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CONTIGuator gets stuck on "Starting contig profiling"

So, I'm trying to finish an eukaryotic genome and make some comparisons, but, Contiguator gets stuck on Starting contig profiling. The last message is The reference genome has 685 replicons. And it has been there for hours. I have enough RAM (256 GB) then I know it is not a memory problem. Can anyone suggest something. The last file created is a BOutgenome1e-20.xml.

The code line I used is:

CONTIGuator.py -r reference-genome.fasta -c contigs.fasta -M

Thanks

software-error assembly genome
• 2,237 views • link
updated by Ram Ram • written by andrese52 • andrese52

The "tool" category is for when you are posting people an information piece about a new tool that you designed. Your current post is on a problem you face with an existing tool. This belongs in the "question" category.

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written by Ram Ram

Thank you, first time using it.

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updated by Ram Ram • written by andrese52 • andrese52

No worries, just thought you would like to know :)

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written by Ram Ram

1 answer

Guys, I had to wait approximately 24 hours for the program to continue with the next step. I started to worry because it was printing nothing on the terminal. I would suggest the script writers of CONTIGuator to add a few print STDOUT lines there, otherwise people might kill the program thinking it has a bug.

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updated by Ram Ram • written by andrese52 • andrese52

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