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added qual_valid? method to Seq.rb
2013-02-04 martinahansenadded qual_valid? method to Seq.rb
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2013-02-02 martinahansenfixed minor bug in error handling
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2013-01-22 martinahansenfixed axis titles
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2013-01-22 martinahansenadded plot_stacked_histogram biopiece
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2013-01-21 martinahansenadded pandaseq prerequisite
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2013-01-21 martinahansenadded tests for assemble_pairs biopiece
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2013-01-21 martinahansenadded assemble_pairs biopiece
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2013-01-20 martinahansenadded substitute_vals biopiece
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2013-01-16 martinahansenfixed bad tests in match.rb
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2013-01-15 martinahansenadded png term to plot_matches
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2013-01-14 martinahansenadded tests for create_seq_index and get_seq
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2013-01-14 martinahansenfixed apparent change in Carp yielding an extra . after...
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2013-01-14 martinahansenremoved error check
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2013-01-11 martinahansenadded bowtie2 biopieces
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2013-01-09 martinahansenadding kmer to contigs
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2013-01-09 martinahansenfixed up assemble_seq_velvet
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2013-01-09 martinahansenrewrote assemble_seq_velvet
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2013-01-09 martinahansenfixed pair end issue
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2013-01-09 martinahansenset cutoff to auto in velvet
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2013-01-09 martinahansenrenamed assemle_seq_idba assemble_seq_idba
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2013-01-09 martinahansenrenamed assemble_seq_idba_ud assemle_seq_idba
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2013-01-09 martinahansenremoved old assemle_seq_idba
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2013-01-04 martinahansenfixed to_i bug in pcr_seq
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2013-01-04 martinahansenupdated report
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2013-01-04 martinahansenupdated pcr_seq and added tests
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2013-01-03 martinahansenpolished pairwise alignment code
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2013-01-02 martinahansenadded new match.rb and tests
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2013-01-02 martinahansenadded new match.rb and tests
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2013-01-02 martinahansenadded test for align dir
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2013-01-02 martinahansenrenaming match.rb to matches.rb
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2013-01-02 martinahansenmoved mum.rb
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2012-12-20 martinahansenclearnup of pair align code
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2012-12-13 martinahansenfixed minor bug in grab for exact_in where no key would...
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2012-12-12 martinahansenfixed QA_Illumina_report.rb SEQ_LEN > 20
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2012-12-12 martinahansenchanged to new find_adaptor
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2012-12-11 martinahansenadded unit test to backtrack code
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2012-12-10 martinahansenremoved debug code from find_adaptor
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2012-12-10 martinahansenunrolling new find_adaptor
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2012-12-10 martinahansenfixed bug in backtrack.rb
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2012-12-10 martinahansenfixed unit tests for backtrack.rb
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2012-12-06 martinahansenfixed unit tests
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2012-12-05 martinahansenrenamed patternmatcher to dynamic
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2012-12-05 martinahansenrenamed patternmatcher to dynamic
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2012-12-05 martinahansenfixing name space collision
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2012-12-05 martinahansenrefactorying PatternMatcher to Dynamic
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2012-12-05 martinahansenrenamed patternmatcher to dynamic
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2012-12-05 martinahansencleaned comments
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2012-12-05 martinahansenrefactor match->patmatch scan->patscan
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2012-12-05 martinahansenrefactor match->patmatch scan->patscan
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2012-12-04 martinahansenadded patmatch method to backtrack.rb
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2012-12-04 martinahansenadded private to patternmatcher
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2012-12-04 martinahansenfixed unit tests for patternmatcher
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2012-12-04 martinahansenadded some text
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2012-12-03 martinahansenfixed constants for align.rb
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2012-12-03 martinahansenported patternmatcher to C
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2012-11-30 martinahansenfinished backtrack drama
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2012-11-30 martinahansenadded state to backtrack.rb
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2012-11-30 martinahansendone revert of test_backtrack.rb
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2012-11-30 martinahansenreverted test_backtrack.rb to r1827
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2012-11-30 martinahansenreverted backtrack.rb to 2006 prior to struct version
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2012-11-29 martinahansendisabling backtrack which causes compile error
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2012-11-29 martinahansenadded 3 parameters to blast_seq
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2012-11-28 martinahansenfixing up backtrack code
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2012-11-28 martinahansenadded output of mis ind and del to backtrack code
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2012-11-27 martinahansenpolished backtrack.rb
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2012-11-27 martinahansenbacktrack.rb polish
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2012-11-27 martinahansenadded -c to nuc dist plot
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2012-11-27 martinahansenadded -c to plot_nuc_dist
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2012-11-27 martinahansenadded missing seq fix to plot_nucleotide_distribution
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2012-11-27 martinahansenadded relative count to plot_nucleotide_distribution
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2012-11-27 martinahansenmore power to the QA
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2012-11-26 martinahansenmore power to the QA
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2012-11-26 martinahansenadded adaptor removal to QA
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2012-11-26 martinahansenpolish of QA_Illumina_report.rb
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2012-11-23 martinahansensmall fix QA_Illumina_report.rb
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2012-11-23 martinahansenadded QA_Illumina_report.rb
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2012-11-21 martinahansenadded exception handling for missing SFF coordinates
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2012-11-20 martinahansenadded uchime to usearch
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2012-11-19 martinahansenadd uchime_seq biopiece
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2012-11-02 martinahansenadded tests for find_pairs
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2012-11-02 martinahansenremoving order_pairs2 and order_pairs3
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2012-11-02 martinahansenfind_pairs added
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2012-11-01 martinahansenfixed but in order_pairs3
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2012-11-01 martinahansenadded verbose info to order_pairs3
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2012-11-01 martinahansenadded get_entry method to biopieces.rb
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2012-11-01 martinahansenadding order_pairs3
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2012-10-31 martinahansenchanged order_pairs2 to gdbm
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2012-10-31 martinahansenchanged order_pairs2 to gdbm
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2012-10-31 martinahansenadded order_pairs2
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2012-10-31 martinahansenadded order_pairs2
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2012-10-26 martinahansenupdated installer
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2012-10-25 martinahansenupdated installer
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2012-10-25 martinahansenadded debranch function to classify_taxonomy
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2012-10-24 martinahansenupdated classify_taxonomy to GG12-10
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2012-10-23 martinahansenfixed nasty bug in classify_taxonomy
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2012-10-22 martinahansenfixed nasty bug in classify_taxonomy
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2012-10-16 martinahansenremoved raise from classify_taxonomy
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2012-10-15 martinahansenremoved raise from classify_taxonomy
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2012-10-12 martinahansenfixed classify_taxonomy
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2012-10-10 martinahansenadded some file locking to biopieces.rb
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