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fixed SCORE_BASE global var
[biopieces.git] / code_ruby /
2013-02-25 martinahansenfixed SCORE_BASE global var tree | commitdiff
2013-02-19 martinahansenadded provisional write sam support tree | commitdiff
2013-02-08 martinahansenfixed quality score validity check tree | commitdiff
2013-02-04 martinahansenadded qual_valid? method to Seq.rb tree | commitdiff
2013-02-02 martinahansenfixed minor bug in error handling tree | commitdiff
2013-01-16 martinahansenfixed bad tests in match.rb tree | commitdiff
2013-01-03 martinahansenpolished pairwise alignment code tree | commitdiff
2013-01-02 martinahansenadded new match.rb and tests tree | commitdiff
2013-01-02 martinahansenadded new match.rb and tests tree | commitdiff
2013-01-02 martinahansenadded test for align dir tree | commitdiff
2013-01-02 martinahansenrenaming match.rb to matches.rb tree | commitdiff
2013-01-02 martinahansenmoved mum.rb tree | commitdiff
2012-12-20 martinahansenclearnup of pair align code tree | commitdiff
2012-12-11 martinahansenadded unit test to backtrack code tree | commitdiff
2012-12-10 martinahansenfixed bug in backtrack.rb tree | commitdiff
2012-12-10 martinahansenfixed unit tests for backtrack.rb tree | commitdiff
2012-12-06 martinahansenfixed unit tests tree | commitdiff
2012-12-05 martinahansenrenamed patternmatcher to dynamic tree | commitdiff
2012-12-05 martinahansenrenamed patternmatcher to dynamic tree | commitdiff
2012-12-05 martinahansenfixing name space collision tree | commitdiff
2012-12-05 martinahansenrefactorying PatternMatcher to Dynamic tree | commitdiff
2012-12-05 martinahansenrenamed patternmatcher to dynamic tree | commitdiff
2012-12-05 martinahansencleaned comments tree | commitdiff
2012-12-05 martinahansenrefactor match->patmatch scan->patscan tree | commitdiff
2012-12-05 martinahansenrefactor match->patmatch scan->patscan tree | commitdiff
2012-12-04 martinahansenadded patmatch method to backtrack.rb tree | commitdiff
2012-12-04 martinahansenadded private to patternmatcher tree | commitdiff
2012-12-04 martinahansenfixed unit tests for patternmatcher tree | commitdiff
2012-12-04 martinahansenadded some text tree | commitdiff
2012-12-03 martinahansenfixed constants for align.rb tree | commitdiff
2012-12-03 martinahansenported patternmatcher to C tree | commitdiff
2012-11-30 martinahansenfinished backtrack drama tree | commitdiff
2012-11-30 martinahansenadded state to backtrack.rb tree | commitdiff
2012-11-30 martinahansendone revert of test_backtrack.rb tree | commitdiff
2012-11-30 martinahansenreverted test_backtrack.rb to r1827 tree | commitdiff
2012-11-30 martinahansenreverted backtrack.rb to 2006 prior to struct version tree | commitdiff
2012-11-29 martinahansendisabling backtrack which causes compile error tree | commitdiff
2012-11-28 martinahansenfixing up backtrack code tree | commitdiff
2012-11-28 martinahansenadded output of mis ind and del to backtrack code tree | commitdiff
2012-11-27 martinahansenpolished backtrack.rb tree | commitdiff
2012-11-27 martinahansenbacktrack.rb polish tree | commitdiff
2012-11-21 martinahansenadded exception handling for missing SFF coordinates tree | commitdiff
2012-11-20 martinahansenadded uchime to usearch tree | commitdiff
2012-11-01 martinahansenadded get_entry method to biopieces.rb tree | commitdiff
2012-10-10 martinahansenadded some file locking to biopieces.rb tree | commitdiff
2012-10-10 martinahansenadded dynamic mem allocation to findsim.rb tree | commitdiff
2012-10-10 martinahansenadded dynamic mem allocation to findsim.rb tree | commitdiff
2012-10-09 martinahansencleanup of findsim.rb tree | commitdiff
2012-10-09 martinahansencleanup of findsim.rb tree | commitdiff
