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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

merge in new items when expanding condition lists

github.com/BioJulia/ragel - 98992680ff481631ece50ab0fda1fc1dfdcdfb70 authored about 12 years ago by Adrian Thurston <[email protected]>
cleaned up embedCondition

No real code changes, just updated comments and removed some dead code.

github.com/BioJulia/ragel - 11d9db39488a9ee7f1cbfb060850e2a14efc7f67 authored about 12 years ago by Adrian Thurston <[email protected]>
divided key into range key and cond key

github.com/BioJulia/ragel - 62cd2dfb14a4133346a9f59bf09085d620c52196 authored about 12 years ago by Adrian Thurston <[email protected]>
eliminated ranges from condition transitions

Condition values benefit very little from range-base orientation. We likely
have groups of value...

github.com/BioJulia/ragel - 5c02dd91c7f7b0fae5575ffe4f17031a1974fd4e authored about 12 years ago by Adrian Thurston <[email protected]>
put NextTrans in pair iters so we can specialize it per val and range

github.com/BioJulia/ragel - 63913c36565f6e4a8c5316a4349e52f9b5a14e81 authored about 12 years ago by Adrian Thurston <[email protected]>
added 'crack' to the list of languages known by xml code generator

github.com/BioJulia/ragel - 09dad859feca6cb1e8fae3bcf963c166fcffac28 authored about 12 years ago by Adrian Thurston <[email protected]>
removed the range overlap and breaking from ValPairIter

github.com/BioJulia/ragel - 844a54e7251c2af7af121f9a80fe86fe508aca05 authored about 12 years ago by Adrian Thurston <[email protected]>
cloned RangePairIter as ValPairIter

Will remove range support from ValPairIter. Using it for iterating condition
list pairs. Can the...

github.com/BioJulia/ragel - b859a054ed64424f4e986f7acb418dffde1799eb authored about 12 years ago by Adrian Thurston <[email protected]>
PairIter -> RangePairIter. Will add ValPairIter for conditions.

github.com/BioJulia/ragel - de1213d1f94be5b7546cb4fab2b96cec9c6f840d authored about 12 years ago by Adrian Thurston <[email protected]>
ignore tmp.rl because it's my common testing file

github.com/BioJulia/ragel - 2cb338a2c3109365c2553b30779ba65db6a68c88 authored about 12 years ago by Adrian Thurston <[email protected]>
moved the user state of pair iter into the pair iter class

github.com/BioJulia/ragel - e4eff5de852958806ca158643765e6cd117a8e52 authored about 12 years ago by Adrian Thurston <[email protected]>
fixed warnings in co-routine code

Follow co-routine rentry with {} instead of setting some unused variable.
Eliminates warnings an...

github.com/BioJulia/ragel - 65e0c731fd1381a913d3262f29b5e2c531ef45f0 authored about 12 years ago by Adrian Thurston <[email protected]>
merged ocaml doc updates

github.com/BioJulia/ragel - 3cef23fb89a256a05826a4199250ea998c31d0fd authored about 12 years ago by Adrian Thurston <[email protected]>
port to colm 0.8

github.com/BioJulia/ragel - bff48a622aef9d3ab6c3b6231613e6b648555156 authored about 12 years ago by Adrian Thurston <[email protected]>
port the OCaml doc changes back to the .txt file

github.com/BioJulia/ragel - f3bfdceb0330ed138bf80586c16732b8bb52ae03 authored about 12 years ago by Adrian Thurston <[email protected]>
selected edits of the guide

Taken from 37e4b8d1c277672ed948fb5638154bf3c057c2cc of
https://github.com/bluemont/ragel.git (br...

github.com/BioJulia/ragel - 8b18ea17e819860a262198fdf2580a7eafb2ca33 authored about 12 years ago by David James <[email protected]>
Added grammar transformation from language independent tests to Go1. Added -Z option for test/runtests.

