Avida

 

root / development / source

Revision Log Mode:


Legend:

Added
Modified
Copied or renamed
Rev Chgset Date Author Log Message
(edit) @3664 [3664] 6 months zaman added immunity_reaction and fixed immunity_task
(edit) @3655 [3655] 6 months baerb In text viewer set it so the correct name of the instruction set file will …
(edit) @3651 [3651] 7 months blwalker Added WRITE_CLONE, WRITE_INJECT_EVENTS, and WRITE_COMPETITION analyze …
(edit) @3650 [3650] 7 months pakanati Another minor avida viewer bug related to zooming, caused by indexing …
(edit) @3649 [3649] 7 months pakanati fixed small bug in viewer where reactions had to ALL have resources or …
(edit) @3648 [3648] 7 months goingssh Added SetMigrant?() call to cell chosen for migration when using …
(edit) @3645 [3645] 7 months hjg Added support for an inject deme event that injects a deme with an …
(edit) @3642 [3642] 7 months dk bugfix: hgt fragment transformation was broken; added error checking on …
(edit) @3641 [3641] 7 months dk Added post-selection HGT fragment transformations.
(edit) @3638 [3638] 7 months dk Added option to scramble HGT fragments prior to insertion or replacement.
(edit) @3634 [3634] 7 months dk added missing include for std::random_shuffle.
(edit) @3633 [3633] 7 months dk Added print action to calculate average edit distance, enabled …
(edit) @3632 [3632] 7 months dk Added neighborhood-based HGT conjugation.
(edit) @3631 [3631] 7 months blwalker Hey, check it out, I fail at not deleting random sections of code. Fixed …
(edit) @3630 [3630] 7 months blwalker Fixed some comments. Clearly copy-paste had been abused…
(edit) @3629 [3629] 7 months dk Added hgt conjugation, refactored genome splitting.
(edit) @3626 [3626] 7 months blwalker Moved lineage label to the last column of SaveStructuredPopulation? so it …
(edit) @3623 [3623] 7 months blwalker Added "lineage" option to DETAIL documentation (the option was already …
(edit) @3622 [3622] 7 months dk Added HGT source option.
(edit) @3618 [3618] 7 months beckma24 Rework of active messages. Active messages no longer casue interrupts. …
(edit) @3614 [3614] 8 months connel42 Fixed logic error in my MeanKill? event
(edit) @3594 [3594] 8 months beckma24 Enhanced interrupt.dat
(edit) @3590 [3590] 8 months beckma24 Push data of message being sent into organism's output buffer so that …
(edit) @3589 [3589] 8 months beckma24 Sending a message is an output, so call to DoOutput? method has be …
(edit) @3587 [3587] 8 months blwalker Make destroy instruction actually destroy resources.
(edit) @3582 [3582] 8 months beckma24 Added a few more message types, 6 total. Fixed …
(edit) @3581 [3581] 8 months beckma24 Active messages can now trigger thread-based interrupts. Interrupts …
(edit) @3580 [3580] 8 months beckma24 Added instructions and config options for thread-centric version of the …
(edit) @3578 [3578] 9 months jbarrick New BASE_MERIT_METHOD 7 = assign merit from gestation time. Fixed …
(edit) @3577 [3577] 9 months beckma24 Added cHardwareCPU::InterruptThread? that is called to start an interrupt.
(edit) @3576 [3576] 9 months beckma24 Initial step toward incorporating active messages and interrupts. Added …
(edit) @3573 [3573] 9 months connel42 Changed some stats associated to organism kill events. Removed …
(edit) @3569 [3569] 9 months goingssh Added reaction requesite for total number of reactions completed (max and …
(edit) @3565 [3565] 9 months connel42 Added additional kill event that looks at the mean resource levels
(edit) @3563 [3563] 9 months brysonda Add new tBufferedList class to the tools. This class functions similar …
(edit) @3556 [3556] 9 months dk HGT refactoring.
(edit) @3553 [3553] 9 months beckma24 Added event KillWithinRadiusBelowResourceThresholdTestAll?
(edit) @3549 [3549] 9 months brysonda Add 'die' instruction to cHardwareExperimental.
(edit) @3548 [3548] 9 months brysonda Implement out and zero register instruction in cHardwareExperimental
(edit) @3547 [3547] 9 months connel42 Added additional output to orgs_killed data file and expanded kill event …
(edit) @3546 [3546] 9 months dk hgt updates. modularized fragment selection, added unbiased substring …
(edit) @3543 [3543] 9 months dk Added tracking of the beginning of an HGT match.
(edit) @3532 [3532] 10 months baerb Made changes to allow code to compile under Windows Visual Studio 2005
(edit) @3531 [3531] 10 months brysonda Tweak cHardwareExperimental goto instruction to use direct labels.
(edit) @3530 [3530] 10 months baerb Added some modification to the enzyme reaction.
(edit) @3525 [3525] 10 months brysonda Fix typos in cHardwareExperimental.
(edit) @3521 [3521] 10 months blwalker Change a -1 to ~0 in cBitArray; the Intel compiler was complaining about …
(edit) @3516 [3516] 10 months brysonda Update cHardwareExperimental for phase 2 tests. New/Renamed …
(edit) @3506 [3506] 11 months dk bugfix in hgt code.
(edit) @3503 [3503] 11 months brysonda Implement a new cRunningStats class that calculates running statistics …
(edit) @3501 [3501] 11 months brysonda Fix a couple of compile warnings. Unused variable in …
