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biopieces.git
2012-04-10 martinahansenupgraded tests for read_fastq commit | commitdiff | tree | snapshot
2012-04-10 martinahansenremoving stale test in files commit | commitdiff | tree | snapshot
2012-04-10 martinahansenmaking changes to accomodate Illumina18 qual scores commit | commitdiff | tree | snapshot
2012-04-06 martinahansenupgraded bitmap.rb to a 64bit version commit | commitdiff | tree | snapshot
2012-04-03 martinahansenupgraded bitmap.rb commit | commitdiff | tree | snapshot
2012-03-26 martinahansenfixed ugly 1-off bug in locator commit | commitdiff | tree | snapshot
2012-03-26 martinahansenfixed ugly 1-off bug in locator.rb commit | commitdiff | tree | snapshot
2012-03-26 martinahansenfixed ugly 1-off bug in locator.rb commit | commitdiff | tree | snapshot
2012-03-22 martinahansenadded bitmap.rb commit | commitdiff | tree | snapshot
2012-03-20 martinahansenfixed issues in bwa_seq commit | commitdiff | tree | snapshot
2012-03-16 martinahansenadded closed? method to filesys.rb commit | commitdiff | tree | snapshot
2012-03-14 martinahansenadded check for empty files in usearch.rb commit | commitdiff | tree | snapshot
2012-03-13 martinahansenfixed dir in bwa_seq commit | commitdiff | tree | snapshot
2012-03-13 martinahansenfixed minor issue in align.rb tests commit | commitdiff | tree | snapshot
2012-03-13 martinahansenaddid missing S_END to sam.rb commit | commitdiff | tree | snapshot
2012-03-13 martinahansenported bwa_seq to ruby for better SAM support commit | commitdiff | tree | snapshot
2012-03-07 martinahansenfixed overflow bug in align.rb commit | commitdiff | tree | snapshot
2012-03-05 martinahansenchanged align.to_s commit | commitdiff | tree | snapshot
2012-03-02 martinahansenmajor upgrade of denoise_seq commit | commitdiff | tree | snapshot
2012-03-02 martinahansenmajor upgrade of align.rb for denoising commit | commitdiff | tree | snapshot
2012-03-01 martinahansenfixed bug in each_alignment commit | commitdiff | tree | snapshot
2012-02-23 martinahansenadded duplicate_record biopiece commit | commitdiff | tree | snapshot
2012-02-09 martinahansenadded force to rm of tmpdir commit | commitdiff | tree | snapshot
2012-02-07 martinahansenadded raw data reading to read_fasta and read_fastq commit | commitdiff | tree | snapshot
2012-02-07 martinahansenfixed indentation in biopieces.rb commit | commitdiff | tree | snapshot
2012-02-03 martinahansenrounding up work on denoise_seq commit | commitdiff | tree | snapshot
2012-02-03 martinahansenadded denoise_seq commit | commitdiff | tree | snapshot
2012-02-03 martinahansenfixed attributes commit | commitdiff | tree | snapshot
2012-02-03 martinahansenadded FastqIndex to fastq.rb commit | commitdiff | tree | snapshot
2012-02-03 martinahansenadded ustar and each_alignment methods to usearch.rb commit | commitdiff | tree | snapshot
2012-02-03 martinahansenadded masks to align.rb commit | commitdiff | tree | snapshot
2012-01-31 martinahansenmajor rewrite of align.rb commit | commitdiff | tree | snapshot
2012-01-31 martinahansenadd ustar method to usearch.rb commit | commitdiff | tree | snapshot
2012-01-27 martinahansenfinal touches to align.rb commit | commitdiff | tree | snapshot
2012-01-24 martinahansenfixed indels in methods mask_seq_hard/soft commit | commitdiff | tree | snapshot
2012-01-23 martinahansenfixed broken pcr_seq commit | commitdiff | tree | snapshot
2012-01-23 martinahansenpolish seq.rb commit | commitdiff | tree | snapshot
2012-01-23 martinahansenrewrote mask_seq_hard and mask_seq_soft methods to... commit | commitdiff | tree | snapshot
2012-01-22 martinahansenfixed popen3 issue in align.rb commit | commitdiff | tree | snapshot
2012-01-20 martinahansenchanged Align.muscle to file based instead of popen3 commit | commitdiff | tree | snapshot
2012-01-18 martinahansenadded additional prerequisite check for RubyInline commit | commitdiff | tree | snapshot
2012-01-12 martinahansenfixed typo commit | commitdiff | tree | snapshot
2012-01-12 martinahansenadded check for duplicate seq_names to align.rb commit | commitdiff | tree | snapshot
2012-01-12 martinahansenadded preservation of indels and case to align.rb commit | commitdiff | tree | snapshot
2012-01-12 martinahansenadded align.rb to ruby code commit | commitdiff | tree | snapshot
2012-01-11 martinahansenadded remove_indels method commit | commitdiff | tree | snapshot
2012-01-03 martinahansenfixed issue in compute commit | commitdiff | tree | snapshot
2012-01-03 martinahansenfixed issue in compute commit | commitdiff | tree | snapshot
2012-01-02 martinahansenfixed missing ; in create_blast_index commit | commitdiff | tree | snapshot
