# # ChangeLog for / # # Generated by Trac 1.2.1 # 04/09/25 03:22:04 Fri, 01 Oct 2021 15:13:35 GMT sz [1151] * framspy/frams-test-props.py (added) example code showing how to use the new property access functions ... Fri, 01 Oct 2021 15:11:05 GMT sz [1150] * framspy/frams.py (modified) low level functions for getting more info about framsticks object ... Fri, 24 Sep 2021 23:02:06 GMT Maciej Komosinski [1149] * framspy/FramsticksLib.py (modified) * framspy/deterministic.sim (added) * framspy/eval-allcriteria.sim (modified) * framspy/evolalg/examples/multicriteria.py (modified) * framspy/evolalg/examples/niching_novelty.py (modified) * framspy/evolalg/examples/standard.py (modified) * framspy/run-evolalg-examples.cmd (modified) * framspy/sample-period-2.sim (added) * framspy/sample-period-longest.sim (added) Added support for loading multiple .sim files where each can ... Mon, 09 Aug 2021 22:48:18 GMT Maciej Komosinski [1148] * framspy/evolalg/examples/multicriteria.py (modified) * framspy/evolalg/selection/nsga2.py (modified) Added exception when popsize is not a multiple of 4 (required by ... Tue, 03 Aug 2021 13:15:57 GMT Maciej Komosinski [1147] * framspy/evolalg/examples/multicriteria.py (added) * framspy/evolalg/selection/nsga2.py (added) * framspy/evolalg/statistics/multistatistics_deap.py (added) * framspy/run-evolalg-examples.cmd (modified) Multi-criteria optimization, can optionally include diversity is one ... Tue, 03 Aug 2021 12:00:12 GMT Maciej Komosinski [1146] * framspy/evolalg/base/union_step.py (modified) * framspy/evolalg/examples/niching_novelty.py (modified) * framspy/evolalg/examples/standard.py (modified) * framspy/evolalg/statistics/statistics_deap.py (modified) * framspy/frams.py (modified) Cosmetic Wed, 07 Jul 2021 12:38:57 GMT Maciej Komosinski [1145] * framspy/evolalg/dissimilarity/dissimilarity.py (modified) * framspy/evolalg/dissimilarity/frams_dissimilarity.py (modified) * framspy/evolalg/examples/niching_novelty.py (modified) * framspy/run-evolalg-examples.cmd (modified) Added niching and novelty search with limited (i.e., local) ... Fri, 18 Jun 2021 12:24:16 GMT sz [1144] * tester/tester.py (modified) new options: -d, --nodiff: Don't show individual line differences, ... Fri, 18 Jun 2021 12:19:23 GMT sz [1143] * cpp/tests/evol_test-fH.goal (modified) * cpp/tests/evol_test-fL.goal (modified) * cpp/tests/f0_variants_test-complex.goal (modified) * cpp/tests/f0_variants_test-default.goal (modified) * cpp/tests/f0_variants_test-fS.goal (modified) * cpp/tests/full_props-fS.goal (modified) * cpp/tests/genoconv_test-complex.goal (modified) * cpp/tests/genoconv_test-default.goal (modified) * cpp/tests/genoconv_test-simplemultiply.goal (modified) * cpp/tests/genomanipulation-complex.goal (modified) * cpp/tests/genomanipulation-default.goal (modified) * cpp/tests/genomanipulation-fS.goal (modified) * cpp/tests/geometry_goals/apices.goal (modified) * cpp/tests/geometry_goals/cuboid-linux.goal (modified) * cpp/tests/geometry_goals/cuboid_cylinder.goal (modified) * cpp/tests/geometry_goals/cuboid_ellipsoid.goal (modified) * cpp/tests/geometry_goals/cylinder-linux.goal (modified) * cpp/tests/geometry_goals/cylinder_ellipsoid.goal (modified) * cpp/tests/geometry_goals/ellipsoid-linux.goal (modified) * cpp/tests/geometry_goals/f1.goal (modified) * cpp/tests/geometry_goals/surface.goal (modified) * cpp/tests/geometry_goals/volume.goal (modified) * cpp/tests/multiline_f0_test-complex.goal (modified) * cpp/tests/multiline_f0_test-default.goal (modified) * cpp/tests/multiline_f0_test-fS.goal (modified) * cpp/tests/similarity_goals/distribution.goal (modified) update test results, mostly because of r1142 (rgb defaults change) Mon, 24 May 2021 11:59:44 GMT Maciej Komosinski [1142] * cpp/frams/config/f0-SDK.def (modified) * cpp/frams/config/f0.def (modified) * cpp/frams/model/defassign-f0-SDK.h (modified) * cpp/frams/model/f0-SDK-classes.h (modified) Default RGB color of Parts and Joints becomes 0.5,0.5,0.5 again (undo ... Mon, 17 May 2021 13:39:43 GMT Maciej Komosinski [1141] * framspy/frams.py (modified) More useful exception message - shows argument type Sat, 08 May 2021 18:10:15 GMT Maciej Komosinski [1140] * framspy/evolalg/examples/niching_novelty.py (modified) * framspy/evolalg/examples/standard.py (modified) Introduced a parameter for the size of the hall of fame Sat, 08 May 2021 10:42:58 GMT Maciej Komosinski [1139] * framspy/evolalg/base/frams_step.py (modified) * framspy/evolalg/base/lambda_step.py (modified) * framspy/evolalg/base/step.py (modified) * framspy/evolalg/base/union_step.py (modified) * framspy/evolalg/dissimilarity/frams_dissimilarity.py (modified) * framspy/evolalg/dissimilarity/levenshtein.py (modified) * framspy/evolalg/examples/niching_novelty.py (modified) * framspy/evolalg/experiment.py (modified) * framspy/evolalg/fitness/fitness_step.py (modified) * framspy/evolalg/fitness/multiple_evaluations.py (modified) * framspy/evolalg/mutation_cross/frams_cross.py (modified) * framspy/evolalg/mutation_cross/frams_cross_and_mutate.py (modified) * framspy/evolalg/mutation_cross/frams_cross_or_mutate.py (modified) * framspy/evolalg/mutation_cross/frams_mutation.py (modified) * framspy/evolalg/population/frams_population.py (modified) * framspy/evolalg/repair/const.py (modified) * framspy/evolalg/repair/halloffame_repair.py (modified) * framspy/evolalg/repair/multistep.py (modified) * framspy/evolalg/repair/mutate.py (modified) * framspy/evolalg/repair/remove/field.py (modified) * framspy/evolalg/repair/remove/function.py (modified) * framspy/evolalg/repair/remove/remove.py (modified) * framspy/evolalg/repair/repair.py (modified) * framspy/evolalg/selection/identity.py (modified) * framspy/evolalg/selection/selection.py (modified) * framspy/evolalg/selection/tournament.py (modified) * framspy/evolalg/statistics/halloffame_custom.py (modified) * framspy/evolalg/statistics/halloffame_stats.py (modified) * framspy/evolalg/statistics/statistics.py (modified) * framspy/evolalg/statistics/statistics_deap.py (modified) * framspy/evolalg/utils/name_propagation.py (added) * framspy/evolalg/utils/population_save.py (modified) Added --debug mode that prints names of steps; final multiple ... Sat, 01 May 2021 20:32:21 GMT Maciej Komosinski [1138] * framspy/evolalg/examples/niching_novelty.py (modified) * framspy/run-evolalg-examples.cmd (modified) Added limits for the number of Parts, Joints, Neurons and Neural ... Sat, 01 May 2021 19:13:08 GMT Maciej Komosinski [1137] * framspy/evolalg/examples/niching_novelty.py (modified) Removed unnecessary (duplicated) stages Sat, 01 May 2021 19:07:14 GMT Maciej Komosinski [1136] * framspy/evolalg/examples/niching_novelty.py (modified) checkpoint_path is optional, let the program work without this value ... Wed, 28 Apr 2021 01:53:58 GMT Maciej Komosinski [1135] * cpp/frams/model/model.cpp (modified) Validate joint length in Model: not just maximum but also minimum allowed Tue, 27 Apr 2021 01:05:44 GMT Maciej Komosinski [1134] * cpp/frams/config/f0.def (modified) Flag names more consistent Thu, 22 Apr 2021 23:08:00 GMT Maciej