What's Changed

• Adding support for arbitrary long query and targets by @nh13 in #13

Full Changelog: 0.2.2...0.2.3

What's Changed

• Support a gap open of zero and fix the usage of -O by @nh13 in #10
• update glocal alignment to use parasail v2.6 by @nh13 in #11

Full Changelog: 0.2.0...0.2.2

Release 0.2.1 introduces the following changes:

• Fix the usage for option -O (was listed as -o)
• Support a gap open of zero, and clarify in the README and usage the penalty when an algorithm opens a
  gap.

Release 0.2.0 introduces the following changes:

• Remove ksw in klib as some parts (ex. ksw_global) are "buggy". See the comment in this issue: attractivechaos/klib#101 (comment).
• Added support for local, glocal, and global alignment with parasail. Now all four alignment modes are supported, some with two libraries!
• Full source tarballs now distributed in releases.

Release 0.1.0 introduces the following changes:

• Important: this release relies on ksw2; see instructions below
• All alignment modes are now supported: local, extension, glocal, and global alignment
• Replaced extension, glocal, and global with ksw2 implementations (#2)
• Replaced the cigar generation for local with the ksw2 implementation (#2)
• Alignments could produce the wrong results; see comment here.
• Added a few more tests.

Update Instructions

For cloning a fresh copy, you'll need to run:

git clone --recursive [email protected]:nh13/ksw.git

otherwise, run the following in your current repository

git pull --ff-only origin master
git submodule init
git submodule update

• add an install target (i.e. make install)
• correctly display the version if the commit is a tag

Initial release, enjoy!