* Update Github Actions' versions and runners

Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>

* Add a workaround for https://github.com/38/d4-format/pull/77



Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>

* Use dtolnay/rust-toolchain Github Action to install Rustc/Cargo

Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>

* Do not fail fast the build matrix

Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>

* Build with Nim 1.6.x and 2.x

Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>

---------

Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>

update binary to fix #224 by building with htslib v1.19.1

closes #216

* Adds length filter in coverage

* Adds min_len and max_len to CLI

* tries isize instead of tlen

* Passes min_len and max_len to coverage()

* replaces template length with insert size in docs

* Removes bad let

* replaces fragment length with insert size in docs

* Sets min_len default to -1

Otherwise, this PR might cause reads with insert size 0 to be excluded, which might be okay but is not the intended change I want to make

* Adheres to argument naming standard ("-" not "_")

* Updates argnames with "-frag-". Adds error when max < min.

* Adds tests of fragment length filtering

---------

Co-authored-by: Ludvig <ludvig@clin.au.dk>

see bioconda/bioconda-recipes#43500

closes #207

closes #197

Update Docker installation in README from v0.2.4 -> v0.3.3

use /path/to/bam##idx##/other-path/to/bam.index

closes #153

small typo in wording 'noly' to 'only'

closes #132

Update README.md

* d4 support

* add d4-nim dep

re #57