github.com/BioJulia/ragel - 2dfce2e2feb7720b339dccd73601c7a1a62931ee authored about 12 years ago by Anton Ageev <[email protected]>
Added explicit type casting in tests (it needs for languages that has no implicit type conversion)

github.com/BioJulia/ragel - e9ebc91ba89cb8d98f3d2a2617739c8f6a446b1c authored about 12 years ago by Anton Ageev <[email protected]>
Fixed examples/go for Go1

github.com/BioJulia/ragel - b009a3c695a39ffe6b6f5f1f5968e46454f243d4 authored about 12 years ago by Anton Ageev <[email protected]>
Added/replaced code generators for Go1 (-T0, -T1, -F0, -F1, -G0, -G1 code styles added, -G2 code style rewritten from scratch)

github.com/BioJulia/ragel - 7c25817949accd1adaf2c85e971e88a06a6a967b authored about 12 years ago by Anton Ageev <[email protected]>
ragel director yrenamed to src

github.com/BioJulia/ragel - 37e4b8d1c277672ed948fb5638154bf3c057c2cc authored over 12 years ago by Adrian Thurston <[email protected]>
Merge remote-tracking branch 'origin/gcc-4.7'

github.com/BioJulia/ragel - beee36b54b3c89dd72ba6bbf9e18d6f65abb18dc authored over 12 years ago by Adrian Thurston <[email protected]>
need to override STATE_GOTO_ERROR in the goto code generation

github.com/BioJulia/ragel - 366411ca80cee6d66fd6b1be65b60668546fd1d7 authored over 12 years ago by Graham Miller <[email protected]>
MSVC-friendly -GT2 mode

I want to propose yet-another mode for ragel: -GT2. This is goto-driven fsm
which sometimes uses...

github.com/BioJulia/ragel - e1bc8857b719c54fb00583c2770d5fd73b78e5f5 authored over 12 years ago by Victor Khimenko <[email protected]>
mention OCaml in doc and command-line synopsis

github.com/BioJulia/ragel - 63fafc5c2f0fd782ce7c9398daa4af6dd6c3b253 authored over 12 years ago by ygrek <[email protected]>
ocaml codegen: support -G1

github.com/BioJulia/ragel - 34e363e1a4ebeee385ae00b97fac4040dd53310a authored over 12 years ago by ygrek <[email protected]>
ocaml codegen: choose unique name for type state

it makes possible to define several machines in one source file

github.com/BioJulia/ragel - ef032e1b4c97475bb1479d94d2c74f7302647890 authored over 12 years ago by ygrek <[email protected]>
explicit methods inherited from base templates

Starting with GCC 4.7, you have to explicit methods inherited from
base templates, otherwise it ...

github.com/BioJulia/ragel - 79a1cded22e07dd1b8b5379543abd26a7832d0ca authored over 12 years ago by Diego Elio Pettenò <[email protected]>
configure.in -> configure.ac

github.com/BioJulia/ragel - 48add4eba50f633c43131a0d319fb7d496f30c7a authored over 12 years ago by Adrian Thurston <[email protected]>
moved away closed issues

github.com/BioJulia/ragel - 54836e5ccd7d21fe9c25f1c9023a40a1abc6f8b3 authored over 12 years ago by Adrian Thurston <[email protected]>
converted the issues to text and split into files by id

github.com/BioJulia/ragel - 805203ebc531db31a7566a31144b3e20b1ecbe78 authored over 12 years ago by Adrian Thurston <[email protected]>
don't default CXXFLAGS, it is bad manners

github.com/BioJulia/ragel - cba12ef49cab0a6ec3c8aa3cb179f55c1bbb8432 authored over 12 years ago by Adrian Thurston <[email protected]>
printing issue ids

Added an xsl transformation for printing issue ids. Made the issues ID well
formed. Was the conc...

github.com/BioJulia/ragel - 34a5a21995be13673ea09a9c0a369573453e7077 authored over 12 years ago by Adrian Thurston <[email protected]>
Checked in the output of the generation. Makes it easier to diff the output

against expected. Updated the output too.

