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Error when running flight process #33
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Hi! Sorry just seeing this now. Yeah, I would assume that this has to do with your assembly quality not being great. The python component ( If you can get a better assembly produced and retry using rosella and see if the error happens again, please let me know. Cheers, |
Hi, Just a follow up on this. I've noticed some dependency issues arising recently. Could you run
and check what the actual error is? |
Hi! jumping into this thread because I'm coming across the same issues. I ran the flight bin command and this is what I got: (I'm using the CAMI dataset just to test that its installing correctly on our new cluster) and this is what I got:
I had problems installing rosella with the instructions, so I went and installed flight first (with their .yml file), and then installed rosella via the instructions. thanks in advance! |
Hi all, sorry for the delay on this. I've managed to get a working environment for the current version of rosella on the main branch by using the following yaml:
Let me know if this fixes the C header issue for you Cheers, |
Hi! Just following up that the new yaml file worked great, and it runs perfect now! thanks so much! |
Flight error logs should be exposed in |
Hi! I am having an issue running
rosella recover
on a Linux server. I have (as far as I can tell) installed rosella and flight within a conda environment using the instructions given. I also have CoverM installed within the same environment.I am passing a depth file from MetaBAT2 to the
-i
argument, and a contig coassembly FASTA file to-r
.I saw on another issue that the quality of the assembly may be to blame, and I'm pretty sure my assembly isn't great quality either... so that could be the issue 🤷♂️
Here are my contig stats from BBMap:
If you have any suggestions on what is happening here, that would be great. Thanks!
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