first commit
Imported from my local bwa repository, the master repository.
Update to the latest modfication 0.5.9rc1-2. Update ChangeLog
Added .gitignore
Added a few others to .gitignore
Provided links to help information
Updated README
Updated README
fixed a bug in bwase: no RG for unmapped read pairs
Added an option to accept Illumina 1.3+ fastq
Added barcode support
Put BC: to both ends
update the manual page
fixed a typo in help
Added recommendation for PacBio reads
Release bwa-0.5.9 (r16)
speed up multi-threading
added -s to ar
applied patches from Alec Wysoker
increase maximum barcode length limit to 63bp