github.com/BioJulia/ragel - b729221f57b218ecf6a48aaf49f7f5be745c4264 authored over 12 years ago by Adrian Thurston <[email protected]>
Add crack language generator

github.com/BioJulia/ragel - 21caa92b2704204469a3edeb4faeefa3f1c4f6ae authored over 12 years ago by Conrad Steenberg <[email protected]>
Ignore .o files in /ragel.

github.com/BioJulia/ragel - 603cb03724b207170607026b4ea8c3be41280e0b authored over 12 years ago by Adrian Thurston <[email protected]>
automated conversion of svn:ignore properties to .gitignore files on trunk

github.com/BioJulia/ragel - 74e182865be8ba7233733b1d15e149c9038c1ae6 authored over 12 years ago by Adrian Thurston <[email protected]>
Added missing issues.

github.com/BioJulia/ragel - 1cc3538ba24b137030d525e924aa07c3a17d6bfa authored over 12 years ago by Adrian Thurston <[email protected]>
Exported the issues from redmine. Going to try managing issues manually, in the

source. Purpose is to simplify working offline.

github.com/BioJulia/ragel - b26097c5e2e2f9a65e205550bf984cad816ca393 authored over 12 years ago by Adrian Thurston <[email protected]>
Use the license content from the source file. refs #311.

github.com/BioJulia/ragel - 2452455d757a74cfbab21bdf48599861e51f4a21 authored over 12 years ago by Adrian Thurston <[email protected]>
Working on paragraphs. Starting to use it for license. refs #311.

github.com/BioJulia/ragel - 961d58f634aa2d4f8e028bb839c3113fa5f39e26 authored over 12 years ago by Adrian Thurston <[email protected]>
Some more refactoring on the structure. refs #311.

github.com/BioJulia/ragel - 412123abc91856e922f47bacecadc04584c03e5c authored over 12 years ago by Adrian Thurston <[email protected]>
Some language cleanup. refs #311.

github.com/BioJulia/ragel - 6cca3b3b5c205da85efafdb801552f2fb9b6609a authored over 12 years ago by Adrian Thurston <[email protected]>
Unifying some of the scanning regions. refs #311. Still need to clean up names.

github.com/BioJulia/ragel - 411f41fafc987251c66c80afac47f8136a72d043 authored over 12 years ago by Adrian Thurston <[email protected]>
Don't use dirdata for the heading names, use the main data token. refs #311.

github.com/BioJulia/ragel - a66fe9f235fbebb6bba00bc1efee3a176b6ce38f authored over 12 years ago by Adrian Thurston <[email protected]>
Added a license section. Not passing to the output yet.

github.com/BioJulia/ragel - d57eb01489cb5fb1af52f286210ae28d088f4ff8 authored over 12 years ago by Adrian Thurston <[email protected]>
Take the title, subtitle, author from the .txt file.

github.com/BioJulia/ragel - 02e90939b01c0894c53f1d11f6a3033ea561c031 authored over 12 years ago by Adrian Thurston <[email protected]>
Title, subtitle, author.

github.com/BioJulia/ragel - 427bbb69013beb6ae477ff4479b24f1a77ff80b3 authored over 12 years ago by Adrian Thurston <[email protected]>
Changed amp to dot. All escapes to comman language now begin with a dot.

refs #311.

github.com/BioJulia/ragel - 1857d2374c4bc2a2a3135e176ee62eb52dca260e authored over 12 years ago by Adrian Thurston <[email protected]>
No longer going line-by-line, even though we have the primary item still called

line. refs #311.

github.com/BioJulia/ragel - c9a76fc76a3fa7b2270a294756145ccd846d2129 authored over 12 years ago by Adrian Thurston <[email protected]>
Changed the inline command @@ to just a single amp. Probably will switch to '.'

and eliminate the line-by-line consumption. refs #311.

github.com/BioJulia/ragel - 104306561732a9a42e047dbb517ffb4cf604e8c3 authored over 12 years ago by Adrian Thurston <[email protected]>
The last of the latex is now gone from source file. Introduced a number of

spacing changes to the output in order to eliminate the uncontrolled layout
placements. Should be...

