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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

fixed the switch to host statement

github.com/BioJulia/ragel - 76559622ab8dd53d91e22554cf2a42bb69b33cea authored over 10 years ago by Adrian Thurston <[email protected]>
removed the nested host hack

github.com/BioJulia/ragel - 39f19282afb3a8d98e512455bbc0111e8c395fa5 authored over 10 years ago by Adrian Thurston <[email protected]>
improvements to host/gen escaping in longest match blocks

github.com/BioJulia/ragel - 207f71f8365f26d4a60245d306e991e0aed81699 authored over 10 years ago by Adrian Thurston <[email protected]>
host/gen code escaping in goto code generators

github.com/BioJulia/ragel - d3cc8002b80745155ec9c165c75e0a4265bc9a6c authored over 10 years ago by Adrian Thurston <[email protected]>
inline item: expanded SubAction to the different kinds of nested host/gen code

github.com/BioJulia/ragel - 77365e508f153c754890f95dccec5d093d45aefc authored over 10 years ago by Adrian Thurston <[email protected]>
some formatting and ordering

github.com/BioJulia/ragel - 0e0fc3322b6d3981d978443ff8aa167faec700f0 authored over 10 years ago by Adrian Thurston <[email protected]>
work on the boundary between host and generated code

github.com/BioJulia/ragel - 12e52a7011084da81fc5ea317d940d30a5112de4 authored over 10 years ago by Adrian Thurston <[email protected]>
removed the * operator, don't write when translating -> expressions

github.com/BioJulia/ragel - 2a12a3c5fb31db62d93d68b3decd3458eaa7b428 authored over 10 years ago by Adrian Thurston <[email protected]>
eliminated ++ and -- from the intermediate language

github.com/BioJulia/ragel - f0182ae8866b4c4db2fe63fdc8c09eec71295c0b authored over 10 years ago by Adrian Thurston <[email protected]>
updated copyrights (old code generators gone)

github.com/BioJulia/ragel - b9202e11beb925449bc23a4847dafbeba3a7b89e authored over 10 years ago by Adrian Thurston <[email protected]>
intermediate lang: syntax and define name improvements

github.com/BioJulia/ragel - 9da92bf55bca79deeb4cf70b3a482898e1465435 authored over 10 years ago by Adrian Thurston <[email protected]>
removed break keyword from blocked case stmt

github.com/BioJulia/ragel - 1b711b3b818edda49e34c9fc7286a624b882270d authored over 10 years ago by Adrian Thurston <[email protected]>
Merge branch 'master' of ssh://complang.org/var/git/ragel

github.com/BioJulia/ragel - f74c37c5e6570314a294b5dc6c968a565172f54e authored over 10 years ago by Adrian Thurston <[email protected]>
ruby test case translator

github.com/BioJulia/ragel - d03b44d238ae952a57369926c8dbcb8b4faef558 authored over 10 years ago by Adrian Thurston <[email protected]>
wrap LM_SWITCH in escape to generated code, made switch syntax current

github.com/BioJulia/ragel - 5bbe3070c1aedf6a8459ac494aac706b5114e761 authored over 10 years ago by Adrian Thurston <[email protected]>
escape to generated code in EXEC

github.com/BioJulia/ragel - 62e2ab6457969c699cfe0f4304c2911822c68b48 authored over 10 years ago by Adrian Thurston <[email protected]>
d codegen: add default statements if not present

github.com/BioJulia/ragel - 0a755fa69307383aabed8952da6bc4917a9c35d8 authored over 10 years ago by Adrian Thurston <[email protected]>
added a syntax for default switch cases

github.com/BioJulia/ragel - 704cb5f17d0b718a1466cc7c840ec802da60dcb6 authored over 10 years ago by Adrian Thurston <[email protected]>
added a syntax for a nested host code block, use for the SUB_ACTION node

github.com/BioJulia/ragel - 6c3b0d569d2af150e5f8fd8d4eebeb47283e0a5d authored over 10 years ago by Adrian Thurston <[email protected]>
removed _eof_trans label, just use the match label

github.com/BioJulia/ragel - ddd146217c5be6186368bc82b6141a46683dbd92 authored over 10 years ago by Adrian Thurston <[email protected]>
java test case translator

github.com/BioJulia/ragel - 4387860030eb16ddfa9a18ee0adf757e95d2efa2 authored over 10 years ago by Adrian Thurston <[email protected]>
makefile: use $(EXEEXT) for executable targets

