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2009-12-04	martinahansen	added file_md5 routine to Filesys.pm	commit \| commitdiff \| tree
2009-12-03	martinahansen	added space between liniea track elements	commit \| commitdiff \| tree
2009-12-03	martinahansen	fixed inline PNG in Bbrowser	commit \| commitdiff \| tree
2009-12-02	martinahansen	implemented search function in bbrowser	commit \| commitdiff \| tree
2009-12-01	martinahansen	added DB.pm	commit \| commitdiff \| tree
2009-12-01	martinahansen	added DB.pm	commit \| commitdiff \| tree
2009-12-01	martinahansen	set bbrowser and GFF to 0-base	commit \| commitdiff \| tree
2009-12-01	martinahansen	fixed IO rename in write_kiss	commit \| commitdiff \| tree
2009-12-01	martinahansen	rename mistake fix2	commit \| commitdiff \| tree
2009-12-01	martinahansen	rename mistake fix1	commit \| commitdiff \| tree
2009-12-01	martinahansen	renamed KISS browser to Biopiece browser	commit \| commitdiff \| tree
2009-11-27	martinahansen	added dna export to browser	commit \| commitdiff \| tree
2009-11-27	martinahansen	changes to browser	commit \| commitdiff \| tree
2009-11-26	martinahansen	cleaned BBrowser::Tracks.pm	commit \| commitdiff \| tree
2009-11-26	martinahansen	Cleaned BBrowser::Draw	commit \| commitdiff \| tree
2009-11-26	martinahansen	cleaned KISS.pm	commit \| commitdiff \| tree
2009-11-26	martinahansen	finished cleaning index.cgi	commit \| commitdiff \| tree
2009-11-26	martinahansen	removed KISS directory	commit \| commitdiff \| tree
2009-11-26	martinahansen	www relayout	commit \| commitdiff \| tree
2009-11-26	martinahansen	www relayout	commit \| commitdiff \| tree
2009-11-25	martinahansen	more KISS	commit \| commitdiff \| tree
2009-11-25	martinahansen	fixed color palette in KISS	commit \| commitdiff \| tree
2009-11-25	martinahansen	fixed KISS browser genome selection	commit \| commitdiff \| tree
2009-11-24	martinahansen	fixed comma bug	commit \| commitdiff \| tree
2009-11-24	martinahansen	kiss_sort()	commit \| commitdiff \| tree
2009-11-24	martinahansen	fixed KISS	commit \| commitdiff \| tree
2009-11-24	martinahansen	rewrote upload_to_KISS	commit \| commitdiff \| tree
2009-11-24	martinahansen	major work on KISS browser completed	commit \| commitdiff \| tree
2009-11-16	martinahansen	hacked read_soft to deal with soft_files wo platform...	commit \| commitdiff \| tree
2009-11-16	martinahansen	misc changes	commit \| commitdiff \| tree
2009-11-13	martinahansen	write_kiss now do blast output	commit \| commitdiff \| tree
2009-11-09	martinahansen	added analyze_snp	commit \| commitdiff \| tree
2009-11-09	martinahansen	fixed SAM bug	commit \| commitdiff \| tree
2009-11-09	martinahansen	improved SAM parser	commit \| commitdiff \| tree
2009-11-05	martinahansen	fixed KISS align code	commit \| commitdiff \| tree
2009-11-04	martinahansen	corrected ALIGN implementation	commit \| commitdiff \| tree
2009-11-04	martinahansen	fixed details in bowtie_seq	commit \| commitdiff \| tree
2009-10-30	martinahansen	added read_sam	commit \| commitdiff \| tree
2009-10-29	martinahansen	fixed bug in patscan_seq	commit \| commitdiff \| tree
2009-10-29	martinahansen	modified split_seq	commit \| commitdiff \| tree
2009-10-29	martinahansen	corrected error message in dir_create	commit \| commitdiff \| tree
2009-10-28	martinahansen	KISS browser working, but slow	commit \| commitdiff \| tree
2009-10-28	martinahansen	added ALIGN view support to KISS	commit \| commitdiff \| tree
2009-10-27	martinahansen	more work on KISS	commit \| commitdiff \| tree
2009-10-27	martinahansen	revised KISS format	commit \| commitdiff \| tree
2009-10-24	martinahansen	added zoom and move to KISS	commit \| commitdiff \| tree
2009-10-23	martinahansen	removed jbrowse support	commit \| commitdiff \| tree
2009-10-22	martinahansen	KISS upgrade	commit \| commitdiff \| tree
2009-10-22	martinahansen	added www	commit \| commitdiff \| tree
2009-10-21	martinahansen	changed KISS format	commit \| commitdiff \| tree
2009-10-21	martinahansen	added upload_to_KISS	commit \| commitdiff \| tree
