Add module for Circlator (all)

[cwoodside1278]

PR checklist

Closes #11010

• 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 module conventions in the contribution docs
• If necessary, include test data in your PR.
• Remove all TODO statements.
• Broadcast software version numbers to topic: versions - See version_topics
• Follow the naming conventions.
• Follow the parameters requirements.
• Follow the input/output options guidelines.
• Add a resource label
• Use BioConda and BioContainers if possible to fulfil software requirements.
• Ensure that the test works with either Docker / Singularity. Conda CI tests can be quite flaky:
  • For modules:
    • nf-core modules test <MODULE> --profile docker
    • nf-core modules test <MODULE> --profile singularity
    • nf-core modules test <MODULE> --profile conda

Description

Adds a new module for circlator all, which runs the full Circlator pipeline to circularise genome assemblies from long reads (PacBio/Oxford Nanopore). The module takes an input assembly (FASTA) and long reads (FASTA/FASTQ) and outputs a circularised assembly. A stub test is used as the tool requires substantial real long-read data to run successfully.

Note

Singularity not available on local dev machine. Conda test fails due to a known libcrypto incompatibility with the circlator 1.5.5 conda package on modern systems — this is an upstream issue. Docker test passes successfully.