github.com/BioJulia/ragel - 786c08e7a3c5e52c90d46510558be244e5b0de23 authored over 10 years ago by Adrian Thurston <[email protected]>
removed old java and ruby code generators

github.com/BioJulia/ragel - ef93b13ba69d78b50ad66a7ef72d826438cad208 authored over 10 years ago by Adrian Thurston <[email protected]>
removed debug statement

github.com/BioJulia/ragel - 1f8eaeddd4d676165670f347c5134f18bf70fdbe authored over 10 years ago by Adrian Thurston <[email protected]>
A few more tests.

github.com/BioJulia/IntervalTrees.jl - 45e56e625298b3215c72b48fbefa644da5223687 authored over 10 years ago by Daniel Jones <[email protected]>
Fix BoundsError on insertion. Fixes #3.

github.com/BioJulia/IntervalTrees.jl - 5cd393d274a3cc679a822c45288d3946d67534b4 authored over 10 years ago by Daniel Jones <[email protected]>
added the casel statement for c-style cases

The case statement was modified to expect a block of statements. This would
require significant ...

github.com/BioJulia/ragel - dab28bef2bbe486984f68c2586f59fa937000150 authored over 10 years ago by Adrian Thurston <[email protected]>
handle ruby inline block in prepush and postpop

github.com/BioJulia/ragel - 1a9e4bd1dcdd997aed06857fa90c7ce75437c685 authored over 10 years ago by Adrian Thurston <[email protected]>
frontend grammar for ruby, allows test ruby1.rl to pass

github.com/BioJulia/ragel - ac53095568de66268719337bd489a318114140c4 authored over 10 years ago by Adrian Thurston <[email protected]>
warning fixes

github.com/BioJulia/ragel - 4230ea7330d31b120eff4124d591aca71b1c030f authored over 10 years ago by Adrian Thurston <[email protected]>
added compile to gitignore

github.com/BioJulia/ragel - 81f36f21cdaa03d154dfd3650cc4c23ec0d8f711 authored over 10 years ago by Adrian Thurston <[email protected]>
flat: proper host and generated escapes

github.com/BioJulia/ragel - b832c30e6b056f38c104cfab3a1cb99a44f1ed24 authored over 10 years ago by Adrian Thurston <[email protected]>
flat: entry labels and ++ -> +=

github.com/BioJulia/ragel - b3d87ee97f2c52477eb9dfa537be21dafe3c4a81 authored over 10 years ago by Adrian Thurston <[email protected]>
new case syntax in flat codegens

github.com/BioJulia/ragel - 6ac369a644c82b454fd099c0f055aec734964e0b authored over 10 years ago by Adrian Thurston <[email protected]>
binexp: use += 1 for p increment

github.com/BioJulia/ragel - b67f0463a40641685319db8c180dccb26f6dbf65 authored over 10 years ago by Adrian Thurston <[email protected]>
use entry block in binexp

github.com/BioJulia/ragel - b0b7b57f6110c461e5846b911c3a4e68ed587372 authored over 10 years ago by Adrian Thurston <[email protected]>
new case label syntax for bin loop

github.com/BioJulia/ragel - 06ad202215ba5b5110af08e9b1293d839ea5d3af authored over 10 years ago by Adrian Thurston <[email protected]>
removed extra {} and () from intermediate lang code blocks, generate in code

github.com/BioJulia/ragel - 7ce633e726349d032fa3d796847d84e681143fdb authored over 10 years ago by Adrian Thurston <[email protected]>
allow pound comments in action blocks (supports ruby)

github.com/BioJulia/ragel - bebd175001169253984e8afed453a03b6407c9bf authored over 10 years ago by Adrian Thurston <[email protected]>
ruby: added syntax for exports

github.com/BioJulia/ragel - 72229867a6bdff24c125be3973a65192b8cd9852 authored over 10 years ago by Adrian Thurston <[email protected]>
add .ord when converting strings to numbers

github.com/BioJulia/ragel - 9be7cee7ad87197a7159acb37a7ac3b6dd925927 authored over 10 years ago by Adrian Thurston <[email protected]>
put a statement list inside case, allowing control of use of breaks

