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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
applicable in Ruby and Java code only.
github.com/BioJulia/ragel - 0791b5fe251377005113e87cf28d34910bd157df authored over 17 years agogithub.com/BioJulia/ragel - ae8c1cf5108f3f31a69f07e26b0479df0c455f04 authored over 17 years ago
github.com/BioJulia/ragel - 35a49213842e4793032f4c0e63392e9f15acbf37 authored over 17 years ago
github.com/BioJulia/ragel - edba9d1d539c9224aa70810cf2928d6204d2d2ea authored over 17 years ago
following the previous commit.
github.com/BioJulia/ragel - f40a647192521e729f692eb1a5e7cd261d35b0ec authored over 17 years agoat the end. This leaves scanner actions free to manipulate p and removes the
need for the special...
generated scanner actions.
github.com/BioJulia/ragel - 2ef05308a93d53df9f25a54280bf0b2c5b002bbc authored over 17 years agogithub.com/BioJulia/ragel - 0e7b3e25bccd42d1385abea5b6011189bf733a40 authored over 17 years ago
github.com/BioJulia/ragel - c2aea7910c8934bb91d14f01c0385cc8170781a8 authored over 17 years ago
github.com/BioJulia/ragel - c7c63a899e841ee4c3e12506b885a968669a1553 authored over 17 years ago
github.com/BioJulia/ragel - 0205b71aab5317bea8c83872ec7f8d55bc7adbc6 authored over 17 years ago
causing the backend to reject the intermediate format. From Tim Potter.
github.com/BioJulia/ragel - 7508b821588f887c6ba9e1eb34ddcb367a4cb81f authored over 17 years agofrom-state actions which clear and set tokstart.
github.com/BioJulia/ragel - 7555fdc4ce176c4a9e724881b9a5a8f976aefe56 authored over 17 years agogithub.com/BioJulia/ragel - a5a4f8c9a0ee69fe14837f493ce8ff3491b214c8 authored over 17 years ago
github.com/BioJulia/ragel - 4a29f359e78c409ee9d7cfc2255122f345419952 authored over 17 years ago
languages.
github.com/BioJulia/ragel - ba17e1605d6df322185eaaf0760fa792b5a54c02 authored over 17 years agoexecutable code (rlgen-cd -G2) p was left at the character where the error
occurred, which is cor...
github.com/BioJulia/ragel - 58679392108ecbd86169082fa02fdd5b7a9f323a authored over 17 years ago
github.com/BioJulia/ragel - 145b30b90fdcfb0c5f8de1c4dd231a2a406fea06 authored over 17 years ago
executables.
github.com/BioJulia/ragel - 15f3fc02455d1644c1401aeb5730cfee1c8497ef authored over 17 years agogithub.com/BioJulia/ragel - d541cba3e604b9a1190a00814ab526a90bd72d38 authored over 17 years ago
one-word internal name instead of an array offset.
The Ruby host language types were just copied...
github.com/BioJulia/ragel - 015024b626946d0a7e601a9b4f391889c232bf86 authored almost 18 years agogithub.com/BioJulia/ragel - f07f48a8beb3c3f9615cccccfc9184c175f44e00 authored almost 18 years ago
github.com/BioJulia/ragel - 9d4fa0f8a37ef279267f4de2e4b150c7688eb222 authored almost 18 years ago
if there is a mismatch.
Added an item and removed an item from the TODO.
github.com/BioJulia/ragel - cb1f23a2294f98185ce9efaa65324b8afd02497c authored almost 18 years agoimmediately. The recovery infrastructure isn't there and segfaults are likely.
When no input is ...
github.com/BioJulia/ragel - 2ababce876d0eea1de989e53ebfa9fae602d196f authored almost 18 years agoUpdated the tests.
github.com/BioJulia/ragel - 22966e3c50763511b15ae8bb17253b3c3dbb6bbc authored almost 18 years agoname used for the current state) and implemented the other names as their
defaults. Now all varia...
the necessary transformation support.
github.com/BioJulia/ragel - fa4d8daacbf13234e82298bd3ff3762b88f740ea authored almost 18 years ago
Added new condition embedding syntax:
expr inwhen cond - The transitions into the machin...
code generation.
