some renamings 2012-04-10 11:51:56 +01:00
Tiago Gomes 6986e8c0d7 Improvements 
Factor nodes now contain a factor object instead of a pointer. Refactor the way .fg and .uai formats are readed.
 2012-04-09 15:40:51 +01:00
Tiago Gomes f1d52c0389 add missing files 2012-04-05 23:04:27 +01:00
Tiago Gomes d1b25f0864 renamings and delete bn_bp stuff 2012-04-05 23:00:48 +01:00
Tiago Gomes b28ee8fb3a drop bayesian network representation 2012-04-05 20:08:54 +01:00
Tiago Gomes abb0410d07 drop suport for Pearl belief propagation 2012-04-05 19:34:37 +01:00
Tiago Gomes 0d23591058 Add support to markov networks 2012-04-05 18:38:56 +01:00
Vítor Santos Costa bc2364c5dc small fixes 2012-04-04 08:29:20 +01:00
Tiago Gomes 6c3add2ebd first steps in adapting horus ground solvers to pfl 2012-04-03 19:53:27 +01:00
Vítor Santos Costa 2bdec8f725 more PFL fixes. 2012-04-03 17:12:58 +01:00
Vítor Santos Costa 14d142aa10 new example. 2012-04-03 16:23:26 +01:00
Vítor Santos Costa 65e0c3b2a2 more PFL changes. 2012-04-03 16:22:40 +01:00
Vítor Santos Costa 6ccd458ea5 Merge branch 'master' of https://github.com/tacgomes/yap6.3 
Conflicts:
	packages/CLPBN/clpbn/bp.yap
	packages/CLPBN/clpbn/fove.yap
	packages/CLPBN/clpbn/horus.yap
 2012-04-03 15:07:22 +01:00
Vítor Santos Costa 44cb6abcb6 PFL support. 2012-04-03 15:01:35 +01:00
Vítor Santos Costa e130c26c6d improve bdd support. 2012-04-03 15:01:14 +01:00
Vítor Santos Costa 3d216cf9db iextend bdd support. 2012-04-03 15:00:22 +01:00
Tiago Gomes 911b241ad6 fix align of logical variables 2012-04-03 11:58:21 +01:00
Tiago Gomes fd8980642b another test 2012-04-01 00:23:03 +01:00
tgomes c6128c51e8 this is a test 2012-03-31 23:59:05 +01:00
Tiago Gomes e9cc1a8be2 remove unnecessary files 2012-03-31 23:44:08 +01:00
Tiago Gomes 313f9a036a yay, my first commit 2012-03-31 23:27:37 +01:00
Vítor Santos Costa 3563dcbf03 control for very large bdds. 2012-03-30 09:50:18 +01:00
tgomes 24b466db4e new version. 2012-03-29 12:24:29 +01:00
Vítor Santos Costa 0a9076bf4a bdd 2012-03-28 10:59:26 +01:00
Vítor Santos Costa 9ff1399482 new versions of packages. 2012-03-27 14:59:22 +01:00
Vítor Santos Costa 295cf24f5c extend functionality. 2012-03-27 14:57:43 +01:00
Vítor Santos Costa cd45c64dcc allow optimisation and preserve ordering. 2012-03-27 14:57:12 +01:00
Vítor Santos Costa 52e5fdb6aa fix typo and export extra 2012-03-25 21:42:49 +01:00
Vítor Santos Costa 7d6b2435e0 fix typo and export extra 2012-03-25 21:42:39 +01:00
Vítor Santos Costa a38177207d use safer method 2012-03-25 21:41:03 +01:00
Vítor Santos Costa b6d5b79789 force parent unification when binding two variables with same key 2012-03-25 21:40:29 +01:00
Vítor Santos Costa 7d6461a527 fix order. 2012-03-23 22:26:31 +00:00
Vítor Santos Costa 07335ce047 clp(bn) support 2012-03-22 23:24:09 +00:00
Vítor Santos Costa 6b1574757e fix dist usage. 2012-03-22 22:32:50 +00:00
Vítor Santos Costa f5f13541c6 old new syntax 2012-03-22 22:23:20 +00:00
Vítor Santos Costa 4c1602b74b old syntax example. 2012-03-22 22:22:16 +00:00
Vítor Santos Costa 6ad2c9b3a9 experimental BDD interface package. 2012-03-22 21:36:44 +00:00
Vítor Santos Costa a338b95d3f add more support for FOVE. 2012-03-22 19:10:15 +00:00
Vítor Santos Costa 7d4f83ca40 improve examples. 2012-03-22 19:09:31 +00:00
Vítor Santos Costa 172f59cee5 ifix interface to clp(bn) machinery. 2012-03-22 19:08:36 +00:00
Vitor Santos Costa c85e76f20f new fove version. 2012-03-22 11:40:24 +00:00
Vitor Santos Costa 6191dd210b new version 2012-03-22 11:35:54 +00:00
Vitor Santos Costa 21d317b223 new version of bp 2012-03-22 11:33:24 +00:00
Vitor Santos Costa 6e36498cac new version. 2012-03-22 11:29:46 +00:00
Vítor Santos Costa 8ba0bee7ab updates to packages. 2012-02-17 11:31:55 +00:00
Vítor Santos Costa 48cbed8b20 update to latest release. 2012-02-14 18:58:12 +00:00
Vítor Santos Costa 8c556f21ba include XMLPL package. 2012-02-14 12:41:12 +00:00
Vitor Santos Costa 247aa54046 back to using YAP writer. 2012-02-13 23:07:31 +00:00
Vítor Santos Costa fc4edc3ad1 update version. 2012-02-13 19:30:00 +00:00
Vítor Santos Costa 70b41fbdb7 iupdate packages. 2012-02-13 11:26:23 +00:00
Vítor Santos Costa dd762fe664 new versions. 2012-02-13 10:35:05 +00:00
Vítor Santos Costa 32d953809e update packages. 2012-02-13 09:43:50 +00:00
Vítor Santos Costa 64319f622f better SWI support. 2012-02-13 09:41:22 +00:00
Vítor Santos Costa ea18699602 JPL support patches. 2012-02-12 12:28:37 +00:00
Vítor Santos Costa 73b1a8d6f8 change R configuration. 2012-02-06 11:01:10 +00:00
Vítor Santos Costa e6fb330f58 fix warnings. 2012-02-03 20:55:35 +00:00
Vítor Santos Costa ab33cacf7b LAM MPI interface support. 2012-02-02 23:25:31 +00:00
Vítor Santos Costa 4e6cc28cd3 lam support. 2012-02-02 09:58:05 +00:00
Vítor Santos Costa dddf5bce80 update 2012-02-01 21:01:24 +00:00
Vítor Santos Costa c4ee7ee0c3 Merge branch 'master' of ssh://git.dcc.fc.up.pt/yap-6.3 
Conflicts:
	.gitmodules
	configure
	packages/real
 2012-02-01 20:57:42 +00:00
Vítor Santos Costa 4c6164034e real stuff. 2012-02-01 20:50:57 +00:00