github.com/BioJulia/ragel - 6d80af9fcfed126bb6a3e08db2a6f7082d0b539e authored over 10 years ago by Adrian Thurston <[email protected]>
ruby: track entry loop context and generate cascading breaks for to fake goto

github.com/BioJulia/ragel - 8da756aa50a4d6bf5c2119293b559af6f2f15924 authored over 10 years ago by Adrian Thurston <[email protected]>
ruby: need to break at the end of a ruby entry loop

github.com/BioJulia/ragel - 275874b83f31b8079596d3efa336bbfff4c23ca4 authored over 10 years ago by Adrian Thurston <[email protected]>
ruby test case: use print instead of puts

github.com/BioJulia/ragel - 66ffd2d1eac2e25cd3de8e37dc26a43ecf935bc9 authored over 10 years ago by Adrian Thurston <[email protected]>
ruby: declare ints using 'v = 0' syntax

github.com/BioJulia/ragel - 81ea1de732f6b358fce30ba239163d45234b6306 authored over 10 years ago by Adrian Thurston <[email protected]>
a couple ruby syntax fixes

github.com/BioJulia/ragel - 0a0acfa1232f4f780dd952f29a7a48a27b6bcd42 authored over 10 years ago by Adrian Thurston <[email protected]>
replaced ++ and -- with += 1 and -= 1

github.com/BioJulia/ragel - fbf52868b59062a4790aa2940d6a2fd14b51bf50 authored over 10 years ago by Adrian Thurston <[email protected]>
add block delims to embedded host in lang-specific code gens

Was doing this in the lang-indep code generator and always using {}. Need to
stop this with ruby...

github.com/BioJulia/ragel - 86043e41c3c6e455f257026241454caa80912735 authored over 10 years ago by Adrian Thurston <[email protected]>
added an embedded host form that means 'plain code'

Now have three forms:
1. Plain code
2. Statement blocks (can be wrapped in {} in C)
3. Expres...

github.com/BioJulia/ragel - 18f0bc3e28231a22dafaf63505b3760a50f8bb74 authored over 10 years ago by Adrian Thurston <[email protected]>
Add coveralls badge. Test just on julia 0.3 for now.

github.com/BioJulia/IntervalTrees.jl - d3a9f84665d7da1139c175d103c7f3b197252a35 authored over 10 years ago by Daniel Jones <[email protected]>
Enable Coverage.jl/coveralls.io.

github.com/BioJulia/IntervalTrees.jl - 22e687cd4d94e4ae48cd9421686c245dc93ea20c authored over 10 years ago by Daniel Jones <[email protected]>
minor typos in README

github.com/BioJulia/IntervalTrees.jl - 0fb19572a5e15bdf3216f85c2316a18e78a2e6a1 authored over 10 years ago by Richard Smith-Unna <[email protected]>
Fix typo in type parameters.

github.com/BioJulia/IntervalTrees.jl - cf9cd4d75a6037aaf5d07b71f9a3c327b90ecea6 authored over 10 years ago by Daniel Jones <[email protected]>
README additions.

github.com/BioJulia/IntervalTrees.jl - 36f65f84f206b6e189c4b4b384261817b412fae5 authored over 10 years ago by Daniel Jones <[email protected]>
Define intersect, get, getindex over trees.

github.com/BioJulia/IntervalTrees.jl - 6c9cc70718e02a436ae142e2c9c76a82938116ff authored over 10 years ago by Daniel Jones <[email protected]>
Implement intersection operations.

github.com/BioJulia/IntervalTrees.jl - 2d54d606d5de4d07fcdfe76d434db28b83a15933 authored over 10 years ago by Daniel Jones <[email protected]>
start on ruby code generator

have arrays and some language constructs

github.com/BioJulia/ragel - a7ffbd3d6db8bb27e44fdf4b7e89622e4f828d26 authored over 10 years ago by Adrian Thurston <[email protected]>
More insertion optimization.

github.com/BioJulia/IntervalTrees.jl - 239ca258f9f4380f1f6bd86adc259de4bbaa66b2 authored over 10 years ago by Daniel Jones <[email protected]>
Represent intervals internally with an interval type instead of tuples.

github.com/BioJulia/IntervalTrees.jl - 076ee20af4f4ea5429e70b5900cb59c7bfee7324 authored over 10 years ago by Daniel Jones <[email protected]>
Travis needs to install FactCheck.

