1.5.2 - Add bg2bw checks for sorting

Merge branch 'hotfix/1.5.2'

1.5.1 - libdeflate

htslib and related tools now compiled with libdeflate for performance improvements.

No impact on result.

1.5.0 - maintenance release

Updates libraries:

• htslib to 1.11
• libBigWig to 0.4.4

1.4.0 - Import cwls and examples to core cgpBigWig repo

Add cwls and examples to core cgpBigWig repo

1.3.0 - maintenance release

No changes to in/output:

• Update to htslib 1.10.2
• Update base image to Ubuntu 20.04

Add bam2bw -S/--scale-log10 to enable simple RPKM rescaling.

1.2.0

Add bam2bw -S/--scale-log10 to enable simple RPKM rescaling.
Thanks to @shouldsee for these modifications.

1.1.0 - Docker within primary repo

Docker build now directly linked to code. This change is made to allow large scale real data CI testing.

dockstore-cgpbigwig will be modified to only contain CWL and will essentially just retag this image.

1.0.2 - Hotfix GRCh38 contig parsing

1.0.2

• Correct region parsing in bam2bw to cope with GRCh38 contigs

1.0.1 - Hotfix to bam2bw

• Fix bam2bw. Single region string and -z caused header issues.

1.0.0 - Overlapping read support added

1.0.0

• First full release
• Add overlapping reads support to bam2bw, bam2bwbases and bam2bedgraph via commandline flag --overlap -a
  • If the same readname is encountered twice at a position it is considred an overlapping read pair.
  • Where the same base [ACGT] was encountered on each of the reads it will only be counted once. If a different base was encountered then the coverage count is incremented once for each base.
• Updated License headers with new email address