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BioJulia
Bioinformatics and Computational Biology in Julia
Collective -
Host: opensource -
https://opencollective.com/biojulia
- Website: https://biojulia.net
- Code: https://github.com/BioJulia
github.com/BioJulia/ragel - 58feea11c05f54a48fcb809d01bc1c6cd7a9cce6 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 6202a614ece78cc0d947a3692142c6e375372420 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - d685465d3978ee15032fd9636d3442ce8d5290e9 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - b254b396770a6a632a12cc1ff1734501973c6d9c authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 03ea258cdbc939053703a979f9ddc746a953dda1 authored almost 12 years ago by Adrian Thurston <[email protected]>
This causes error actions/transtions to work correctly when conditions fail,
and not just the ke...
This was for the exhaustion of key space used up by conditions. This can still
happen, but it is...
github.com/BioJulia/ragel - e3ac94a796ac3fc5de55efc73981046913d7fa56 authored almost 12 years ago by Adrian Thurston <[email protected]>
The notion of a base key was from the original condition implementation. Also
removed some some ...
github.com/BioJulia/ragel - 3e536c7a191be25a9b5acd84615ae5999451b9c5 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - c79f75b0b2ef839c0b6d04ac784c06d523d4e585 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 6cdb645fbc9fb416c4b873fa0161e41fbee751e5 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 2fa38319373f7c9ce0e8ac7476c399ea2a5e2e97 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - a36388ab32ae6d067a9592ca95095efda9f9ca2e authored almost 12 years ago by Adrian Thurston <[email protected]>
also uppercased gen functions that were in camel case
github.com/BioJulia/ragel - 436b7ef6a2358849c603e25435fa5990a36642cf authored almost 12 years ago by Adrian Thurston <[email protected]>github.com/BioJulia/ragel - 1e32dc1b210897fbd39d0b2a7dc0b1058c704116 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 40de1a27c7d87369b13596aae4c2101c8e1de85d authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 56f1d073559fdf817a427c05f8d29f6c6b98ca22 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 5832e79f9f3b0ceb47832a835f6d2bb26be4112e authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 897d7b7a34fa79bcc9a5b978bb8a269cad4e3688 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 640b5dd992b57125d461501402ac2108249ce30f authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 0dfcd3eff40d7870110586eed112c94af2b254fa authored almost 12 years ago by Adrian Thurston <[email protected]>
Can't yet eliminate the function entirely becuase there was an important side
effect of setting ...
github.com/BioJulia/ragel - f216a9b718f090e97493eadf80962e657d365fd6 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - e5b3f12c0d8907cd3bb435fb0f9bf5d3f54ca82a authored almost 12 years ago by Adrian Thurston <[email protected]>
Will now eliminate the data structure support for the original condition
implementation. Will al...
github.com/BioJulia/ragel - e84130a75d0b77877343517b504ea1e448ad0cef authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - bdb636abfe0bafe4c6a42f919150c4653246cc5f authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 2324b05db81c5ecdb4f1ab0576e075377fdbfeb6 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - c0a3ac60cd7522b4bcb207a712c331b72ff47d42 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - e8897a612e92cdcd8f336214ed5c4a6480652a0e authored almost 12 years ago by Adrian Thurston <[email protected]>
Makes all tests pass under -l -T0 options.
github.com/BioJulia/ragel - 98817a4c4a9e332164fb3c47d8578fa8548f85ea authored almost 12 years ago by Adrian Thurston <[email protected]>
This is due to the error transition failing cond lookups. Need a proper error
transition here.
github.com/BioJulia/ragel - ce408954835ab863620d17a88af73a44813b126e authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - c596e2091b4a69774ad2e40346117880cf1351bf authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - d9ec4703a58026b87b567d4d38aeeb0dd8c824be authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 89431e2a6e4ea5a57a77ec7399bef924d05c341e authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 57d9b2a50b1da5b427c2468b5f11ef59dcf6fb76 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - bd7de71f5b99a5c4b2f0062ad2ae386605f3e872 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - c8741d8d724ef4a68c73a835408816b061a2d50c authored almost 12 years ago by Adrian Thurston <[email protected]>
Moved the calcArray size from binary, into binary looped class. There is one
for the looped and ...
The TableArray class will be used to collect information on tables, then to
generate them. We wi...
github.com/BioJulia/ragel - 088379423be29016f2def86fc304e100766ecd0a authored almost 12 years ago by Adrian Thurston <[email protected]>
The cond2 test now works, many other tests are broken however, as these changes
affect all state...
github.com/BioJulia/ragel - ea2b40dfd2fddbe4cbd27436899bb3d0ae690c86 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 825f46154eebf91272bcabf2a95b554775ee2d8a authored almost 12 years ago by Adrian Thurston <[email protected]>
The condition tests now work for GotoLooped and GotoExpanded.
github.com/BioJulia/ragel - 1b1102c96b5d58c17522bde3271ceb6e7e55d4cc authored almost 12 years ago by Adrian Thurston <[email protected]>github.com/BioJulia/ragel - 78730f3befb7cce2087eb2870764dd99174c5c8e authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 088cd2ce68109632aecafe9e9d381d7dcf7fba37 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 1282d80016431bc61eb826b82de1b4425efc67a2 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 28283a43a3d8ad968fccd03b96fb2930bf611f08 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - c42ccc950d86ba798dbae18ab759e2157dff58d8 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 90cf4b06d7f251c2062bbfa241c92bb79dff73ec authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - dc5e887ac76985d669040243989d441314699695 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 2bb974dcc4968e909f5fb54e8cc581bbf496d1e1 authored almost 12 years ago by Adrian Thurston <[email protected]>
Restructuring the class hierarchy. Rather than having code generators inherit
from other code ge...