github.com/BioJulia/IntervalTrees.jl - 56dec64cd1f5e7170096fa479c505145152f747b authored over 10 years ago by Daniel Jones <[email protected]>
Typo

github.com/BioJulia/IntervalTrees.jl - e2debe6b6b7cd30269f166586101be2652a20b1a authored over 10 years ago by Daniel Jones <[email protected]>
Optimization.

github.com/BioJulia/IntervalTrees.jl - 7ff016ca220ed7bfca7538ea61ed6bc86cf93326 authored over 10 years ago by Daniel Jones <[email protected]>
Travis support.

github.com/BioJulia/IntervalTrees.jl - dfbfa6afc8bcea7ad433572a13dbcca4c7263723 authored over 10 years ago by Daniel Jones <[email protected]>
Implement deletion.

github.com/BioJulia/IntervalTrees.jl - ab430cd36f2a12478a781bcbb4fe6a0e329d71e7 authored over 10 years ago by Daniel Jones <[email protected]>
Store maxend fields in the nodes themselves.

github.com/BioJulia/IntervalTrees.jl - 94d85400ec2b26a3ba5c8a1bb24e3e3ffc275a48 authored over 10 years ago by Daniel Jones <[email protected]>
Maxend fields should be per child, not per key.

github.com/BioJulia/IntervalTrees.jl - 2dcc52d95ab16e05cee0d5fd1a80c10edeaf9e23 authored over 10 years ago by Daniel Jones <[email protected]>
Left and right sibling pointers, parent pointers, more tests.

github.com/BioJulia/IntervalTrees.jl - a12929076c18a525432426f2ba00ffc18ae7a8de authored over 10 years ago by Daniel Jones <[email protected]>
README and LICENSE

github.com/BioJulia/IntervalTrees.jl - 209e43bcb46c9c1e663a15d328ad6d4dea74fbe5 authored over 10 years ago by Daniel Jones <[email protected]>
Working insertion.

github.com/BioJulia/IntervalTrees.jl - b1a97a0475f5295cb6a0a0ec633a4ed258e5c435 authored over 10 years ago by Daniel Jones <[email protected]>
Some initial work.

github.com/BioJulia/IntervalTrees.jl - c5073c33fe98c0cd569db16cf9d042c6868ab614 authored over 10 years ago by Daniel Jones <[email protected]>
first cut at java code generator

github.com/BioJulia/ragel - 776424fdef4d9a01d0aa3330d0737d6720977741 authored over 10 years ago by Adrian Thurston <[email protected]>
indep lang: added abstraction for gotos used in table code

Added entry block, labels, and goto labels abstraction. This allows translation
to other constru...

github.com/BioJulia/ragel - cba3a4468a3e662e6435dde1fa82bebd4259252b authored over 10 years ago by Adrian Thurston <[email protected]>
init _trans and _cond (for java target)

github.com/BioJulia/ragel - cdde87ceadb9362e05962426e009426816b095f8 authored over 10 years ago by Adrian Thurston <[email protected]>
binary: added embedded indep code delimiters for goto, call, etc

This code was not being translated from the indep language. Worked for existing
languages, not f...

github.com/BioJulia/ragel - fd3acac443d656605499fd824c2009ac758103b5 authored over 10 years ago by Adrian Thurston <[email protected]>
Merge pull request #12 from dcjones/master

Require julia 0.3

github.com/BioJulia/Bio.jl - 26547403ebaaabc5e7ece07f0d8ee73656c4d744 authored over 10 years ago by Richard Smith-Unna <[email protected]>
Require julia 0.3

github.com/BioJulia/Bio.jl - 878be3bb8b900c7d0fde7ee56f67b73409c740aa authored over 10 years ago by Daniel Jones <[email protected]>
Merge pull request #11 from Blahah/travis

fix Travis integration

github.com/BioJulia/Bio.jl - c2df86ed7fc2dec63e706e3e7f68cb8325a162ff authored over 10 years ago by Daniel Jones <[email protected]>
attempted travis fix - run tests from current directory

github.com/BioJulia/Bio.jl - edda1900a74cd88a672bfd7c2210df5f851582cc authored over 10 years ago by Richard Smith <[email protected]>
Merge pull request #10 from Blahah/basic_structure

basic structure and test setup (fix #2, #3)

github.com/BioJulia/Bio.jl - a3c370bbd0e3297e25ff51e3ed54bbaa17284381 authored over 10 years ago by Ben J. Ward <[email protected]>
basic structure and test setup

