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Error with coverage file #62

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winanonanona opened this issue Mar 2, 2023 · 0 comments
Open

Error with coverage file #62

winanonanona opened this issue Mar 2, 2023 · 0 comments

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@winanonanona
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winanonanona commented Mar 2, 2023

Hello!

For some reason, Binsanity-wf doesn't want to work with several, not all, of the coverage files outputted by Binsanity-profile. The error message says The program failed to read in your coverage file :(. Please check it to make sure it is in the right format. which I find it weird because I'm using the output of Binsanity-profile directly without changing anything. At first I thought it was the file size, but I think I've used BinSanity for files bigger than this and it worked. I also, stupidly, thought it was the file names (it just so happens that sample03 and sample13 failed, haha) so I changed the file name but it still doesn't work.

This has been previously posted in the google groups but the suggested solution doesn't work for me, sadly. I've tried looking for differences between files that worked and files that didn't, and I found nothing.

# works normally
Binsanity-wf -f ./ -l sample04_contigs.fasta \
        -c sample04.cov.x100.lognorm \
        -o ./test/ \
        --threads 32 \
        -p -3 --refine-preference -1

# doesn't work
Binsanity-wf -f ./ -l sample03_contigs.fasta \
        -c sample03.cov.x100.lognorm \
        -o ./test/ \
        --threads 32 \
        -p -3 --refine-preference -1

One fasta file is too big to upload, please let me know where I can email the related files. Thank you so much!
cov.zip

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