Linear assemblies? about dnacauldron

[Zulko]

The short answer is that DnaCauldron can export linear assembly sequences, but the interface you are using doesn't support it yet.There are two ways forward:

1. Use a restriction mix instead and its compute_linear_assemblies method. It's just a few more line to get the records and the plots. Should be something like that:

mix = dc.RestrictionLigationMix(parts, enzyme)
for assembly in mix.compute_linear_assemblies():
    SeqIO.write(assembly, "record.gb") # assemly should be a biopython record
ax = mix.plot_connections_graph()
ax.figure.savefig("connections_graph.pdf")

2. There may be a way to expand the Type2sRestrictionAssembly class and in particular this line in the code so it will support linear assemblies.

[gjerman]

Great, I found the method compute_linear_assemblies() on the ConstructsMixin class but was scratching my head trying to figure out how to apply it. Will try you snippet asap. Thank you,.

[veghp]

A solution for linear assembly, using oligos, can be found here: #14 (comment)