Version 2.2.0 fixes several problems and improves usability. Corrected output to structure and uclust files when using fastidious mode. Corrected abundance output in some cases. Added check for duplicated sequences and fixed check for duplicated sequence IDs. Checks for empty sequences. Sorts sequences by additional fields to improve stability. Improves compatibility with compilers and operating systems. Outputs sequences in upper case. Allows 64-bit abundances. Shows message when waiting for input from stdin. Improves error messages and warnings. Improves checking of command line options. Fixes remaining errors reported by test suite. Updates documentation.

Fix bug with progress bar when writing seeds.

Remove a debugging message

Version 2.1.11 fixes two bugs (issue #96) related to the SIMD implementation of alignment that might result in incorrect alignments and scores. The bug only applies when d>1.

Swarm version 2.1.10 fixes two bugs related to gap penalties of alignments. The first bug may lead to wrong alignments and similarity percentages reported in UCLUST (.uc) files. The second bug makes Swarm use a slightly higher gap extension penalty than specified. The default gap extension penalty used have actually been 4.5 instead of 4.

Fix compilation errors with GCC version 6.

Fix rare bug with extremely short non-dereplicated sequences.
Do not show alignment parameters for d=1.

Fix error with seed output. Ignore CR in FASTA files. Improved help and error messsages. And more.

Swarm 2.1.6 fixes problems with older compilers that do not have the x86intrin.h header file. It also fixes a bug in the output of seeds with the -w option when d>1.

Swarm 2.1.5 fixes minor bugs.