github.com/BioJulia/ragel - b20c2b3f9967cfef8e8a70fbe16f1502d711aaa2 authored over 12 years ago by Adrian Thurston <[email protected]>
Put a verbspace after every code and verbatim block. refs #311.

github.com/BioJulia/ragel - 21913a27d11377a4aa48a2168dad1fc576dac9c1 authored over 12 years ago by Adrian Thurston <[email protected]>
bring orig up to date for the new list. refs #311.

github.com/BioJulia/ragel - 20b77aeb0d04d67982b0c71a632c5ff1f28702c6 authored over 12 years ago by Adrian Thurston <[email protected]>
Syntax for the list (no bullets or numbers). refs #311.

github.com/BioJulia/ragel - 0c5c73880712d997ac1306f4c3d180cc963cfda5 authored over 12 years ago by Adrian Thurston <[email protected]>
Added captions for figures. refs #311.

github.com/BioJulia/ragel - 8750940de81bf85016cbf012e0e18f52fb5ab4bd authored over 12 years ago by Adrian Thurston <[email protected]>
Syntax for figigure. refs #311.

github.com/BioJulia/ragel - d0c9533056583d0b170c73cf3a307ba6427437aa authored over 12 years ago by Adrian Thurston <[email protected]>
Eliminated .verbatim inside .code. refs #311.

github.com/BioJulia/ragel - 2d751a0b8aaa09197665b12c23a99322bfd06642 authored over 12 years ago by Adrian Thurston <[email protected]>
Syntax for labels and references. refs #311.

github.com/BioJulia/ragel - 68d315f25df87e1ea6e0228db7fb2958f9417840 authored over 12 years ago by Adrian Thurston <[email protected]>
Added a syntax for non-line-orient verbatim. refs #311.

github.com/BioJulia/ragel - b06917e4be36caa733f268de8290ace4708db264 authored over 12 years ago by Adrian Thurston <[email protected]>
make orig current

github.com/BioJulia/ragel - 9e526ece323cd0a4228d9428fde4034980b49c0b authored over 12 years ago by Adrian Thurston <[email protected]>
Work on subsections, subsubsections and itemize. refs #311.

github.com/BioJulia/ragel - 32dae0fe94eb4c89396e57883356d49b5eb09558 authored over 12 years ago by Adrian Thurston <[email protected]>
Updating orig to reflect sanctioned changes. refs #311

github.com/BioJulia/ragel - 9fb86e4b4c8c8f1e248c253180a5ad4714db8f40 authored over 12 years ago by Adrian Thurston <[email protected]>
Added a .code directive for the inline_code. Now wrapping the graphic in

graphspace. refs #311.

github.com/BioJulia/ragel - 35023fbfc180eca8b5d2054c4660f3e03372d6ae authored over 12 years ago by Adrian Thurston <[email protected]>
Used .comment for remaining \\comment directives. refs #311

github.com/BioJulia/ragel - 205032a86215eace0ef6a158fe8ffaca088e4c75 authored over 12 years ago by Adrian Thurston <[email protected]>
Added verbatim and graphics commands. refs #311.

github.com/BioJulia/ragel - e51f6bf7d1f9c0c40258ed86cf9410d3e41a2197 authored over 12 years ago by Adrian Thurston <[email protected]>
Added .comment section for commenting out whole blocks of text. refs #311.

github.com/BioJulia/ragel - f493eed1cd9ee1a0dc5ebec5a19f1dd43cc238fd authored over 12 years ago by Adrian Thurston <[email protected]>
Content is now coming from the input file. Added a basic document structure

with chapters and sections. Generting latex document directly using print
statements. refs #311.

github.com/BioJulia/ragel - c271b2aa9ecac11d261b492859d63dc1d7f9003c authored over 12 years ago by Adrian Thurston <[email protected]>
Dot code generation now done in its own class. refs #319

github.com/BioJulia/ragel - b9a2ae90b8ca2c914ba1334df9f6a8b69e5e7e78 authored about 13 years ago by Adrian Thurston <[email protected]>
Now have CodeGenData inheriting ReducedGen. Unified in interface, but not yet

in implementation. refs #321

github.com/BioJulia/ragel - 491fbfaceb79c0208b15a098cd2cb1565e7e08fd authored about 13 years ago by Adrian Thurston <[email protected]>
Passing an args struct into the code gen objects. Makes it easy to alter the

arguments without modifying a whole lot of constructor functions. refs #321.