2009-10-21	martinahansen	added kiss biopieces	commit \| commitdiff \| tree
2009-10-21	martinahansen	fixed dna/DNA bug in Align.pm	commit \| commitdiff \| tree
2009-10-19	martinahansen	added XHTML	commit \| commitdiff \| tree
2009-10-18	martinahansen	added write_gff	commit \| commitdiff \| tree
2009-10-17	martinahansen	renaming create_blast_db to create_blast_index	commit \| commitdiff \| tree
2009-10-17	martinahansen	changed options in create_blast_db	commit \| commitdiff \| tree
2009-09-30	martinahansen	fixed bug in get_genome_seq	commit \| commitdiff \| tree
2009-09-29	martinahansen	fixed STRAND in SAM format	commit \| commitdiff \| tree
2009-09-28	martinahansen	added SAM.pm	commit \| commitdiff \| tree
2009-09-28	martinahansen	added bwa_seq	commit \| commitdiff \| tree
2009-09-21	martinahansen	added assemble_contigs	commit \| commitdiff \| tree
2009-09-21	martinahansen	added format to compute	commit \| commitdiff \| tree
2009-09-21	martinahansen	cleaned up calc_fixedstep	commit \| commitdiff \| tree
2009-09-18	martinahansen	added features to calc_fixedstep	commit \| commitdiff \| tree
2009-09-18	martinahansen	added strand to assemble_tag_contigs	commit \| commitdiff \| tree
2009-09-18	martinahansen	added ugly hack to assemble_tag_contigs	commit \| commitdiff \| tree
2009-09-18	martinahansen	added align_two_seq.c	commit \| commitdiff \| tree
2009-09-18	martinahansen	fixed issue 18	commit \| commitdiff \| tree
2009-09-17	martinahansen	added get_seq	commit \| commitdiff \| tree
2009-09-16	martinahansen	fixed match_seq bug	commit \| commitdiff \| tree
2009-09-09	martinahansen	fixed bug in psl2bed conversion	commit \| commitdiff \| tree
2009-09-09	martinahansen	fixed wrap blunder in Fasta.pm	commit \| commitdiff \| tree
2009-09-09	martinahansen	added BED entry output to check_bed	commit \| commitdiff \| tree
2009-09-08	martinahansen	added BWA index support	commit \| commitdiff \| tree
2009-09-08	martinahansen	unfucked bowtie_index	commit \| commitdiff \| tree
2009-09-08	martinahansen	fuckup	commit \| commitdiff \| tree
2009-09-07	martinahansen	sanitized create_bowtie_index code	commit \| commitdiff \| tree
2009-09-07	martinahansen	sanitized create_bowtie_seq	commit \| commitdiff \| tree
2009-09-07	martinahansen	fixed solexa/phred code	commit \| commitdiff \| tree
2009-09-04	martinahansen	changed options of read_solexa and read_fastq - undocumented	commit \| commitdiff \| tree
2009-09-04	martinahansen	added mate_pair_dist	commit \| commitdiff \| tree
2009-09-04	martinahansen	disabled quality score conversion in FASTQ and Solexa	commit \| commitdiff \| tree
2009-09-02	martinahansen	fixed issues in fastq handling	commit \| commitdiff \| tree
2009-08-28	martinahansen	more work on AlignTwoSeq	commit \| commitdiff \| tree
2009-08-27	martinahansen	working on AlignTwoSeq	commit \| commitdiff \| tree
2009-08-25	martinahansen	fixed cpu switch in bowtie_seq	commit \| commitdiff \| tree
2009-08-20	martinahansen	finished rescan_seq	commit \| commitdiff \| tree
2009-08-20	martinahansen	added more range to plot_lendist	commit \| commitdiff \| tree
2009-08-18	martinahansen	updated rescan_seq	commit \| commitdiff \| tree
2009-08-14	martinahansen	added rescan_seq Restriction Enzyme scanner	commit \| commitdiff \| tree
2009-08-14	martinahansen	polished RestrictEnz.pm	commit \| commitdiff \| tree
2009-08-14	martinahansen	added RestrictEnz.pm	commit \| commitdiff \| tree
2009-08-12	martinahansen	added analyze_gc	commit \| commitdiff \| tree
2009-08-10	martinahansen	added nifty # detail to read_tab	commit \| commitdiff \| tree
2009-08-10	martinahansen	added --logscale_y switch to relevant plot_* biopieces	commit \| commitdiff \| tree
2009-08-10	martinahansen	disabled utest for C code	commit \| commitdiff \| tree
2009-08-10	martinahansen	added --no_gaps switch in blast_seq	commit \| commitdiff \| tree
2009-08-04	martinahansen	added a skip_scores switch to read_solexa and read_fastq	commit \| commitdiff \| tree
2009-08-02	martinahansen	fix embl parser	commit \| commitdiff \| tree
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