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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

Update REQUIRE compat version (#44)

github.com/BioJulia/Libz.jl - 9cc98d1a505a70a0ff7257cd32f6d86868fa2582 authored almost 8 years ago by Mus M <[email protected]>
Fix deprecated takebuf_array method (#43)

github.com/BioJulia/Libz.jl - e0d26595f232a4267dc78a430462033f75e806bd authored almost 8 years ago by Mus M <[email protected]>
fix escaping of class

github.com/BioJulia/Automa.jl - e2a588cb0d359dc87c6d7f7b2f977b37f0f0e559 authored almost 8 years ago by Kenta Sato <[email protected]>
make optimize option work in tokenizer

github.com/BioJulia/Automa.jl - aa5d9e3e9649c4f81e783543f9465158eee957cd authored almost 8 years ago by Kenta Sato <[email protected]>
fix example/tokenizer.jl

github.com/BioJulia/Automa.jl - e85fc47037b7064650c0456fe0962901600b9141 authored almost 8 years ago by Kenta Sato <[email protected]>
add tokenizer example

github.com/BioJulia/Automa.jl - cbbeeb6b78869bdd1c3cdb9a447422bdca82ae27 authored almost 8 years ago by Kenta Sato <[email protected]>
fix error handling of tokenizer

github.com/BioJulia/Automa.jl - 2a68e75797348da36032b3c39bb92ad51b1d1584 authored almost 8 years ago by Kenta Sato <[email protected]>
Fix deprecated takebuf_string method (#42)

* Update to remove string.data

* Fix deprecated takebuf_string method

github.com/BioJulia/Libz.jl - dec44069e601c33931042cc7640e561fba74bc2b authored almost 8 years ago by Mus M <[email protected]>
Update to remove string.data (#41)

github.com/BioJulia/Libz.jl - bc80187c0232724bf2425c0478f11537216f741c authored almost 8 years ago by Mus M <[email protected]>
Fix issue #369 (#370)

* Changed StringField from SubString constructor

* Added StringField constructor method for S...

github.com/BioJulia/Bio.jl - 8c7118ec1f9b009aea2cbadac3a68475c3dbeff9 authored almost 8 years ago by Ben J. Ward <[email protected]>
add a prototype of tokenizer

github.com/BioJulia/Automa.jl - e7de84e515f1f8939c38dbafdcc4dc9f4d5230a8 authored almost 8 years ago by Kenta Sato <[email protected]>
add final action

github.com/BioJulia/Automa.jl - ee0ef1a7a404134b551b021032f9dc9826b3c8f4 authored almost 8 years ago by Kenta Sato <[email protected]>
remove a redundant argument

github.com/BioJulia/Automa.jl - 8ecf820c6e6ff484140e04f9e4853ff1baa34d2e authored almost 8 years ago by Kenta Sato <[email protected]>
simplify optimize option

github.com/BioJulia/Automa.jl - 0cd4e56d4314330398d536b9c9673139f4124f0c authored almost 8 years ago by Kenta Sato <[email protected]>
add check and getbyte

github.com/BioJulia/Automa.jl - 82fa35c95284e294cc0880f6fe064bc6b98f054b authored almost 8 years ago by Kenta Sato <[email protected]>
update README

github.com/BioJulia/Automa.jl - e16b1c83c11f6e087699192337c241fd2d180e1f authored almost 8 years ago by Kenta Sato <[email protected]>
run examples in tests

github.com/BioJulia/Automa.jl - 533c39f44bf17c6e99ec43611c0969d793695e04 authored almost 8 years ago by Kenta Sato <[email protected]>
assign unique order for each action name

github.com/BioJulia/Automa.jl - bef7656d257ad888362cc5ba9d2d5a3458de5128 authored almost 8 years ago by Kenta Sato <[email protected]>
align code

github.com/BioJulia/Automa.jl - 3b06d96611815ec5c012e17f885dfd7e8847fed6 authored almost 8 years ago by Kenta Sato <[email protected]>
add example/numbers.jl