github.com/BioJulia/ragel - 7d1e2cb03b39300c02089a0c2bab67dc1991f36e authored about 13 years ago by Adrian Thurston <[email protected]>
Some code reorganization: The BackendGen class now makes the the codegen

struct. That class is now called ReducedGen and has been moved to it's own
class. refs #319.

github.com/BioJulia/ragel - 9df991350c7d6c46296b24298e397bdca9e6f709 authored about 13 years ago by Adrian Thurston <[email protected]>
Cleaned up the process function. The section in the middle that dependend on

the output type has been refactored into three functions, rather than using
many tests to cover a...

github.com/BioJulia/ragel - 1b57a25e75c6963cadecc0ec99b653e22be0def5 authored about 13 years ago by Adrian Thurston <[email protected]>
More of the FsmGraph based dot generator filled in. Not all there yet, but

growing. refs #319.

github.com/BioJulia/ragel - 01f207418c53332e22c99ed58ccd587d83ce6c0c authored about 13 years ago by Adrian Thurston <[email protected]>
Need to store the merged condition set in dest when expanding during the merge

process. refs #306.

Some more on the FsmAp-based dot generation. refs #319.

github.com/BioJulia/ragel - ebb0b04a36dd50f4acca0e815f68f9ef1ff58965 authored about 13 years ago by Adrian Thurston <[email protected]>
Started on dot generation off the FsmAp struct. refs #319.

github.com/BioJulia/ragel - 5c606490a3e3e96f8e0992c40fb604a0a2c3a96d authored about 13 years ago by Adrian Thurston <[email protected]>
Some code refactoring. Going to move the DOT and XML code generation out of the

process function. refs #319.

github.com/BioJulia/ragel - f7a975a36e752e7ecbf0860d2a07eef1c4223e7b authored about 13 years ago by Adrian Thurston <[email protected]>
Moved all code files from cpp to cc extensions.

github.com/BioJulia/ragel - e6545b66fcc1c76899a75ab6165066483bf5d021 authored about 13 years ago by Adrian Thurston <[email protected]>
Moved condition code into a separate file, fsmcond.cpp. Worked on the embeding

of conditions, which needs to work if the state machine already has condition.
This is like expan...

github.com/BioJulia/ragel - 790f9d73e838063322e362b7c468999a02299e2f authored about 13 years ago by Adrian Thurston <[email protected]>
Check in the original for comparisons as we go along. The generated will

deviate from the original in expected ways, so we should be editing the orig
for comparisons purp...

github.com/BioJulia/ragel - 4091c25de6c28e84bb0285c807a80ab7c2c22cc0 authored about 13 years ago by Adrian Thurston <[email protected]>
New strategy for developing the doc language: put the whole thing in the

generate script and move the content out as the language develops. refs #311

github.com/BioJulia/ragel - 5a6e7da7f81620330773aecbe22277617f82d70f authored about 13 years ago by Adrian Thurston <[email protected]>
Use ~ instead of " for the header and footer.

github.com/BioJulia/ragel - 12d3c15d78311d6a085b59886ab109f494bfd6a8 authored about 13 years ago by Adrian Thurston <[email protected]>
Started on documentation generation. Will start with a text file and generate

TEX and HTML. This will be a custom language. refs #311.

github.com/BioJulia/ragel - 6d74db5935c37b23c34e99bc07df5dc0bd9579c2 authored about 13 years ago by Adrian Thurston <[email protected]>
Fixes for conditions-in-trans. refs #306.

github.com/BioJulia/ragel - 289943eccabc76117ca41653f9b4a7fac482b2f8 authored about 13 years ago by Adrian Thurston <[email protected]>
Some work on making checkErrorTrans work with condition lists. refs #306.