(edit) @3499 [3499] 11 months blwalker New version of CommandPrintPhenotypes?: - handles any number of tasks …
(edit) @3498 [3498] 11 months brysonda Fix infinite loop in cHardwareExperimental::FindNopSequenceStart?
(edit) @3495 [3495] 11 months dk updated HGT to respect genome circularity
(edit) @3492 [3492] 11 months brysonda And yet a few more sign-comparison warnings when built via cmake (on …
(edit) @3490 [3490] 11 months brysonda Attempt to squash one last sign-comparison warning when built via cmake.
(edit) @3489 [3489] 11 months brysonda Small fix to malloc_extension.cc. Rodan's version of linux apparently …
(edit) @3488 [3488] 11 months brysonda Merge branches/tcmalloc-1.4 into development
(edit) @3469 [3469] 11 months dk Added HGT replace option.
(edit) @3468 [3468] 11 months brysonda Add command line option to toggle configuration 'defaulting to' warnings. …
(edit) @3467 [3467] 11 months dk Added config option to override calculated deme fitnesses for competition, …
(edit) @3466 [3466] 11 months brysonda Fix some debug mode sign comparison warnings in tcmalloc.
(edit) @3465 [3465] 11 months brysonda Add state grid instructions to cHardwareExperimental.
(edit) @3464 [3464] 11 months dk Updates to HGT code, including substring matching for genomes.
(edit) @3459 [3459] 11 months connel42 Updated a few kill actions to include new stats
(edit) @3458 [3458] 11 months brysonda Squash all remaining compiler warnings under Xcode/GCC 4.2, including the …
(edit) @3457 [3457] 11 months brysonda Fix NULL instruction index in cHardwareExperimental.
(edit) @3456 [3456] 11 months beckma24 Added column to orgs_killed.dat that displayed number of unoccupied cells …
(edit) @3455 [3455] 11 months connel42 re-implemented action to kill organisms within a certain radius if some …
(edit) @3453 [3453] 11 months brysonda Cleanup cHardwareExperimental instruction variants.
(edit) @3452 [3452] 11 months dk Updated docstring for WORLD_GEOMETRY.
(edit) @3450 [3450] 11 months brysonda Correct cHardwareCPU instruction incorrectly marked as 'default'
(edit) @3448 [3448] 11 months connel42 Fixed some bugs in my print actions, added a few bitstring operators
(edit) @3447 [3447] 11 months dk Added sanity checking to flash instruction to prevent memory explosion, …
(edit) @3445 [3445] 11 months brysonda Add support for LONG string loading and manipulation. - Eliminated the use …
(edit) @3444 [3444] 11 months brysonda Correct PrintGenotypeColorGrid? so that it performs the same coloring …
(edit) @3443 [3443] 11 months dk Added support for DEMES_PREVENT_STERILE to CompeteDemes?.
(edit) @3442 [3442] 11 months dk Added buffer size limit for opinion-setting, removed stale messaging …
(edit) @3439 [3439] 11 months brysonda Add new print action, DumpGenotypeColorGrid?. This action dumps a …
(edit) @3438 [3438] 11 months dk Refactored message-related code in cOrganism. Fixed a potential dangling …
(edit) @3437 [3437] 11 months goingssh fixed bugs in 2 new events from last commit
(edit) @3436 [3436] 11 months goingssh Added 2 new events 1. PrintNewTasksDataPlus? - prints same info as …
(edit) @3435 [3435] 11 months dk bugfix to message stat tracking when organisms are in the test CPU.
(edit) @3434 [3434] 11 months brysonda Some tweaks and corrections to 'direct' label instruction variants. These …
(edit) @3433 [3433] 11 months brysonda The Great Configuration Update of 2009! - Renamed 'classic' organisms and …
(edit) @3432 [3432] 11 months dk merging deme tournaments, generic opinion-related deme actions.
(edit) @3431 [3431] 11 months brysonda Implement concurrent support for un'label'd nop sequence instructions in …
(edit) @3430 [3430] 11 months dk merging data distribution actions, etc.
(edit) @3429 [3429] 11 months dk added missing include for algorithm.
(edit) @3428 [3428] 11 months dk Merged last remaining bits of consensus-related code.
(edit) @3426 [3426] 12 months brysonda Fix cEnvironment::TestOuput? to properly mark reactions in reaction_count …
(edit) @3423 [3423] 12 months brysonda Remove -ffast-math compiler argument. This should eliminate test …
(edit) @3422 [3422] 12 months brysonda Some reorganization of cDoubleSum, for clarity.
(edit) @3421 [3421] 12 months brysonda Alter stats.dat generation to avoid negative zeros (-0). This should …
(edit) @3420 [3420] 12 months brysonda Alter event file processing to report more useful error messages and exit …
(edit) @3416 [3416] 12 months brysonda Adjust cDataFile to unify number formatting of the first data line with …
(edit) @3415 [3415] 12 months brysonda Implement execution offset compensation for structured population dumps. …
(edit) @3414 [3414] 12 months brysonda Small performance tweak to cTestCPU::ProcessGestation?. Removed a …
(edit) @3413 [3413] 12 months brysonda Reorganize cMutationRates internal structures to reflect death_prob's role …
(edit) @3411 [3411] 12 months brysonda Fix a couple of possible paths in which cPhenotype may not have properly …
Note: See TracRevisionLog for help on using the revision log.