github.com/BioJulia/Automa.jl - 8c3d3f5ce0eddb1ff3a72b272a0c1cbad616f3ef authored almost 8 years ago by Kenta Sato <[email protected]>
make the state distinction rule more strict

github.com/BioJulia/Automa.jl - 3bbf631b5e1733d94f326ea2397634594db9b85b authored almost 8 years ago by Kenta Sato <[email protected]>
fix FASTA example

github.com/BioJulia/Automa.jl - 7558ef815fe7e374dc26f2ae49eb55786653d4e2 authored almost 8 years ago by Kenta Sato <[email protected]>
add tests

github.com/BioJulia/Automa.jl - de00dafa34f49661619f6c21a01b0bd2e36104f9 authored almost 8 years ago by Kenta Sato <[email protected]>
fix label print for ByteSet

github.com/BioJulia/Automa.jl - 73049e76b1e89ba04ce4de1497e8de0cc9f7335b authored almost 8 years ago by Kenta Sato <[email protected]>
make edges of EOF dashed

github.com/BioJulia/Automa.jl - d96825555d1eb78c41a3da95eb61d3b08030d8cc authored almost 8 years ago by Kenta Sato <[email protected]>
remove duplicated actions

github.com/BioJulia/Automa.jl - d545ab3e0163695fe0d61470e4985455328aaab2 authored almost 8 years ago by Kenta Sato <[email protected]>
run outsider exit actions later

github.com/BioJulia/Automa.jl - 6a3d9f6f0d20ddef0c8ba48a99293fa6810520fd authored almost 8 years ago by Kenta Sato <[email protected]>
fix space

github.com/BioJulia/Automa.jl - 69ea19728de709812bb0bc12b9e3910e25a5d186 authored almost 8 years ago by Kenta Sato <[email protected]>
reduce edges in dfa2dot

github.com/BioJulia/Automa.jl - 3f591422a948cdf8066170eb6676a508aadb7c1b authored almost 8 years ago by Kenta Sato <[email protected]>
fix transition

github.com/BioJulia/Automa.jl - d8cf5a7c3fed9013096776fe80d709e24309ffcd authored almost 8 years ago by Kenta Sato <[email protected]>
move compact_labels back

github.com/BioJulia/Automa.jl - 1cab38588f0bc5266e002ae5374af67acbfc3d40 authored almost 8 years ago by Kenta Sato <[email protected]>
use ByteSet

github.com/BioJulia/Automa.jl - 10c51b585e6292954b4da61d169aa5e04fb2e787 authored almost 8 years ago by Kenta Sato <[email protected]>
export re_str macro from Automa.RegExp

github.com/BioJulia/Automa.jl - dfc9ae846e752ae4b0c1a9dc89b2579ed62b67aa authored almost 8 years ago by Kenta Sato <[email protected]>
save DFA in machine

github.com/BioJulia/Automa.jl - f867d2e1abae61d639e7d55554ecb162e0087262 authored almost 8 years ago by Kenta Sato <[email protected]>
rewrite regular expression

github.com/BioJulia/Automa.jl - ff33c4aefaf8a38884954f3c0ed39803c688a98f authored almost 8 years ago by Kenta Sato <[email protected]>
fix opt

github.com/BioJulia/Automa.jl - 52aa1a6fab8801d8c2a8e1cc7a64304659a8fb30 authored almost 8 years ago by Kenta Sato <[email protected]>
add negation

github.com/BioJulia/Automa.jl - fbea2ec78a4688e26cd8d5efa5a945a27c9b17bf authored almost 8 years ago by Kenta Sato <[email protected]>
remove dead states in DFA

github.com/BioJulia/Automa.jl - 55b92df913268f7e532d3976bff4d1e784f31b04 authored almost 8 years ago by Kenta Sato <[email protected]>
remove move_actions

github.com/BioJulia/Automa.jl - 5cfda5aefdd0cf97183ae35ec0e862a7eda460f6 authored almost 8 years ago by Kenta Sato <[email protected]>
add rep1, any, ascii, and space

github.com/BioJulia/Automa.jl - a0c8ef2607e3050d83a81ce59455234f637cb15e authored almost 8 years ago by Kenta Sato <[email protected]>
move compact_labels