github.com/BioJulia/ragel - 76b4982d242845593fee5676585533ad720a40c9 authored about 13 years ago by Adrian Thurston <[email protected]>
Hacked the compressTransitions function to work with condition lists.

refs #306.

github.com/BioJulia/ragel - 1d4b23d64db888153310068b8111993765f3dc9f authored about 13 years ago by Adrian Thurston <[email protected]>
More updates for the condition list inside the transition. refs #306.

github.com/BioJulia/ragel - 5541101f2c1ef091b72b55986b4470d01dbb041f authored about 13 years ago by Adrian Thurston <[email protected]>
Support for the condition list in the inTransMove, and in some of the

minimization code. refs #306.

github.com/BioJulia/ragel - f8b13161acf176ee7c6828b4c8fed97820e5cf41 authored about 13 years ago by Adrian Thurston <[email protected]>
Free the duplicate of the source transition when we need to do condition

expansion. refs #306.

github.com/BioJulia/ragel - 98f36989f8010a036352dc00de6a118fae314215 authored about 13 years ago by Adrian Thurston <[email protected]>
Dun't use dupTrans for making a copy of the expanded source transitions because

it needlessly attaches. Use a custom routine. refs #306.

github.com/BioJulia/ragel - c8f2426320f4b0cdc3b0ff8c58699df62a35e919 authored about 13 years ago by Adrian Thurston <[email protected]>
Fixed more functions that assume a ctList with one item in it. refs #306.

github.com/BioJulia/ragel - 1df1cd445d7fd6ecbe915615de9778a3f236b34e authored about 13 years ago by Adrian Thurston <[email protected]>
Updated a couple places where we need to iterate the cond list in each

transtion. refs #306.

github.com/BioJulia/ragel - f3f96dde244a838658e29a2035d4f47e9bbed8bc authored over 13 years ago by Adrian Thurston <[email protected]>
Now running the shift and doubling for the new conditions in the merged set.

Added a bunch of debug statements for functions that need to iterate the list
of cond transitions...

github.com/BioJulia/ragel - 5dd5ae58871cb064f3406721fc46b3d76d258583 authored over 13 years ago by Adrian Thurston <[email protected]>
More work on the new conditions implementation. Have a very rudimentary

embedCondition function that uses the new cond list in the transition. It
assumes there are no co...

github.com/BioJulia/ragel - ebea510f6ad0c27875fef33474625af501bc31f7 authored over 13 years ago by Adrian Thurston <[email protected]>
Turned off the condition embedding. Now tracking condition setting in TransAp.

Some preliminary work on expanding the condition set. Going to move expressions
to the sub-trans-...

github.com/BioJulia/ragel - c110d86c2576ef0c75116a0d7c3fde459fe39ceb authored over 13 years ago by Adrian Thurston <[email protected]>
The cross in the transition merge now uses a pair iter over the list of

conditions. All the calls underneat this deal with condition transiions only.
refs #306.

github.com/BioJulia/ragel - c255d1ce93a57e4aa0a2a5d651f9c22a990abae4 authored over 13 years ago by Adrian Thurston <[email protected]>
Fix for the last commit. refs #306.

github.com/BioJulia/ragel - 29c0db67ba7c31c52e7a8d8ee9936c34178acf44 authored over 13 years ago by Adrian Thurston <[email protected]>
Now using actionTable, priorTable and lmActionTable in the CondTransAp instead

of TransAp. Now have the transition vars all assigned either to TransAp or
condTransAp. refs #306.

github.com/BioJulia/ragel - 840211f8f26bc41ad40796b5ca26f2bc3eb1a2ae authored over 13 years ago by Adrian Thurston <[email protected]>
Use fromState and toState in CondTransAp instead of TransAp. refs #306

github.com/BioJulia/ragel - ec27b0df2df52978646145e438f5cada4011bb40 authored over 13 years ago by Adrian Thurston <[email protected]>
Eliminated the TransAp in list, switched to the CondTransAp in list. refs #306.

github.com/BioJulia/ragel - 1f1f14fef3a787fba55ccf8b9d9a6167aa3ee6ef authored over 13 years ago by Adrian Thurston <[email protected]>