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2011-10-13	martinahansen	smoothed ruby code to get rid of warnings	commit \| commitdiff \| tree
2011-10-13	martinahansen	beautifying fasta.rb	commit \| commitdiff \| tree
2011-10-13	martinahansen	added Class method Seq.new_bp to seq.rb	commit \| commitdiff \| tree
2011-10-13	martinahansen	added to_fastq method seq.rb	commit \| commitdiff \| tree
2011-10-12	martinahansen	adding tests for write_fastq_files	commit \| commitdiff \| tree
2011-10-12	martinahansen	added write_fastq_files	commit \| commitdiff \| tree
2011-10-12	martinahansen	added crufty puts method to fastq.rb	commit \| commitdiff \| tree
2011-10-12	martinahansen	variable rename	commit \| commitdiff \| tree
2011-10-12	martinahansen	evil sort fix needed for assert_no_diff_dir	commit \| commitdiff \| tree
2011-10-12	martinahansen	fixed .svn dir issue with assert_no_diff_dir	commit \| commitdiff \| tree
2011-10-12	martinahansen	added tests for write_fasta_files	commit \| commitdiff \| tree
2011-10-12	martinahansen	fortified test.sh	commit \| commitdiff \| tree
2011-10-12	martinahansen	fortified assert_no_diff_dir function	commit \| commitdiff \| tree
2011-10-12	martinahansen	added assert_no_diff_dir function to test code	commit \| commitdiff \| tree
2011-10-12	martinahansen	added biopieces write_fasta_files	commit \| commitdiff \| tree
2011-10-06	martinahansen	fixed alignment descriptors in sam.rb	commit \| commitdiff \| tree
2011-10-05	martinahansen	cleanup	commit \| commitdiff \| tree
2011-10-05	martinahansen	cleanup	commit \| commitdiff \| tree
2011-09-29	martinahansen	added delimiter to join_seq	commit \| commitdiff \| tree
2011-09-26	martinahansen	fixed bug in patscan_seq arguments	commit \| commitdiff \| tree
2011-09-23	martinahansen	fixed patscan_seq	commit \| commitdiff \| tree
2011-09-23	martinahansen	removed bad method from fastq.rb	commit \| commitdiff \| tree
2011-09-23	martinahansen	fixed mistakes in test_fasta.rb	commit \| commitdiff \| tree
2011-09-23	martinahansen	fixed newline to rec seperator in seq.rb	commit \| commitdiff \| tree
2011-09-20	martinahansen	updated patscan_seq	commit \| commitdiff \| tree
2011-09-19	martinahansen	fixed grave bug in genbank.rb	commit \| commitdiff \| tree
2011-09-07	martinahansen	Cholhee fixed bug in lowercase_seq	commit \| commitdiff \| tree
2011-09-06	martinahansen	fixed typo in test_biopieces.rb	commit \| commitdiff \| tree
2011-09-06	martinahansen	rewrote remove_mids again	commit \| commitdiff \| tree
2011-09-06	martinahansen	fixed bug in remove_mids	commit \| commitdiff \| tree
2011-09-06	martinahansen	added tests to remove_mids	commit \| commitdiff \| tree
2011-09-05	martinahansen	updated remove_mids	commit \| commitdiff \| tree
2011-09-05	martinahansen	added hamming_distance method to seq.rb	commit \| commitdiff \| tree
2011-09-05	martinahansen	polishing on sam.rb	commit \| commitdiff \| tree
2011-09-05	martinahansen	speedup of bits.rb	commit \| commitdiff \| tree
2011-09-05	martinahansen	speedup of bits.rb	commit \| commitdiff \| tree
2011-09-05	martinahansen	polished test_cigar.rb	commit \| commitdiff \| tree
2011-09-01	martinahansen	fixed bug in find_SNPs	commit \| commitdiff \| tree
2011-09-01	martinahansen	added tests for find_SNPs	commit \| commitdiff \| tree
2011-09-01	martinahansen	added find_SNPs biopiece	commit \| commitdiff \| tree
2011-09-01	martinahansen	polish of cigar.rb	commit \| commitdiff \| tree
2011-08-31	martinahansen	corrected bug in sam.rb	commit \| commitdiff \| tree
2011-08-31	martinahansen	sam update	commit \| commitdiff \| tree
2011-08-31	martinahansen	worked on sam - added 1 to phred score check in seq.rb	commit \| commitdiff \| tree
2011-08-29	martinahansen	added cigar.rb and test_cigar.rb	commit \| commitdiff \| tree
2011-08-29	martinahansen	working on sam.rb	commit \| commitdiff \| tree