2012-09-27 martinahansenfinishing work on match.rb tree | commitdiff
2012-09-21 martinahansenadded parser for phred qual to fasta.rb tree | commitdiff
2012-09-21 martinahansenadded qual_base(33|64)? methods to seq.rb tree | commitdiff
2012-09-13 martinahansenpair.rb now working correctly tree | commitdiff
2012-09-12 martinahansenworked on pair aligner tree | commitdiff
2012-09-11 martinahansenworking on pair.rb tree | commitdiff
2012-09-11 martinahansenadded align/match.rb tree | commitdiff
2012-09-11 martinahansenworked on pair.rb tree | commitdiff
2012-09-10 martinahansenfixed unit tests for seq.rb tree | commitdiff
2012-09-04 martinahansenadded math_aux.rb tree | commitdiff
2012-09-04 martinahansenadded test_math_aux.rb tree | commitdiff
2012-08-16 martinahansendid something to findsim.rb tree | commitdiff
2012-08-07 martinahansenlast fix on prodigal upgrade tree | commitdiff
2012-08-07 martinahansenupgraded prodigal tree | commitdiff
2012-07-13 martinahansenfixed another bug in find orfs tree | commitdiff
2012-07-13 martinahansenfixed bug in orf finder tree | commitdiff
2012-07-13 martinahansenmade orf finder case insensitive tree | commitdiff
2012-07-13 martinahansenadded orf finder to seq.rb tree | commitdiff
2012-07-10 martinahansenadded align/pair.rb to ruby trunk tree | commitdiff
2012-07-10 martinahansenfixed align.rb up a bit tree | commitdiff
2012-07-10 martinahansenadded -m hardcoded option to prodigal.rb tree | commitdiff
2012-07-10 martinahansenfixed bug for missing sequence in genbank parser tree | commitdiff
2012-07-02 martinahansenadded mum.rb tree | commitdiff
2012-06-29 martinahansenclean-up of ruby code to remove rake warnings tree | commitdiff
2012-06-29 martinahansenrewrote mean_scores to fix bug tree | commitdiff
2012-06-29 martinahansenadded scores_mean method to seq.rb tree | commitdiff
2012-06-28 martinahansencleanup of pair stuff in align.rb tree | commitdiff
2012-06-27 martinahansenfixed inline code warning tree | commitdiff
2012-06-25 martinahansenfixed bug in findsim.rb tree | commitdiff
2012-06-25 martinahansenadded max_diversity swith to findsim.rb tree | commitdiff
2012-06-08 martinahansenrefactoring biopieces.rb tree | commitdiff
2012-06-08 martinahansenfixed unit tests for test_trim.rb tree | commitdiff
2012-05-31 martinahansenfixed bad error msg tree | commitdiff
2012-05-30 martinahansenfixed bug in sff.rb clip and mask methods tree | commitdiff
2012-05-30 martinahansenfixed bug in sff.rb to_seq method tree | commitdiff
2012-05-30 martinahansenadded to_seq method to sff.rb tree | commitdiff
2012-05-24 martinahansenfixed ugly bug in trim.rb tree | commitdiff
2012-05-24 martinahansenmoved patscan.rb tree | commitdiff
2012-05-24 martinahansenmoved backtrack.rb tree | commitdiff
2012-05-24 martinahansenmoved patternmatcher.rb tree | commitdiff
2012-05-24 martinahansenmoving digest.rb tree | commitdiff
2012-05-23 martinahansenrefactored SeqError/TrimError tree | commitdiff
2012-05-23 martinahansenrewrite of seq.rb and addition of seq/trim.rb tree | commitdiff
2012-05-23 martinahansenrefactored argument precise to realign tree | commitdiff
2012-04-23 martinahansenworkied on pair wise aligner tree | commitdiff
2012-04-19 martinahansenadded precise alignment option to findsim.rb tree | commitdiff
2012-04-19 martinahansenfixed double insertion of indels in alignments (missing... tree | commitdiff
2012-04-18 martinahansenadded identity method to align.rb tree | commitdiff
2012-04-18 martinahansenchanged report_scores to max_hits in findsim.rb tree | commitdiff
2012-04-18 martinahansenadded to_bp method to findsim.rb tree | commitdiff
2012-04-18 martinahansenadded q_id and s_id options to findsim.rb tree | commitdiff
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