github.com/BioJulia/Automa.jl - ca89f183eea640ee01eed0b2df3431dfc651fb0e authored almost 8 years ago by Kenta Sato <[email protected]>
rename generator functions

github.com/BioJulia/Automa.jl - 3c01f9c86db42bba498f6a16aec434888bd89320 authored almost 8 years ago by Kenta Sato <[email protected]>
widen sequence characters of FASTA

github.com/BioJulia/Automa.jl - 2b64beb8b80a112e59de409de92c898281d09b43 authored almost 8 years ago by Kenta Sato <[email protected]>
add str

github.com/BioJulia/Automa.jl - 87faab1405eec92a60f1b52e1d4b38751c556c5d authored almost 8 years ago by Kenta Sato <[email protected]>
delay desugaring

github.com/BioJulia/Automa.jl - 0197ea0bc288d85c1e1f264577e31a98c6a36a51 authored almost 8 years ago by Kenta Sato <[email protected]>
wrap regular expression APIs inside a module

github.com/BioJulia/Automa.jl - d22ebed63b522828d5bbd6030739f5ccdaf4dc62 authored almost 8 years ago by Kenta Sato <[email protected]>
make empty class throw an error

github.com/BioJulia/Automa.jl - fe1ca0f39b38df40a14a1fecb210b5341ae8995d authored almost 8 years ago by Kenta Sato <[email protected]>
implement backslash escaping

github.com/BioJulia/Automa.jl - b7c308af29c5cb36c61e6e4f4b656cd445de9b56 authored almost 8 years ago by Kenta Sato <[email protected]>
simplify cat insertion

github.com/BioJulia/Automa.jl - be9884da7c609420ee9ad2a72f95a7bb1ec433bf authored almost 8 years ago by Kenta Sato <[email protected]>
fix non-ascii label printing

github.com/BioJulia/Automa.jl - 99c8c44c312ba3cd294ba0cc6bb7745f3f103549 authored almost 8 years ago by Kenta Sato <[email protected]>
add . char

github.com/BioJulia/Automa.jl - 39aba4e268aea6b583683fb298458c7f4a0bcaab authored almost 8 years ago by Kenta Sato <[email protected]>
fix FASTA example

github.com/BioJulia/Automa.jl - 407082939837b6e052b6012c8a99a73c7f2d4668 authored almost 8 years ago by Kenta Sato <[email protected]>
move actions argument from machines to code generators

github.com/BioJulia/Automa.jl - 42bfef80e351739f649faa6c3b45c09db0bb2fbf authored almost 8 years ago by Kenta Sato <[email protected]>
rename a local variable

github.com/BioJulia/Automa.jl - a6a77d7237dbb328e7cf48e216597b6e593dbb64 authored almost 8 years ago by Kenta Sato <[email protected]>
rename accept_states to final_states

github.com/BioJulia/Automa.jl - f31d896fc45b10b89388c4074bbbf6a4cb6342c9 authored almost 8 years ago by Kenta Sato <[email protected]>
add the escape control macro

github.com/BioJulia/Automa.jl - 71a836d6fa9351737c2d058b60688cc79a21272d authored almost 8 years ago by Kenta Sato <[email protected]>
simplify generated code

github.com/BioJulia/Automa.jl - 6bdcbd84483b7d08d799e08b12f59c8d49210628 authored almost 8 years ago by Kenta Sato <[email protected]>
fix desugar

github.com/BioJulia/Automa.jl - c363aae2df9ae116c9ebe20c554ca65e910ee6bd authored almost 8 years ago by Kenta Sato <[email protected]>
add opt

github.com/BioJulia/Automa.jl - b165d637929248cbf5b65a8dde95b823e7f181ab authored almost 8 years ago by Kenta Sato <[email protected]>
add remove_dead_states for NFA

github.com/BioJulia/Automa.jl - 4c1d0f538d19106bb6b4f87a032e491a62b83d52 authored almost 8 years ago by Kenta Sato <[email protected]>
add DataStructures to REQUIRE

github.com/BioJulia/Automa.jl - 78b359d6616e18ea25ef1bab068288bb5893bbd8 authored almost 8 years ago by Kenta Sato <[email protected]>
add range operator

