Assembly graph results

[ODiogoSilva]

This PR adds the publishing of assembly graph results for assemblers that support this format:

• spades
• megahit

The results are are published under:

reports/assembly/spades_<pid>/<sample_id>
reports/assembly/megahit_<pid>/<sample_id>

[codecov-io]

Codecov Report

Merging #139 into dev will increase coverage by 0.84%.
The diff coverage is 100%.

@@            Coverage Diff             @@
##              dev     #139      +/-   ##
==========================================
+ Coverage   38.47%   39.31%   +0.84%     
==========================================
  Files          59       59              
  Lines        5588     6043     +455     
==========================================
+ Hits         2150     2376     +226     
- Misses       3438     3667     +229

Impacted Files	Coverage Δ
flowcraft/generator/components/metagenomics.py	100% <100%> (ø)	⬆️
flowcraft/tests/test_pipeline_parser.py	100% <0%> (ø)	⬆️
flowcraft/generator/inspect.py	11.15% <0%> (+0.88%)	⬆️
flowcraft/generator/pipeline_parser.py	97.08% <0%> (+1.13%)	⬆️

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[ODiogoSilva]

I would suggest putting the entire process conditional, thereby by-passing the creation of a new channel:

if (parans.fastq{{ param_id }}) {
    process megahit_fastg_{{ pid }}{
        // el code
    }
}

What do you think?

[cimendes]

Agreed! I'll add those changes :)