github.com/BioJulia/Bio.jl - c669d492afedc50dd32ce40d6570ad350d3811d0 authored over 10 years ago by Richard Smith <[email protected]>
removed C++ based c#, go and d code generators

github.com/BioJulia/ragel - 2ca9aef388821dba946f0f33e76c58c005b217f3 authored over 10 years ago by Adrian Thurston <[email protected]>
rest of the test case translators converted to full walk

github.com/BioJulia/ragel - adc216179143a0a2e0d42da73fbbfe5f6bf10a89 authored over 10 years ago by Adrian Thurston <[email protected]>
more of the c test translator filled in, all tests pass

github.com/BioJulia/ragel - 198344d5ecdb1a1eb69dc60d96cb51bd2ac2ec9a authored over 10 years ago by Adrian Thurston <[email protected]>
committing to full walk C test case generator, more constructs added

github.com/BioJulia/ragel - da763b1b7cde8157ffa7d7a427d1a19dd22eb9a1 authored over 10 years ago by Adrian Thurston <[email protected]>
C indep test cases: use the full walk for init code

github.com/BioJulia/ragel - 31c8f426aae2b245f7847482c0d4c931ecfae473 authored over 10 years ago by Adrian Thurston <[email protected]>
C test cases: use the new full walk for variable declarations

github.com/BioJulia/ragel - 3d52d55a0f632b48a32e97723ca2cef6f158f941 authored over 10 years ago by Adrian Thurston <[email protected]>
refactored the expr grammar

github.com/BioJulia/ragel - b70d9adaa17b804d3da806270c2d2e0cd75773ad authored over 10 years ago by Adrian Thurston <[email protected]>
working on a full-walk test case translator

github.com/BioJulia/ragel - 2a3d77a2db801ead30860400a40fd82cc7aa6709 authored over 10 years ago by Adrian Thurston <[email protected]>
trans: clearing out some unsued literals and grammar forms

github.com/BioJulia/ragel - 56ebbcc931bca375a8590101f29617c0f244ae58 authored over 10 years ago by Adrian Thurston <[email protected]>
trans-*: expanded the print statements

github.com/BioJulia/ragel - 49595135e7b14a74187c3d8ffa27e81d5ddb830d authored over 10 years ago by Adrian Thurston <[email protected]>
removed action_block from trans::stmt

github.com/BioJulia/ragel - bd08595021f041ea42c13ab5440924a775704ee0 authored over 10 years ago by Adrian Thurston <[email protected]>
refactoring grammar items out of trans::stmt

github.com/BioJulia/ragel - 7a669c7e1cabfe3d17dff8bdaccbbb2e858a4e43 authored over 10 years ago by Adrian Thurston <[email protected]>
simplifying indep::stmt

github.com/BioJulia/ragel - 98a60fb8db713b2190e6c916e17d2ccd01a660c5 authored over 10 years ago by Adrian Thurston <[email protected]>
going to do a full walk of trans::stmt in each test case translator

github.com/BioJulia/ragel - d236852bf2823a273e72e2540882d03a5c2371ba authored over 10 years ago by Adrian Thurston <[email protected]>
update Gitter link to the public room

github.com/BioJulia/Bio.jl - 9712fcae36fc78aa41e3ce137eeb15d7c5a53eb2 authored over 10 years ago by Richard Smith-Unna <[email protected]>
c# test case translator now working for all test cases

github.com/BioJulia/ragel - 7e19a7c7f2566d605d9373cdf8b4016ff47acbbe authored over 10 years ago by Adrian Thurston <[email protected]>
added a char value type, use it to write out character vals in c#

github.com/BioJulia/ragel - 7571f7b8969627e3d0f4a39730ffdc55ffa0b806 authored over 10 years ago by Adrian Thurston <[email protected]>
csharp: translating uints to '\uXX' chars

This gets us through a -T0 tranlation. What we really need though is a syntax
for char-typed val...

github.com/BioJulia/ragel - 311fc9b800eb3d03f6bda87ea7ceb1a41eb3948b authored over 10 years ago by Adrian Thurston <[email protected]>
some cleanup of the number grammer, also added export value translate

github.com/BioJulia/ragel - 578cadcdbe356d12b4f144418414b68b4b4ce704 authored over 10 years ago by Adrian Thurston <[email protected]>