This was used as the base to the code style and the language and allowed
combining the two disti...
Since breaking apart the C and D code generators these classes are no longer necessary.
github.com/BioJulia/ragel - d3aad46bec30aa1b250dcfc37356643048bee6ca authored almost 12 years ago by Adrian Thurston <[email protected]>github.com/BioJulia/ragel - b7a52bd074e84211e38af0cfde092844e9fe0dac authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - b68cb9ebc18c7825e990346138575ad86eb88641 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 36bc14d005df5594e4a793a2950550ced47a138a authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 196ecbc2d1ff17c477d977fe0772ca92e592915d authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - bd1199944a0b17180d8afc2075e9ca60e4c9fd20 authored almost 12 years ago by Adrian Thurston <[email protected]>
We are now attaching all of the expansions and detaching afterwards. Was
neglecting to attach th...
github.com/BioJulia/ragel - 8dcc8efdca6952ffa24551fbb0555ba2586c4b32 authored almost 12 years ago by Adrian Thurston <[email protected]>
The expanded copy of the source transitions need to be attached otherwise they
are not meaningfu...
This is the error transition taken when no condition transition matches.
github.com/BioJulia/ragel - a6d0590892585dc2d543ed9a32dae96307ba221a authored almost 12 years ago by Adrian Thurston <[email protected]>github.com/BioJulia/ragel - 57f34614739a989e2f3b3576dc6bbce86cf923ea authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 537d3b9ce0bb6073d4f85e1362ec8d9cd12bb320 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - dc902fd899ab72222e10dc02a7bc900e843876ca authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 602132fdf525a40f72b63ee2f1c33cff83f8b0c2 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - e39908b7ebb5bf2fb23a080bd9f0c89a231f4912 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 3d5e03dc7493e56c9656610201c0d4701a39a5bf authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 98dc6f20cccc685dd5f58a3533950cd22f78b032 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 34df0030fa5e33bc1edd09b5c538a39cec14fdb8 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 6031a486e294ca3def3b64255937a8d4eec099f1 authored almost 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 6a3f7c25ae6025c815b6a65a87b8a79f6073bdb1 authored almost 12 years ago by Adrian Thurston <[email protected]>
Added uprefs on condition actions in transitions. Testing condition block
calls, no jumps yet.
This generator is now generating only C so we don't need the base class that
provides the C-Spec...
github.com/BioJulia/ragel - 55e625027dcf42ee0f3854ee3d356fc8cc632e45 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 0a3c78796c4d65c67e682500787d8481829eeaec authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - c56ad5fe67cedb730a34a57bcb121b162aa60617 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - f0b83887e08e06dd724f493e92bb75c73e99fc39 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 9bef44694d6ff7685f64b01afcc7b87a8cc89cbd authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 31d8f024fe2efd44bc7ce3d6aadba8da4df2b763 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 9584f8091f34f7c20a9fc66c7116b68c7a36a4bb authored about 12 years ago by Adrian Thurston <[email protected]>
will do the same with the rest
github.com/BioJulia/ragel - aff16e1137236f3f2fcd8877642b80d9fbfe5f14 authored about 12 years ago by Adrian Thurston <[email protected]>github.com/BioJulia/ragel - be3c8983bdd6913fb0b66b5913226fdc5483ed0b authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - a84f60424c9b241b0d2a59968a85fa19e2d633c5 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 0cfb45c1e404eab5f1f07257798734b1d8713c18 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 1009cd1079d2a3a6ade207e902c5943d07a9aee9 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 56a5fb59dd38cb55277edd4d318da2b6452520b1 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 55ab4069c3de7f99a78d19330b00d345ea0db0a2 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 92b2823f374620837a8e24784515ae6e6538afad authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 2854621a24492d89e4f5236d61975d95c24a1f4f authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - c8290d34a3831490e158a2db01faad0fdbe154ee authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 9ddf551cdd689fab8bfd9e85c051e5428ad45732 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - d4401402f7e9fd51953a9df13675e4a8ce2581ce authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 125ff2ec84df7c67944fe25e420b261797b90f08 authored about 12 years ago by Adrian Thurston <[email protected]>
github.com/BioJulia/ragel - 51bd76b7f43a93e30beea6d03a69eb3d6c0bcb46 authored about 12 years ago by Adrian Thurston <[email protected]>