2011-08-24	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-24	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-24	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-24	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-24	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-24	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-23	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-23	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-23	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-23	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-23	martinahansen	worked on unit tests for sam.rb	commit \| commitdiff \| tree
2011-08-22	martinahansen	worked on sam.rb	commit \| commitdiff \| tree
2011-07-04	martinahansen	s/Checking/Testing	commit \| commitdiff \| tree
2011-07-04	martinahansen	fixed typo	commit \| commitdiff \| tree
2011-07-04	martinahansen	fixed typo	commit \| commitdiff \| tree
2011-07-04	martinahansen	fixed typo	commit \| commitdiff \| tree
2011-07-03	martinahansen	added warnings to bp_test	commit \| commitdiff \| tree
2011-07-03	martinahansen	added warnings to bp_test	commit \| commitdiff \| tree
2011-06-17	martinahansen	added sam.rb to ruby trunk	commit \| commitdiff \| tree
2011-06-17	martinahansen	added sam.rb to ruby trunk	commit \| commitdiff \| tree
2011-06-15	martinahansen	added tests for rename_keys	commit \| commitdiff \| tree
2011-06-15	martinahansen	changed testing log file name	commit \| commitdiff \| tree
2011-06-15	martinahansen	added tests for blast_seq_pair	commit \| commitdiff \| tree
2011-06-14	martinahansen	hackery changes to plot_matches to deal with blast...	commit \| commitdiff \| tree
2011-06-14	martinahansen	blast_seq_pair polish	commit \| commitdiff \| tree
2011-06-14	martinahansen	blast_seq_pair polish	commit \| commitdiff \| tree
2011-06-14	martinahansen	blast_seq_pair polish	commit \| commitdiff \| tree
2011-06-14	martinahansen	added blast_seq_pair	commit \| commitdiff \| tree
2011-06-13	martinahansen	added Seq.type_guess to ruby code	commit \| commitdiff \| tree
2011-06-08	martinahansen	added tests for remove_keys	commit \| commitdiff \| tree
2011-06-08	martinahansen	added tests for remove_indels	commit \| commitdiff \| tree
2011-06-08	martinahansen	added tests for reverse_seq	commit \| commitdiff \| tree
2011-06-08	martinahansen	added tests for complement_seq	commit \| commitdiff \| tree
2011-06-06	martinahansen	fixed cat_seq	commit \| commitdiff \| tree
2011-06-06	martinahansen	added cat_seq biopiece	commit \| commitdiff \| tree
2011-06-05	martinahansen	shortened messages in test suite	commit \| commitdiff \| tree
2011-06-05	martinahansen	added tests for uniq_vals	commit \| commitdiff \| tree
2011-06-05	martinahansen	added tests for sort_records	commit \| commitdiff \| tree
2011-06-04	martinahansen	added tests for transliterate_vals	commit \| commitdiff \| tree
2011-06-04	martinahansen	added tests for transliterate_seq	commit \| commitdiff \| tree
2011-06-03	martinahansen	added tests for length_vals	commit \| commitdiff \| tree
2011-06-03	martinahansen	added test for calc_bit_scores	commit \| commitdiff \| tree
2011-05-31	martinahansen	added assemble_seq_ray	commit \| commitdiff \| tree
2011-05-30	martinahansen	upgraded mean_scores	commit \| commitdiff \| tree
2011-05-30	martinahansen	rename switch to something more appropriate	commit \| commitdiff \| tree
2011-05-30	martinahansen	removed unused code from find_adaptor	commit \| commitdiff \| tree
2011-05-30	martinahansen	added perl module and ruby gem test to bp_test	commit \| commitdiff \| tree
2011-05-29	martinahansen	squashing bugs in find_adaptor	commit \| commitdiff \| tree
2011-05-29	martinahansen	working on find_adaptor	commit \| commitdiff \| tree
2011-05-28	martinahansen	added multithreading to find_adaptor	commit \| commitdiff \| tree
2011-05-28	martinahansen	added multithreading to find_adaptor	commit \| commitdiff \| tree
2011-05-26	martinahansen	added order_pairs	commit \| commitdiff \| tree
2011-05-26	martinahansen	fixed type in assemble_seq_idba	commit \| commitdiff \| tree
2011-05-26	martinahansen	fixed mate-pair name issue in assemble_seq_idba	commit \| commitdiff \| tree
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