github.com/BioJulia/Automa.jl - 93f32c849c4e7a46e7dd0ac907b397e65661798e authored almost 8 years ago by Kenta Sato <[email protected]>
check arity in re2nfa9

github.com/BioJulia/Automa.jl - 264b8cb26e4e97fd33ee2e4b0145c7ab70b2f894 authored almost 8 years ago by Kenta Sato <[email protected]>
add isec operation

github.com/BioJulia/Automa.jl - 10dfbf84eaa78d4fb3c3b901586a9336517f3ef5 authored almost 8 years ago by Kenta Sato <[email protected]>
add diff operation

github.com/BioJulia/Automa.jl - 419d34b78ec3897827817f900fa242c7b8e0d53f authored almost 8 years ago by Kenta Sato <[email protected]>
use Set{Action}

github.com/BioJulia/Automa.jl - 820d2b89a5cb92d9123d610b6939508d13eaffd4 authored almost 8 years ago by Kenta Sato <[email protected]>
use Action type everywhere

github.com/BioJulia/Automa.jl - 11fa2f71f3dd9f75b97584cb384d6b90007cde9e authored almost 8 years ago by Kenta Sato <[email protected]>
refactor NFA transition

github.com/BioJulia/Automa.jl - 4699ad2de53106cec958ce0facdb0bad68bd05e2 authored almost 8 years ago by Kenta Sato <[email protected]>
add type constraints to re2nfa_rec

github.com/BioJulia/Automa.jl - 94e0e7c46386b4c1e781d0a8e7c381a58008396d authored almost 8 years ago by Kenta Sato <[email protected]>
Update README.md

github.com/BioJulia/attobot - 53bf4a262134dd5df22a43e1a279626572d2c4aa authored almost 8 years ago by Simon Byrne <[email protected]>
Update instructions for deleting tag (#8)

github.com/BioJulia/attobot - dc2b021663fa99c1d35b9fbe1337377a8098d382 authored almost 8 years ago by Simon Byrne <[email protected]>
Update README.md

github.com/BioJulia/attobot - 8dde55ef5325741a514995d9d03fd0324093582d authored almost 8 years ago by Simon Byrne <[email protected]>
fix comments

github.com/BioJulia/Automa.jl - dc6a88d81fad93a802c7172895633b96787952f3 authored almost 8 years ago by Kenta Sato <[email protected]>
fix char class parser

github.com/BioJulia/Automa.jl - 42a15da928fb67dcbd85234e52ad8a43c6ab7f13 authored almost 8 years ago by Kenta Sato <[email protected]>
slightly improve performance of distinct_states

github.com/BioJulia/Automa.jl - e3bc227aa50950e3b0df09b30694e03515ea0f11 authored almost 8 years ago by Kenta Sato <[email protected]>
refactor generate_eof_action_code

github.com/BioJulia/Automa.jl - fb1fca855b67bb26e1f7de890737398236f10f8e authored almost 8 years ago by Kenta Sato <[email protected]>
refactor generate_action_code

github.com/BioJulia/Automa.jl - a5f2ad58d1cbf138f72c4b3cebfed88e2304907f authored almost 8 years ago by Kenta Sato <[email protected]>
add inbounds option

github.com/BioJulia/Automa.jl - 50e7a7a13406bd3a3c745cdc729a36f904c5401d authored almost 8 years ago by Kenta Sato <[email protected]>
remove a comment

github.com/BioJulia/Automa.jl - c5af355029e01b92205c6d9b61f2c204b70aecfc authored almost 8 years ago by Kenta Sato <[email protected]>
clean up code

github.com/BioJulia/Automa.jl - 44d094b6ef0aa7cc9d5c6f5a07930f5dd821bb63 authored almost 8 years ago by Kenta Sato <[email protected]>
add inline code generator

github.com/BioJulia/Automa.jl - ce3fe75caf00fcfd58c6c668b9bfead91b487184 authored almost 8 years ago by Kenta Sato <[email protected]>
fix FASTA pattern

