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fixed seq qual length check
[biopieces.git] / code_ruby /
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
2012-04-17 martinahansenadded findsim.rb tree | commitdiff
2012-04-11 martinahansenported write_fastq to ruby and allowed different encodi... tree | commitdiff
2012-04-10 martinahansenmaking changes to accomodate Illumina18 qual scores tree | commitdiff
2012-04-06 martinahansenupgraded bitmap.rb to a 64bit version tree | commitdiff
2012-04-03 martinahansenupgraded bitmap.rb tree | commitdiff
2012-03-26 martinahansenfixed ugly 1-off bug in locator.rb tree | commitdiff
2012-03-22 martinahansenadded bitmap.rb tree | commitdiff
2012-03-16 martinahansenadded closed? method to filesys.rb tree | commitdiff
2012-03-14 martinahansenadded check for empty files in usearch.rb tree | commitdiff
2012-03-13 martinahansenfixed minor issue in align.rb tests tree | commitdiff
2012-03-13 martinahansenaddid missing S_END to sam.rb tree | commitdiff
2012-03-07 martinahansenfixed overflow bug in align.rb tree | commitdiff
2012-03-05 martinahansenchanged align.to_s tree | commitdiff
2012-03-02 martinahansenmajor upgrade of align.rb for denoising tree | commitdiff
2012-03-01 martinahansenfixed bug in each_alignment tree | commitdiff
2012-02-23 martinahansenadded duplicate_record biopiece tree | commitdiff
2012-02-09 martinahansenadded force to rm of tmpdir tree | commitdiff
2012-02-07 martinahansenfixed indentation in biopieces.rb tree | commitdiff
2012-02-03 martinahansenrounding up work on denoise_seq tree | commitdiff
2012-02-03 martinahansenfixed attributes tree | commitdiff
2012-02-03 martinahansenadded FastqIndex to fastq.rb tree | commitdiff
2012-02-03 martinahansenadded ustar and each_alignment methods to usearch.rb tree | commitdiff
2012-02-03 martinahansenadded masks to align.rb tree | commitdiff
2012-01-31 martinahansenmajor rewrite of align.rb tree | commitdiff
2012-01-31 martinahansenadd ustar method to usearch.rb tree | commitdiff
2012-01-27 martinahansenfinal touches to align.rb tree | commitdiff
2012-01-24 martinahansenfixed indels in methods mask_seq_hard/soft tree | commitdiff
2012-01-23 martinahansenpolish seq.rb tree | commitdiff
2012-01-23 martinahansenrewrote mask_seq_hard and mask_seq_soft methods to... tree | commitdiff
2012-01-22 martinahansenfixed popen3 issue in align.rb tree | commitdiff
2012-01-20 martinahansenchanged Align.muscle to file based instead of popen3 tree | commitdiff
2012-01-12 martinahansenfixed typo tree | commitdiff
2012-01-12 martinahansenadded check for duplicate seq_names to align.rb tree | commitdiff
2012-01-12 martinahansenadded preservation of indels and case to align.rb tree | commitdiff
2012-01-12 martinahansenadded align.rb to ruby code tree | commitdiff
2012-01-11 martinahansenadded remove_indels method tree | commitdiff
2011-12-20 martinahansenfixed --rev swith in usearch.rb tree | commitdiff
2011-12-12 martinahansenadded embl.rb tree | commitdiff
2011-12-12 martinahansensplit off locator stuff from genbank.rb to locator.rb tree | commitdiff
2011-12-07 martinahansenminor tweak to genbank.rb tree | commitdiff
2011-12-06 martinahansenfixed count bug in sff.rb tree | commitdiff
2011-12-05 martinahansenupgraded mask_seq tree | commitdiff
2011-11-25 martinahansencleanup of usearch.rb tree | commitdiff
2011-11-25 martinahansenmoved usearch code to external file tree | commitdiff
2011-11-24 martinahansenfixed regex in backtrack.rb tree | commitdiff
2011-11-23 martinahansenremoved stale unit tests from test_biopieces.rb tree | commitdiff
2011-11-23 martinahansenfixed glob unit test in test_biopieces.rb tree | commitdiff
2011-11-22 martinahansengot rid of nasty to_sym in biopieces.rb tree | commitdiff
2011-11-22 martinahansengot rid of type in filesys.rb tree | commitdiff
2011-11-22 martinahansenbeautifying backtrack.rb tree | commitdiff
2011-11-22 martinahansenslight cleanup of backtrack code tree | commitdiff
2011-11-21 martinahansenadded tests for uclust_seq tree | commitdiff
2011-11-17 martinahansenadded requirement of RubyInline tree | commitdiff
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