github.com/BioJulia/ragel - c1f4f16963afc8dd71300c096718b35ebad1148c authored almost 18 years agogithub.com/BioJulia/ragel - d45f13aae7bb723562fd176c37932c8db8d01ca0 authored almost 18 years ago
github.com/BioJulia/ragel - 6682667b71c89be8df021b7697011f7d61da0d16 authored almost 18 years ago
github.com/BioJulia/ragel - b70f7e3564e021881ba57f2c4448c3960fdf651f authored almost 18 years ago
the last character of the pattern (pattern matches which do not require any
lookahead), fhold was...
github.com/BioJulia/ragel - d37e2dc86f9f2689a2713c2a046ac56e96619bdb authored almost 18 years ago
github.com/BioJulia/ragel - 6f8c273cdaee435b5757b4fa0cd382861dfdd6d3 authored almost 18 years ago
frontend will normally sort, however it may be possible that the intermediate
file gets edited, i...
github.com/BioJulia/ragel - 01d0b082c946074ceeaac04efbf3b280d5395288 authored almost 18 years ago
github.com/BioJulia/ragel - a240ac156f1ab52b0dbf9b6c4ee17cf79bdfef6c authored almost 18 years ago
github.com/BioJulia/ragel - 791d61721a201d20b895c07c8dda10b1451a85f6 authored almost 18 years ago
transformations as well.
github.com/BioJulia/ragel - 4aa8d919a54dbd6fa0749628f70a86a050f44f8d authored almost 18 years agoIts use from runtests is currently disabled.
github.com/BioJulia/ragel - f8172875fa56489a6ffc89a3acdef75dd2ed71bb authored almost 18 years agoadded the transformations necessary to support it.
github.com/BioJulia/ragel - d0cc9ce8f781cc852363ef4ce64cea2519a1a891 authored almost 18 years agogithub.com/BioJulia/ragel - 1624eee0dd4b1d11ab4d5264bdb6a466db651648 authored almost 18 years ago
github.com/BioJulia/ragel - fbedb1510f93c71228aa2ed432aa1b0fb07867b0 authored almost 18 years ago
github.com/BioJulia/ragel - ba7ff26c0bd53f9f3a6a2d578db19ee965781b3e authored almost 18 years ago
github.com/BioJulia/ragel - e57802ceb4cbb93ef0f99ee9d6f2341981d183f7 authored almost 18 years ago
github.com/BioJulia/ragel - ae0b8e5d9c57bc177ad5a1f75c4f0fde9eeb5f34 authored almost 18 years ago
github.com/BioJulia/ragel - 0cd2233ecac77db4c4a31746defd0f858d32c1be authored almost 18 years ago
need ALLOW_GENFLAGS set.
github.com/BioJulia/ragel - 33979d1c69a31198eeb05e5a73553feccb8b4ecb authored almost 18 years agoindependent test cases) working. Fixes to control flow, scanners, action
execution and others.
github.com/BioJulia/ragel - 1f3435ef4904be4e7a4ff3f4a0557ca45eb4dee1 authored almost 18 years ago
github.com/BioJulia/ragel - 357812388806c579809923f7169e166243b0a725 authored almost 18 years ago
github.com/BioJulia/ragel - 24e699bf1b13e83457f098134ba1b4208572c528 authored almost 18 years ago
header as machine definitions instead of repeating them in scanner.
github.com/BioJulia/ragel - acd3f21a3f5f9ba4a729b36cb3069a6e012df752 authored almost 18 years agothe \ character to be interpreted as an escape. Filtering through tr is one way
around this.
OSX. Use stdlib.h instead.
github.com/BioJulia/ragel - bd06e4b9f09986bbb097da9975371a054e3fcd24 authored almost 18 years agothis claim is not substantiated.
github.com/BioJulia/ragel - c1102466a41456794b82260b54f1052dd746e063 authored almost 18 years agothe write init command. If there is no main machine, cs is initialized to the
entry point of the ...
github.com/BioJulia/ragel - 55da3df7d968c19730d39c8edcf6187d81a4d157 authored almost 18 years ago
rlgen-java.
github.com/BioJulia/ragel - 2c7eb15c76a4ea1e9016f29615c242cb8d53f144 authored almost 18 years agofrom patch by Josef Goettgens.
github.com/BioJulia/ragel - 054bd8a0cab31d6f41dc5b26581e148a7c876a02 authored almost 18 years agogithub.com/BioJulia/ragel - 0743475ab26641f413c1a8ddef0b72be56b3b4a2 authored almost 18 years ago
github.com/BioJulia/ragel - df06ec5bebc086554badc5db315f895a68b91641 authored almost 18 years ago
Exports in D cannot use defines like C. Static const ints are used instead.
