formatdb or makeblastdb?

[kyrenya]

Hi, I am interested in making a database from fasta files (one with proteins, other with nucleotides -mRNAs). I'm reading the docs, and its adviced to do with formatdb command. My question is.. which is the difference between doing it with formatdb and makeblastdb for this purpose? will this affect in the functioning of the module somehow?
Thanks!

[laceysanderson]

To my understanding they are equivalent with makeblastdb being the newer version of formatdb. So it should not make a difference. Most of the testing was done with formatdb but we are just moving to makeblastdb ourselves.

[kyrenya]

good! Thanks!
for me it worked! as it worked, I didnt went to deep in that, but I think it might have some impact when we are configuring the database in tripal saying if has the NCBI format

but I'm not sure because I didn't try it.

[laceysanderson]

I'm going to close this issue. I've used both options with no bad effects but if you run into any problems feel free to comment back here 👍