Update hifiasm to 0.20

[Schmytzi]

Closes #295.
Updated HiFiAsm to 0.20 and changed arguments to account for the new input spec.

PR checklist

• This comment contains a description of changes (with reason).
• If you've fixed a bug or added code that should be tested, add tests!
• If you've added a new tool - have you followed the pipeline conventions in the contribution docs
• Make sure your code lints (nf-core pipelines lint).
• Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
• Check for unexpected warnings in debug mode (nextflow run . -profile debug,test,docker --outdir <OUTDIR>).
• Usage Documentation in docs/usage.md is updated.
• Output Documentation in docs/output.md is updated.
• CHANGELOG.md is updated.
• README.md is updated (including new tool citations and authors/contributors).

[fellen31]

Nice, could you also add --dual-scaf --telo-m CCCTAA as args in the config (and add a line about this in the CHANGELOG)?

nallo/conf/modules/genome_assembly.config

Line 28 in 2caa215

ext.args = { "${params.extra_hifiasm_options}" }

You can use the same formatting as here:

nallo/conf/modules/methylation.config

Lines 27 to 33 in 2caa215

	withName: '.*:METHYLATION:MODKIT_PILEUP_UNPHASED' {
	ext.args = { [
	"${params.extra_modkit_options}",
	'--combine-mods',
	'--cpg',
	'--combine-strands',
	].join(' ') }

Two of the pipeline tests need updating (nf-test test --tag PIPELINE --profile docker --update-snapshot).

[fellen31]

Nice 👍 Sorry you had to go through this part of the pipeline 😄

[fellen31]

👍