2011-12-29 martinahansenadded extra RL tags to find_barcodes commit | commitdiff | tree | snapshot
2011-12-22 martinahansenincreaded database size for blast commit | commitdiff | tree | snapshot
2011-12-20 martinahansenfixed --rev swith in usearch.rb commit | commitdiff | tree | snapshot
2011-12-15 martinahansenfixed typo in replace_vals commit | commitdiff | tree | snapshot
2011-12-15 martinahansenfixed typo in replace_vals commit | commitdiff | tree | snapshot
2011-12-12 martinahansenadd tests for read_embl commit | commitdiff | tree | snapshot
2011-12-12 martinahansenadded new read_embl (ruby) commit | commitdiff | tree | snapshot
2011-12-12 martinahansenremoved old read_embl (perl) commit | commitdiff | tree | snapshot
2011-12-12 martinahansenadded embl.rb commit | commitdiff | tree | snapshot
2011-12-12 martinahansensplit off locator stuff from genbank.rb to locator.rb commit | commitdiff | tree | snapshot
2011-12-08 martinahansenadded check for duplicate keys in replace_vals commit | commitdiff | tree | snapshot
2011-12-08 martinahansenadded replace_vals biopiece commit | commitdiff | tree | snapshot
2011-12-07 martinahansenadded new biopeice remove_indel_columns commit | commitdiff | tree | snapshot
2011-12-07 martinahansenminor tweak to genbank.rb commit | commitdiff | tree | snapshot
2011-12-06 martinahansenfixed count bug in sff.rb commit | commitdiff | tree | snapshot
2011-12-06 martinahansenminor tweaks added to installer commit | commitdiff | tree | snapshot
2011-12-05 martinahansenupgraded mask_seq commit | commitdiff | tree | snapshot
2011-11-25 martinahansencleanup of usearch.rb commit | commitdiff | tree | snapshot
2011-11-25 martinahansenmoved usearch code to external file commit | commitdiff | tree | snapshot
2011-11-24 martinahansenremoved bp_doc/ and content commit | commitdiff | tree | snapshot
2011-11-24 martinahansenfixed regex in backtrack.rb commit | commitdiff | tree | snapshot
2011-11-23 martinahansenremoved stale unit tests from test_biopieces.rb commit | commitdiff | tree | snapshot
2011-11-23 martinahansenfixed glob unit test in test_biopieces.rb commit | commitdiff | tree | snapshot
2011-11-23 martinahansenremoved comma commit | commitdiff | tree | snapshot
2011-11-22 martinahansengot rid of nasty to_sym in biopieces.rb commit | commitdiff | tree | snapshot
2011-11-22 martinahansengot rid of nasty to_sym in biopieces.rb commit | commitdiff | tree | snapshot
2011-11-22 martinahansengot rid of type in filesys.rb commit | commitdiff | tree | snapshot
2011-11-22 martinahansenbeautifying backtrack.rb commit | commitdiff | tree | snapshot
2011-11-22 martinahansenslight cleanup of backtrack code commit | commitdiff | tree | snapshot
2011-11-21 martinahansenmade --rev defacto in useach_seq commit | commitdiff | tree | snapshot
2011-11-21 martinahansenupgraded usearch_seq commit | commitdiff | tree | snapshot
2011-11-21 martinahansenadded tests for uclust_seq commit | commitdiff | tree | snapshot
2011-11-19 martinahansenfixed bug in uniq_vals causing clusters named 0 to... commit | commitdiff | tree | snapshot
2011-11-18 martinahansenrewriting uclust_seq commit | commitdiff | tree | snapshot
2011-11-17 martinahansenfixed bug in grab commit | commitdiff | tree | snapshot
2011-11-17 martinahansenadded tests to remove_primers commit | commitdiff | tree | snapshot
2011-11-17 martinahansenfixed remove_primers commit | commitdiff | tree | snapshot
2011-11-17 martinahansenfixed bug in remove_primers commit | commitdiff | tree | snapshot
2011-11-17 martinahansenadded remove_primers biopiece commit | commitdiff | tree | snapshot
2011-11-17 martinahansenfixed stupid windows \r bug in Patscan::read_patterns commit | commitdiff | tree | snapshot
2011-11-17 martinahansenadded requirement of RubyInline commit | commitdiff | tree | snapshot
2011-11-17 martinahansenfixed ins/del reverse commit | commitdiff | tree | snapshot
2011-11-16 martinahansenfixed FLAG bug in sam.rb commit | commitdiff | tree | snapshot
2011-11-16 martinahansendisabled inline commit | commitdiff | tree | snapshot
2011-11-16 martinahansenfixed bug in backtrack.rb commit | commitdiff | tree | snapshot
2011-11-15 martinahansenfixed digest.rb commit | commitdiff | tree | snapshot
2011-11-15 martinahansenadded backtrack.rb commit | commitdiff | tree | snapshot
2011-11-15 martinahansenadded backtrack.rb commit | commitdiff | tree | snapshot
2011-11-14 martinahansenupgraded uclust_seq to work with useach 5.1.221 commit | commitdiff | tree | snapshot
2011-11-13 martinahansenadded backtrack.rb commit | commitdiff | tree | snapshot
2011-11-13 martinahansenfixed digest_seq commit | commitdiff | tree | snapshot
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