Peter Vegh

Glad to hear that changing the size parameter helped solving the issue -- I can imagine that a larger size range allows DNA Weaver to choose from more options, but...

That's a good idea and an excellent presentation - feel free to edit the readme. Alternatively I can add a few comments later this week, perhaps at the end of...

I certainly can recommend nextflow for pipelines, I'm finishing a nextflow pipeline now and it works well. After that I can move onto updating CUBA, and CAB, which is very...

Thanks @doppioandante for posting this, yes indeed there is an [issue](https://github.com/Edinburgh-Genome-Foundry/pdf_reports/actions/runs/8437497454/job/23107443020) we're currently having and there might be a couple things going on. Your solution was also proposed at https://doc.courtbouillon.org/weasyprint/stable/first_steps.html#installation...

This has already been pointed out in the SequencePattern docstring. I noted this in other places where relevant. I point to the docstring to single-source the information. But in most...

As far as I know, coiled migration has not been implemented yet. If you know how it affects migration, it may be possible to modify the `dna_size_to_migration()` function.

Hi thanks for the feedback. I think that should be possible using the [RestrictionLigationMix class](https://edinburgh-genome-foundry.github.io/DnaCauldron/ref/core_classes.html?highlight=restrictionligationmix#dnacauldron.AssemblyMix.RestrictionLigationMix), and specifying multiple enzymes in a list. If that doesn't work, you can try creating...

Hi @toriapetrova , this is a problem that interests us as well, and I have planned making a script that will do it using DNA Cauldron elements. I'll update on...

An example code answer to the original question, digesting with multiple enzymes (at the same time): ```python from Bio import SeqIO import dnacauldron as dc records = dc.biotools.load_records_from_files(folder="part_records/", use_file_names_as_ids=True) mix...

Hi, thanks for the interest in DnaCauldron! Yes, this is not an option at the moment. One could argue that an annotation spanning a site&overhang gets "destroyed" during restriction and...