Release 1.3.0

This release supports 811,236 STR loci. The STR loci are defined as RepeatMasker simple repeat tracks with motif sizes <= 6 bp.
Motifs are taken directly from RepeatMasker annotations with a union across HGSVC and HPRC genomes. No efficient motif calculation
is used for STR loci.

Furthermore, this release supports considerably faster IO for both contig and read mode tandem repeat calling.

Bump

Bump

updating PREVIX variable for abpoa build

Make abpoa build in place

Passing CC to abpoa build

Passing CC to abpoa build.

Building abpoa as a dependency

Building abpoa as a dependency, and passing CC value through compiler.

Renaming release

For conda

vamos v1.2.0

1. Remove the constraint of maximum 256 motifs, since we are not doing MSA of annotation strings any more.
2. Fix a bug causing "double free".
3. Fix a bug in reads phasing.

Vamos 1.1.1

Updated download links for motif files.

vamos-v1.1.0

In this release:
vamos supports two modes:

1. vamos --contig to annotate for haplotype-resolved assemblies.
2. vamos --read to annotate for phased/unphased reads data.

vamos-v1.0.0

1. generate annotation for each read, given a set of motifs for each VNTR locus. (--readwise mode)
2. generate annotation for each VNTR locus by aggragating annotations of reads. (--locuswise mode)
3. generate annotation for subsequence of a read lifted from a particular VNTR locus. (--single_seq mode)