split_contigs.py produces empty files

[ChaoXianSen]

HI, I am trying to run phamb in parallel-annotation mode, and when I used split_contigs.py as the code below python split_contigs.py -c contigs.fna.gz the results ´assembly´ folder and ´sample_table.txt´ file are empty. What should I do?

thanks !

[joacjo]

Hi Chao

It sounds like your contigs are not named in a way that works with the script. Contigs named i.e. like this would work with the default split (-s "C") parameter of the script

Sample1Contig1 Sample1Contig2 Show me an example of your contig headers, then it's easier to figure out.

[ChaoXianSen]

Hi Chao

It sounds like your contigs are not named in a way that works with the script. Contigs named i.e. like this would work with the default split (-s "C") parameter of the script

Sample1Contig1 Sample1Contig2 Show me an example of your contig headers, then it's easier to figure out.

thanks a lot, i have solved this question~