Luigi Faino

@eburgueno to be honest, i did not learn yet singularity syntax. I build images in docker and I pull from Singularity. I suppose that optimizing docker, I will optimize singularity...

very nice suggestion. once i tried to implement it but i should pick up the option

Hi @zcrself , sorry if I answer so late. are you using only long reads without short reads? Cheers Luigi

can you send me the command that you used?

and the content of evm_input and evm_output folder, please

a screen shot of the content is enough

No. looks like that PASA did not work correctly. are you using docker or singularity to run lorean?

you need to remove the PASA directory, the evm directories and the gmap directory before. it should work

I would suggest to download the latest image (just to be sure)

yes you can send to me. I can test it