shapeerror

[wwood]

Running this from aviary (which didn't error out as probably should have)

[2023-12-01T19:27:11Z INFO  rosella] rosella version 0.5.1
[2023-12-01T19:27:11Z INFO  rosella::recover::recover_engine] Calculating contig coverages.
[2023-12-01T19:27:16Z INFO  rosella::recover::recover_engine] Calculating TNF table.
[2023-12-01T19:29:39Z ERROR rosella] Recover Failed with error: ShapeError/IncompatibleShape: incompatible shapes

What more info did you want?

[wwood]

This also happened when refining from metabat2, perhaps predictably

[sjparkmk]

hi there, i have the same error. the contigs were prepared by megahit (v1.2.9).

[rhysnewell]

I think I have a solution to this if either of you is willing to share your assembly with me I can test whether it is fixed and push out a new release. Otherwise, potential fix is on branch #ISS-47

[sjparkmk]

I think I have a solution to this if either of you is willing to share your assembly with me I can test whether it is fixed and push out a new release. Otherwise, potential fix is on branch #ISS-47

thanks for your reply.. but how could i share the huge file (ca. 7.6 Gb) to you?

could i use coverM? (#39 (comment))

[rhysnewell]

Very true, that won't work. Are you willing to try and clone the branch I mentioned and install via cargo? Install instructions should outline how, otherwise I will continue trying to reproduce the error on my end

[sjparkmk]

Very true, that won't work. Are you willing to try and clone the branch I mentioned and install via cargo? Install instructions should outline how, otherwise I will continue trying to reproduce the error on my end

Thanks a lot. OK. i am going to install and attempt coverM. and.. could i install via bioconda? cargo is better (i meant stable for install) than conda? if not, i will use conda. cheers!

[rhysnewell]

I was able to reproduce the issue and have fixed in v0.5.2
This new version should be available via conda soon