github.com/BioJulia/Automa.jl - 59204ecadde3b8254b0a246ba5dc288c3ec9b84d authored almost 8 years ago by Kenta Sato <[email protected]>
make table looking-up faster

github.com/BioJulia/Automa.jl - 9bf343da0e25da34bff4d04ac52cfb41714c3067 authored almost 8 years ago by Kenta Sato <[email protected]>
small clean-up of code

github.com/BioJulia/Automa.jl - 5b5c08049e4816ae2439800cd43a8917cb7f6b32 authored almost 8 years ago by Kenta Sato <[email protected]>
remove old code

github.com/BioJulia/Automa.jl - 8d1b3eb5c54d9aebecff709ecfbde65aa2d07d2e authored almost 8 years ago by Kenta Sato <[email protected]>
add + and ? quantifier

github.com/BioJulia/Automa.jl - 04e4e97e93bb378257789f445bccf0ed09a418ee authored almost 8 years ago by Kenta Sato <[email protected]>
align code

github.com/BioJulia/Automa.jl - 96c02cf932c2555fbe143c14a74be9557794d79e authored almost 8 years ago by Kenta Sato <[email protected]>
fix newline

github.com/BioJulia/Automa.jl - 41cde0bf5c3ffe8efe2629690eaaf31c585bdfa3 authored almost 8 years ago by Kenta Sato <[email protected]>
add code

github.com/BioJulia/Automa.jl - a04a3afa6b126e5afce7107337b5e48c820a3ce8 authored almost 8 years ago by Kenta Sato <[email protected]>
Minor urgent typo fix for dating.jl

github.com/BioJulia/Bio.jl - 23f209ded52dd4b4f434895a99c721a0779b9ac8 authored almost 8 years ago by Ben J. Ward <[email protected]>
Automa.jl generated files.

license: MIT
authors: Kenta Sato
years: 2016
user: bicycle1885

Julia V...

github.com/BioJulia/Automa.jl - cabca64cfd377d7056f99ce85cd86329962f6622 authored almost 8 years ago by Kenta Sato <[email protected]>
initial empty commit

github.com/BioJulia/Automa.jl - ff4c9c78b313d2f8e3d6dac736213bb51a2c673e authored almost 8 years ago by Kenta Sato <[email protected]>
Merge pull request #10 from ararslan/aa/markdown-newline

Ensure the requires diff is newline-terminated

github.com/BioJulia/attobot - cdd7109cbc97baf156eec49ede1ed68475b5b84d authored almost 8 years ago by Simon Byrne <[email protected]>
Ensure the requires diff is newline-terminated

This should fix cases where the triple backquote that ends markdown code
blocks isn't on its own...

github.com/BioJulia/attobot - 029168849effb3c9f0a94476b7b467786df65ef0 authored almost 8 years ago by Alex Arslan <[email protected]>
fix resname spacing bug

github.com/BioJulia/Bio.jl - 79d9fbae3f4b0b6162914d4f86869617924e8b07 authored almost 8 years ago by Joe Greener <[email protected]>
fix typo (#367)

github.com/BioJulia/Bio.jl - e4cf92270cff283325b33c861a530dca1b52df38 authored almost 8 years ago by Manabu ISHII <[email protected]>
fix resname spacing bug

github.com/BioJulia/Bio.jl - 3cf8b68167e12579c740d665f418d662c5ac75ba authored almost 8 years ago by Joe Greener <[email protected]>
Fix copy(::GFFAttributes). Fixes #363 (#364)

github.com/BioJulia/Bio.jl - 7f0f809bb685281bc739f8708cce47aaac9b3d66 authored almost 8 years ago by Daniel C. Jones <[email protected]>
Merge pull request #5 from bicycle1885/patch-2

Fix the regular expression of tag names

github.com/BioJulia/attobot - c5a41f19145168d1c8703af851ca16f9b4879b11 authored almost 8 years ago by Simon Byrne <[email protected]>
Fix the regular expression of tag names

github.com/BioJulia/attobot - acc12f360b21f7abc166ee2075599160dd0fb71a authored almost 8 years ago by Kenta Sato (佐藤 建太) <[email protected]>