H1889

Yes you are right, but I wonder if we should not also simulate real life. In real life the input medium must contain the inorganic compunds, amino acids and vitamins...

My files were named: nanopore: 71.fastq.gz Illumina: 72_R1.fastq.gz and 72_R2.fastq.gz as rhysnewell commented, the reads are cleaned and copied.

Sorry, but the name of my nanopore data is 71.fastq.gz, I do not understand your comment.

Do you want I rename my sample 71 to 72? So all the files have the same name (72)?

I have done you told me and it seems it is running all steps. Thanks

The pipeline is finishing (refine3 step), however I have noticed that at this step only one core is used, is this correct? This is the step carried out by metawrap,...

This is shown at the beginning of the pipeline: N E X T F L O W ~ version 21.10.6 Launching `./MUFFIN/main.nf` [pensive_brahmagupta] - revision: ab9fe45525 The parser_bin step also...

I have downloaded it but again the same error with nextflow: ./nextflow run ./MUFFIN -params-file MUFFIN_params.yml -profile local,singularity N E X T F L O W ~ version 21.10.6 Launching...

the downloaded version with git clone https://github.com/RVanDamme/MUFFIN.git is the 1.0.6?

If I run the version 1.0.6 the error "Include statement is not allowed within a workflow definition" is shown, however if I clone the github version with git the pipeline...