Removed a left-over d...
github.com/BioJulia/ragel - a40e1200465104568eccd187c636cd3073fbbdf3 authored almost 18 years ago
github.com/BioJulia/ragel - f3efff6031f2e10f992b9fe5b1b6762cd9ff0b47 authored almost 18 years ago
Scanner object which looks for outside code tokens that can be interpreted as
machine definitions...
github.com/BioJulia/ragel - d1f9c18f099743b090a70ab1618a4caef885a004 authored almost 18 years ago
github.com/BioJulia/ragel - beb36e1365c6bf1d424a9fb7c66fe87348ed264e authored almost 18 years ago
github.com/BioJulia/ragel - aeb84ec29bd4ae6617604db17eb6aecad775fd60 authored almost 18 years ago
machine without a start state and do not initialize cs in the write init code.
github.com/BioJulia/ragel - 975c2d985d3c4f0b90af89964dc68fac9f0effb3 authored almost 18 years agobetween the machine name and the export name.
github.com/BioJulia/ragel - 0e9748592dd7f9233c34996e9caf843551cfe98e authored almost 18 years agogithub.com/BioJulia/ragel - f070afdbb38224aa16ff92689b958ee38cf1b8d8 authored almost 18 years ago
At this time entry points are written as well.
github.com/BioJulia/ragel - 903140b5af721bb6fc0319bab20bec41c118b91c authored almost 18 years agoeven if they are not referenced. In the backend, entry points will be written
out alongside start...
Added it back.
github.com/BioJulia/ragel - 478bb4d6cc95e9d0ecc0791e28f564b26c1da5be authored almost 18 years agodefinitions in #define format.
Changed function names: writeOut*() => write*().
github.com/BioJulia/ragel - 45708f34570ee21801a42415ff3a517ce1b2ac26 authored almost 18 years agogithub.com/BioJulia/ragel - 772cfeae2e912c8341e33f3b4eb8ca8907333cb7 authored almost 18 years ago
github.com/BioJulia/ragel - e198d5b994667dd87b75d802ba3441a6c38436d0 authored almost 18 years ago
github.com/BioJulia/ragel - 7fd7979618620d7fb1034ff8437557844206b13d authored almost 18 years ago
forced order. Previously, ordering relied on pointer-based sets, which caused
results to vary by ...
github.com/BioJulia/ragel - 947b51210397908ceaa44eddd1e228e5eaea08f3 authored almost 18 years ago
directives.
github.com/BioJulia/ragel - 3894c9486f153ffa0ac4dd97000ce13ed2aacd93 authored almost 18 years agogithub.com/BioJulia/ragel - 3f6ccd131c51f193839c065d0e4be9a52b097055 authored almost 18 years ago
$from(action_name);
Verbose embeddings without parentheses can make code difficult to read
...
github.com/BioJulia/ragel - 86fd9ecf13bc2df2c6af93170851ff3e521907cb authored almost 18 years ago
for strcasecmp which is not available on windows.
github.com/BioJulia/ragel - bdca4ae9eb15cdd3a4f50cf842891ad35dfbb5f3 authored almost 18 years agodocumentation should be installed. Patch from Marcus Rueckert. The prefix
variable should be lowe...
github.com/BioJulia/ragel - 4fa3472fca6ed9d815011423845a6595fc0e44eb authored almost 18 years ago
github.com/BioJulia/ragel - 3981ae601c53972ff37e2b6ad0ce3f052e404301 authored almost 18 years ago
Since the numbers these functions return are usually very low and the result is
only checked with...
github.com/BioJulia/ragel - 035446fb052e6ab889f5a4034cc44ed9e17f9a00 authored almost 18 years ago
directive function does not need to guard against java code.
github.com/BioJulia/ragel - ac20faa1a7973f533f69560d7dca752a8f4932c0 authored almost 18 years agogithub.com/BioJulia/ragel - 56472582e712351583999535d289a8ad458fbd26 authored almost 18 years ago
github.com/BioJulia/ragel - 380ad54740612610868de52b3b123b170440781c authored almost 18 years ago
github.com/BioJulia/ragel - 211fb2341a1edfb0ceb7beed397df04484b3d984 authored almost 18 years ago
package maintenance developers.
github.com/BioJulia/ragel - 9c53659727166a7c9b8eeee19ed4816e34ba02d3 authored almost 18 years agogithub.com/BioJulia/ragel - 3c94b3ed03c3adaca0f44d0384321264d7a05b8a authored almost 18 years ago