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rrwick / Bandage

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
http://rrwick.github.io/Bandage/
GNU General Public License v3.0
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BLAST installation issue #66

Open lcampbe3 opened 6 years ago

lcampbe3 commented 6 years ago

Getting an error when trying to make a blast database that I need to install it. However, already installed. Doing this on a windows. I saw someone already posted this issue, but cannot find a resolution. Any suggestions?

YDum commented 5 years ago

I had the same problem, I created a shortcut for makeblastdb (at first it did not worked with the ".exe") in the Bandage file, and it worked, but then I renamed it to confirm that it does not worked without it, and it does... I don't know what I have done but I had modify a bit the environment variable for NCBI blast at a moment, it may have do the trick (but I was sure I wrote it exactly like it was before after that, so I don't know what I have done).

OwenDonohoe commented 2 years ago

For the purposes of actually providing a satisfactory and coherent answer please see this extremely useful and well written post,

https://www.blaststation.com/intl/members/en/howtoblastwin.html

Its not written in the context of using BLAST with Bandage, its more focused on the use of BLAST in windows in general. But if you just complete steps 1 and 2 of this guide, it is sufficient for Bandage to be able to find BLAST components in Windows.

I followed these steps exactly as described. Initially it made no difference (Bandage still could not find makeblastdb), but then I restarted Bandage and it all worked perfectly.

I hope it helps others.

jb16159 commented 1 year ago

Thank you for your help! I fixed this problem by following steps 1 and 2 of Owen Donohoe's guide and then creating a shortcut to makeblastdb and placing it in the bandage directory.