Komosinski [1133] * framspy/evolalg/examples/standard.py (modified) Invalid genotypes are now removed immediately from the population and ... Tue, 20 Apr 2021 12:33:27 GMT Maciej Komosinski [1132] * framspy/evolalg/examples/niching_novelty.py (modified) Cosmetic Tue, 20 Apr 2021 12:33:05 GMT Maciej Komosinski [1131] * framspy/evolalg/examples/standard.py (moved) The "standard.py" example now incorporates features of invalid.py ... Fri, 16 Apr 2021 13:55:34 GMT Maciej Komosinski [1130] * cpp/common/2d.h (modified) * cpp/common/Convert.cpp (modified) * cpp/common/log.cpp (modified) * cpp/common/loggers/loggers.h (modified) * cpp/common/loggers/loggertostdout.cpp (modified) * cpp/common/nonstd_stl.h (modified) * cpp/common/util-stl.h (modified) * cpp/common/util-string.cpp (modified) * cpp/frams/_demos/evol_test.cpp (modified) * cpp/frams/_demos/printconvmap.cpp (modified) * cpp/frams/canvas/neurodiagram.cpp (modified) * cpp/frams/canvas/nn_smart_layout.cpp (modified) * cpp/frams/genetics/f1/f1_conv.cpp (modified) * cpp/frams/genetics/f9/f9_conv.cpp (modified) * cpp/frams/genetics/fB/fB_conv.cpp (modified) * cpp/frams/genetics/fB/fB_oper.cpp (modified) * cpp/frams/genetics/fF/fF_conv.cpp (modified) * cpp/frams/genetics/fF/fF_oper.cpp (modified) * cpp/frams/genetics/fS/fS_general.cpp (modified) * cpp/frams/genetics/fS/fS_oper.cpp (modified) * cpp/frams/genetics/fn/fn_conv.h (modified) * cpp/frams/genetics/geneprops.cpp (modified) * cpp/frams/model/autoname.cpp (modified) * cpp/frams/model/model.h (modified) * cpp/frams/model/similarity/EMD/emd.c (modified) * cpp/frams/model/similarity/measure-distribution.cpp (modified) * cpp/frams/neuro/impl/neuroimpl-channels.cpp (modified) * cpp/frams/neuro/impl/neuroimpl-fuzzy-f0.cpp (modified) * cpp/frams/neuro/impl/neuroimpl-fuzzy.cpp (modified) * cpp/frams/param/mutableparam.cpp (modified) * cpp/frams/param/paramobj.cpp (modified) * cpp/frams/util/extvalue.h (modified) * cpp/frams/util/multirange.cpp (modified) * cpp/frams/util/sstring-simple.cpp (modified) * cpp/frams/util/sstring.cpp (modified) * cpp/frams/vm/classes/collectionobj.cpp (modified) Used std::min(), std::max() explicitly to avoid compiler confusion. ... Sun, 11 Apr 2021 01:27:06 GMT Maciej Komosinski [1129] * framspy/evolalg/examples/niching_novelty.py (modified) * framspy/evolalg/examples/standard.py (modified) Introduced tournament size as a command-line parameter Sun, 11 Apr 2021 01:21:14 GMT Maciej Komosinski [1128] * framspy/evolalg/examples/invalid.py (modified) * framspy/evolalg/examples/niching_novelty.py (modified) * framspy/evolalg/examples/standard.py (modified) * framspy/evolalg/statistics/halloffame_stats.py (modified) Introduced the number of generations as a command-line parameter; ... Sun, 11 Apr 2021 01:15:42 GMT Maciej Komosinski [1127] * framspy/evolalg/experiment.py (modified) Experiment: measure running time and save checkpoints safely Sun, 11 Apr 2021 00:44:58 GMT Maciej Komosinski [1126] * framspy/evolalg/utils/population_save.py (modified) Saving a population prints a message Sun, 11 Apr 2021 00:09:28 GMT Maciej Komosinski [1125] * cpp/common/util-string.h (modified) * cpp/frams/model/geometry/geometryutils.cpp (modified) * cpp/frams/model/similarity/measure-distribution.cpp (modified) Cosmetic Sun, 11 Apr 2021 00:08:46 GMT Maciej Komosinski [1124] * cpp/common/util-file.cpp (modified) * cpp/common/util-file.h (modified) * cpp/common/util-stl.h (modified) Added helper utility functions Sat, 10 Apr 2021 23:51:55 GMT Maciej Komosinski [1123] * cpp/frams/frams-objects.h (added) * framspy/frams.py (modified) Added a header file for interfacing the frams-objects library (.dll ... Sat, 10 Apr 2021 23:49:23 GMT Maciej Komosinski [1122] * cpp/frams/model/modelparts.h (modified) Stick thickness when converting "ball-and-stick" models to "solid- ... Thu, 01 Apr 2021 15:17:15 GMT Maciej Komosinski [1121] * cpp/frams/model/similarity/measure-distribution.cpp (modified) Added comments, removed unused variables Thu, 01 Apr 2021 15:07:37 GMT Maciej Komosinski [1120] * cpp/frams/model/similarity/measure-distribution.cpp (modified) * cpp/frams/model/similarity/measure-distribution.h (modified) Used a local random number generator for full determinism. Introduced ... Wed, 31 Mar 2021 01:06:34 GMT Maciej Komosinski [1119] * framspy/FramsticksLib.py (modified) Cache a function reference for better performance Wed, 31 Mar 2021 01:05:28 GMT Maciej Komosinski [1118] * cpp/frams/_demos/shapeconvert.cpp (modified) * cpp/frams/model/model.h (modified) * cpp/frams/model/modelparts.h (modified) Introduced a common constant for default stick thickness when ... Sat, 27 Mar 2021 02:43:22 GMT Maciej Komosinski [1117] * framspy/FramsticksEvolution.py (modified) * framspy/run-evolalg-examples.cmd (modified) Cosmetic Sat, 27 Mar 2021 02:42:04 GMT Maciej Komosinski [1116] * framspy/FramsticksLib.py (modified) * framspy/frams-test.py (modified) Improved performance significantly by moving the step-by-step ... Thu, 25 Mar 2021 15:21:43 GMT Maciej Komosinski [1115] * cpp/frams/_demos/shapeconvert.cpp (modified) * cpp/frams/model/geometry/modelgeoclass.cpp (modified) * cpp/frams/model/model.h (modified) Use default stick thickness when converting "ball-and-stick" models ... Wed, 24 Mar 2021 21:27:53 GMT Maciej Komosinski [1114] * framspy/FramsticksLib.py (modified) * framspy/eval-allcriteria.sim (modified) * framspy/evolalg/base/lambda_step.py (modified) * framspy/frams-test.py (modified) Cosmetic Wed, 24 Mar 2021 21:25:50 GMT Maciej Komosinski [1113] * framspy/evolalg (added) * framspy/evolalg/__init__.py (added) * framspy/evolalg/base (added) * framspy/evolalg/base/__init__.py (added) * framspy/evolalg/base/frams_step.py (added) * framspy/evolalg/base/individual.py (added) * framspy/evolalg/base/lambda_step.py (added) * framspy/evolalg/base/step.py (added) * framspy/evolalg/base/union_step.py (added) * framspy/evolalg/dissimilarity (added) * framspy/evolalg/dissimilarity/__init__.py (added) * framspy/evolalg/dissimilarity/dissimilarity.py (added) * framspy/evolalg/dissimilarity/frams_dissimilarity.py (added) * framspy/evolalg/dissimilarity/levenshtein.py (added) * framspy/evolalg/examples (added) * framspy/evolalg/examples/__init__.py (added) * framspy/evolalg/examples/invalid.py (added) * framspy/evolalg/examples/niching_novelty.py (added) * framspy/evolalg/examples/standard.py (added) * framspy/evolalg/experiment.py (added) * framspy/evolalg/fitness (added) * framspy/evolalg/fitness/__init__.py (added) * framspy/evolalg/fitness/fitness_step.py (added) * framspy/evolalg/fitness/multiple_evaluations.py (added) * framspy/evolalg/mutation_cross (added) * framspy/evolalg/mutation_cross/__init__.py (added) * framspy/evolalg/mutation_cross/frams_cross.py (added) * framspy/evolalg/mutation_cross/frams_cross_and_mutate.py (added) * framspy/evolalg/mutation_cross/frams_cross_or_mutate.py (added) * framspy/evolalg/mutation_cross/frams_mutation.py (added) * framspy/evolalg/population (added) * framspy/evolalg/population/__init__.py (added) * framspy/evolalg/population/frams_population.py (added) * framspy/evolalg/repair (added) * framspy/evolalg/repair/__init__.py (added) * framspy/evolalg/repair/const.py (added) * framspy/evolalg/repair/halloffame_repair.py (added) * framspy/evolalg/repair/multistep.py (added) * framspy/evolalg/repair/mutate.py (added) * framspy/evolalg/repair/remove (added) * framspy/evolalg/repair/remove/__init__.py (added) * framspy/evolalg/repair/remove/field.py (added) * framspy/evolalg/repair/remove/function.py (added) * framspy/evolalg/repair/remove/remove.py (added) * framspy/evolalg/repair/repair.py (added) * framspy/evolalg/selection (added) * framspy/evolalg/selection/__init__.py (added) * framspy/evolalg/selection/identity.py (added) * framspy/evolalg/selection/selection.py (added) * framspy/evolalg/selection/tournament.py (added) * framspy/evolalg/statistics (added) * framspy/evolalg/statistics/__init__.py (added) * framspy/evolalg/statistics/halloffame_custom.py (added) * framspy/evolalg/statistics/halloffame_stats.py (added) * framspy/evolalg/statistics/statistics.py (added) * framspy/evolalg/statistics/statistics_deap.py (added) * framspy/evolalg/utils (added) * framspy/evolalg/utils/__init__.py (added) * framspy/evolalg/utils/population_save.py (added) * framspy/evolalg/utils/stable_generation.py (added) * framspy/run-evolalg-examples.cmd (added) Added a framework for evolutionary algorithms cooperating with ... Wed, 17 Mar 2021 21:36:57 GMT Maciej Komosinski [1112] * framspy/frams-test.py (modified) Added an example of sampling a 3D Model using the ModelGeometry class Tue, 16 Mar 2021 22:59:15 GMT Maciej Komosinski [1111] * cpp/frams/model/geometry/modelgeoclass.cpp (modified) * cpp/frams/model/geometry/modelgeoclass.h (modified) * cpp/frams/model/geometry/modelgeometryinfo.cpp (modified) * cpp/frams/model/geometry/modelgeometryinfo.h (modified) Added a function to get voxels of sampled Model geometry from script Tue, 16 Mar 2021 01:50:14 GMT sz [1110] * java/Framclipse/com.framsticks.framclipse/res/framscript.xml (modified) updated for Framsticks v5.0rc19: - SimilMeasure.simil_type - min ... Mon, 15 Mar 2021 14:58:52 GMT Maciej Komosinski [1109] * cpp/frams/neuro/neurocls-f0-SDK-factory.h (modified) * cpp/frams/neuro/neurocls-f0-SDK-library.h (modified) Follow-up to r1107 Mon, 15 Mar 2021 14:57:32 GMT Maciej Komosinski [1108] * cpp/common/nonstd_stl.h (modified) * cpp/frams/genetics/f4/f4_general.cpp (modified) * cpp/frams/genetics/f4/f4_oper.cpp (modified) * cpp/frams/genetics/f9/f9_conv.cpp (modified) * cpp/frams/genetics/fS/fS_general.cpp (modified) Avoided potentially dangerous subtraction from unsigned int Mon, 15 Mar 2021 14:55:56 GMT Maciej Komosinski [1107] * cpp/frams/config/f0-SDK.def (modified) Unified names of neurons and neuron flags; muscle power range now ... Fri, 12 Mar 2021 23:50:05 GMT Maciej Komosinski [1106] * framspy/frams.py (modified) Since 5.0rc19 there is no need to restore the current working ... Fri, 12 Mar 2021 23:46:26 GMT Maciej Komosinski [1105] * framspy/FramsticksCLI.py (modified) Using the "framsfiles" module to write genotypes to a file instead of ... Fri, 12 Mar 2021 23:44:51 GMT Maciej Komosinski [1104] * framspy/framsfiles (added) * framspy/framsfiles/__init__.py (added) * framspy/framsfiles/_context.py (added) * framspy/framsfiles/framscript.xml (added) * framspy/framsfiles/reader (added) * framspy/framsfiles/reader/__init__.py (added) * framspy/framsfiles/reader/_all.py (added) * framspy/framsfiles/tests (added) * framspy/framsfiles/tests/reader_tests.py (added) * framspy/framsfiles/tests/run_tests.cmd (added) * framspy/framsfiles/tests/run_tests.sh (added) * framspy/framsfiles/tests/test_files (added) * framspy/framsfiles/tests/test_files/test_files.zip (added) * framspy/framsfiles/tests/writer_tests.py (added) * framspy/framsfiles/writer (added) * framspy/framsfiles/writer/__init__.py (added) * framspy/framsfiles/writer/_loader.py (added) * framspy/framsfiles/writer/_parser.py (added) * framspy/framsfiles/writer/_serializer.py (added) Added the "framsfiles" module for reading and writing Framsticks- ... Thu, 11 Mar 2021 18:51:11 GMT Maciej Komosinski [1103] * framspy/frams-test.py (modified) Added an example of setting a different expdef (experiment definition) Wed, 10 Mar 2021 20:13:26 GMT Maciej Komosinski [1102] * framspy/FramsticksLib.py (modified) Do not fail when the dissimilarity matrix is not symmetric, print a ... Wed, 10 Mar 2021 19:04:56 GMT Maciej Komosinski [1101] * framspy/FramsticksLib.py (modified) Import simulation settings only once in the beginning, not on every ... Fri, 05 Mar 2021 18:34:20 GMT Maciej Komosinski [1100] * cpp/common/loggers/loggers.h (modified) * cpp/frams/model/similarity/simil-measure.cpp (modified) * experiments/frams/foraminifera/data/scripts/foraminifera.expdef (modified) * experiments/frams/foraminifera/data/scripts/foraminifera.inc (modified) * framspy/frams.py (modified) Cosmetic / minor fixes Fri, 05 Mar 2021 17:48:09 GMT oriona [1099] * experiments/frams/foraminifera/data/scripts/foraminifera.inc (modified) Minor fix. Fri, 05 Mar 2021 17:46:22 GMT oriona [1098] * experiments/frams/foraminifera/data/scripts/foraminifera.expdef (modified) * experiments/frams/foraminifera/data/scripts/foraminifera.inc (modified) Paramter controlling output printing added. Fri, 05 Mar 2021 10:25:47 GMT oriona [1097] * experiments/frams/foraminifera/data/scripts/foraminifera.expdef (modified) Calls to deprecated parameters changed. Thu, 04 Mar 2021 20:08:25 GMT sz [1096] * framspy/frams.py (modified) restore the original working directory after frams.init() Wed, 03 Mar 2021 03:47:10 GMT Maciej Komosinski [1095] * framspy/FramsticksEvolution.py (modified) * framspy/FramsticksLib.py (modified) Cosmetic Thu, 25 Feb 2021 20:01:59 GMT Maciej Komosinski [1094] * framspy/FramsticksEvolution.py (modified) Same as r1091 but for evolution: allowed to override settings of the ... Wed, 24 Feb 2021 12:45:04 GMT Maciej Komosinski [1093] * framspy/eval-allcriteria.sim (modified) Updated settings for version 5.0rc18: added new fields and removed ... Wed, 24 Feb 2021 12:41:50 GMT Maciej Komosinski [1092] * framspy/FramsticksCLI.py (modified) * framspy/frams-test.py (modified) Cosmetic Wed, 24 Feb 2021 12:41:24 GMT Maciej Komosinski [1091] * framspy/FramsticksLib.py (modified) Allowed to override settings of the simulation using a file with the ... Sat, 20 Feb 2021 12:34:03 GMT Maciej Komosinski [1090] * framspy/FramsticksLib.py (modified) Cosmetic Sat, 20 Feb 2021 12:32:12 GMT Maciej Komosinski [1089] * framspy/frams-test.py (modified) Added more examples of using Framsticks in python - building ... Sat, 20 Feb 2021 12:26:18 GMT Maciej Komosinski [1088] * framspy/frams.py (modified) More friendly message when the dll/so cannot be found Fri, 19 Feb 2021 02:14:41 GMT Maciej Komosinski [1087] * framspy/FramsticksCLI.py (modified) * framspy/FramsticksLib.py (modified) * framspy/frams-test.py (modified) * framspy/frams.py (modified) Cosmetic Thu, 18 Feb 2021 23:15:50 GMT sz [1086] * java/Framclipse/com.framsticks.framclipse/res/framscript.xml (modified) updated for Framsticks version 5.0rc18 - added MessageCatcher object ... Thu, 18 Feb 2021 21:51:55 GMT sz [1085] * framspy/frams-test.py (modified) * framspy/frams.py (modified) - more sophisticated frams.py init() so frams-test.py (and other ... Thu, 18 Feb 2021 18:06:53 GMT Maciej Komosinski [1084] * framspy/FramsticksLib.py (modified) Introduced bool PRINT_FRAMSTICKS_OUTPUT to mute messages while ... Thu, 18 Feb 2021 17:58:55 GMT Maciej Komosinski [1083] * framspy/frams-test.py (modified) * framspy/frams.py (modified) Allowed to override the default name of frams-objects.dll/so Thu, 18 Feb 2021 17:56:35 GMT Maciej Komosinski [1082] * cpp/common/loggers/loggers.h (modified) Added helper functions for script access Wed, 17 Feb 2021 15:59:46 GMT Maciej Komosinski [1081] * framspy/FramsticksLib.py (modified) * framspy/frams-test.py (modified) * framspy/frams.py (modified) Cosmetic Wed, 17 Feb 2021 13:36:10 GMT Maciej Komosinski [1080] * framspy/FramsticksEvolution.py (modified) Use direct connection to Framsticks .so/.dll in evolution Wed, 17 Feb 2021 13:32:44 GMT Maciej Komosinski [1079] * framspy/FramsticksCLI.py (modified) Cosmetic Wed, 17 Feb 2021 13:31:08 GMT Maciej Komosinski [1078] * framspy/FramsticksLib.py (added) * framspy/frams-test.py (added) * framspy/frams.py (added) Direct connection from python to Framsticks .so/.dll Tue, 16 Feb 2021 05:38:51 GMT Maciej Komosinski [1077] * cpp/frams/vm/framscript.y (modified) Fixed limited scope of for(var somevariable) ... Tue, 16 Feb 2021 05:37:09 GMT Maciej Komosinski [1076] * cpp/frams/util/extvalue.cpp (modified) * cpp/frams/vm/classes/collectionobj.cpp (modified) * framspy/FramsticksCLI.py (modified) Cosmetic Tue, 16 Feb 2021 05:36:01 GMT Maciej Komosinski [1075] * cpp/common/loggers/loggers.cpp (modified) * cpp/common/loggers/loggers.h (modified) * cpp/frams/genetics/fL/fL_oper.cpp (modified) Fixed dangerous size_t-1 Thu, 11 Feb 2021 13:59:40 GMT oriona [1074] * experiments/frams/foraminifera/data/scripts/foraminifera.expdef (modified) * experiments/frams/foraminifera/data/scripts/foraminifera.inc (modified) Proper genetic format set. Tue, 09 Feb 2021 10:37:27 GMT oriona [1073] * cpp/frams/model/similarity/measure-greedy.cpp (modified) * cpp/frams/model/similarity/measure-hungarian.cpp (modified) Comments added. Mon, 08 Feb 2021 19:49:50 GMT oriona [1072] * cpp/frams/model/similarity/measure-greedy.cpp (modified) * cpp/frams/model/similarity/measure-hungarian.cpp (modified) Switching off the alignment moved. Mon, 08 Feb 2021 16:07:11 GMT oriona [1071] * cpp/frams/model/similarity/measure-greedy.cpp (modified) * cpp/frams/model/similarity/measure-hungarian.cpp (modified) * cpp/frams/model/similarity/measure-mds-based.cpp (modified) Weighted MDS and switching off the alignment fixed. Wed, 03 Feb 2021 20:51:50 GMT oriona [1070] * cpp/frams/model/similarity/SVD/matrix_tools.cpp (modified) MDS for one-part creatures fixed. Mon, 01 Feb 2021 23:32:48 GMT sz [1069] * cpp/tests/paramtree_paramlist_test.goal (modified) sdk tests updated (similarity) Mon, 01 Feb 2021 23:32:01 GMT sz [1068] * cpp/tests/resize_f0.goal (added) sdk tests updated (resize) Mon, 01 Feb 2021 23:31:41 GMT sz [1067] * cpp/tests/f0_variants_test-complex.goal (modified) * cpp/tests/f0_variants_test-default.goal (modified) * cpp/tests/f0_variants_test-fS.goal (modified) * cpp/tests/full_props-complex.goal (modified) * cpp/tests/full_props-fS.goal (modified) * cpp/tests/full_props_x.goal (modified) * cpp/tests/genomanipulation-complex.goal (modified) * cpp/tests/genomanipulation-default.goal (modified) * cpp/tests/genomanipulation-fS.goal (modified) * cpp/tests/multiline_f0_test-complex.goal (modified) * cpp/tests/multiline_f0_test-default.goal (modified) * cpp/tests/multiline_f0_test-fS.goal (modified) sdk tests updated (remove Part.vs) Wed, 27 Jan 2021 11:22:01 GMT Maciej Komosinski [1066] * cpp/frams/model/similarity/measure-greedy.cpp (modified) Make names of fields in SimilMeasureGreedy unique because object ... Wed, 27 Jan 2021 11:20:00 GMT Maciej Komosinski [1065] * cpp/frams/model/similarity/simil-measure-base.cpp (modified) More specific error messages Tue, 26 Jan 2021 17:50:37 GMT Maciej Komosinski [1064] * cpp/frams/model/similarity/EMD/emd.c (modified) * cpp/frams/model/similarity/EMD/emd.h (modified) Properly allocated and de-allocated dynamic arrays of size calculated ... Tue, 26 Jan 2021 17:02:06 GMT Maciej Komosinski [1063] * cpp/frams/model/similarity/EMD/emd.c (modified) * cpp/frams/model/similarity/EMD/emd.h (modified) Updated URL for Yossi Rubner's implementation of EMD Tue, 26 Jan 2021 16:41:01 GMT oriona [1062] * cpp/frams/model/similarity/EMD/emd.c (modified) * cpp/frams/model/similarity/EMD/emd.h (modified) * cpp/frams/model/similarity/measure-distribution.cpp (modified) Global arrays moved to emd function. Mon, 25 Jan 2021 19:57:26 GMT oriona [1061] * cpp/frams/model/similarity/EMD/emd.c (modified) Static array removed. Sun, 24 Jan 2021 12:29:42 GMT Maciej Komosinski [1060] * framspy/FramsticksCLI.py (modified) * framspy/FramsticksEvolution.py (modified) "Vectorized" mutation for better performance due to decreased time of ... Fri, 22 Jan 2021 17:01:04 GMT Maciej Komosinski [1059] * framspy/FramsticksCLI.py (modified) Warn when the number of performance evaluations is different from the ... Fri, 08 Jan 2021 16:54:11 GMT sz [1058] * java/Framclipse/com.framsticks.framclipse/res/framscript.xml (modified) updated for Framsticks50rc16 (ModelSimilarity replaced by ... Tue, 29 Dec 2020 23:26:25 GMT Maciej Komosinski [1057] * framspy/FramsticksEvolution.py (modified) Updated to match changes from r1024 Mon, 28 Dec 2020 01:06:52 GMT Maciej Komosinski [1056] * cpp/README.txt (modified) * cpp/frams/genetics/fS/fS_general.cpp (modified) * cpp/frams/genetics/fS/fS_oper.cpp (modified) * cpp/frams/genetics/fS/fS_oper.h (modified) * cpp/frams/model/geometry/geometryutils.cpp (modified) * cpp/frams/model/geometry/geometryutils.h (modified) * cpp/frams/model/geometry/part_distance_estimator.h (modified) Cosmetic Sun, 27 Dec 2020 18:39:44 GMT Maciej Komosinski [1055] * cpp/frams/model/similarity/SVD/lapack.cpp (modified) Added a workaround (potentially incorrect) for numerical instability ... Sun, 27 Dec 2020 18:36:02 GMT Maciej Komosinski [1054] * cpp/frams/model/similarity/measure-distribution.cpp (modified) * cpp/frams/model/similarity/measure-greedy.cpp (modified) * cpp/frams/model/similarity/measure-hungarian.cpp (modified) * cpp/frams/model/similarity/simil-measure.cpp (modified) Proper paramtab group names for similarity measures Sun, 27 Dec 2020 18:35:00 GMT Maciej Komosinski [1053] * cpp/common/nonstd_math.h (modified) Implemented missing ffs(int) for Windows compilers Fri, 11 Dec 2020 23:32:55 GMT Maciej Komosinski [1052] * cpp/frams/model/similarity/measure-distribution.cpp (modified) * cpp/frams/model/similarity/measure-greedy.cpp (modified) * cpp/frams/model/similarity/measure-hungarian.cpp (modified) * cpp/frams/model/similarity/simil-measure.cpp (modified) * cpp/frams/model/similarity/simil-measure.h (modified) Added a helper function; cosmetic changes in names and descriptions