Matt Olm

Could it be that mash doesn’t have all the dependencies installed? Does running ‘mash -h’ give an error, for example?

Hi Bing, DRep provides checkM with genes, not scaffolds, so checkM has no way to know the correct number of scaffolds in a genome. The number of genes is probably...

Just a note to the above comment- that perl script also replaces newline characters with Ns. The following small modification seems to fix that: `perl -pe 's/[^AGTC\n]/N/gi unless m/>/;' old.fa...

Sorry @poddarharsh15 , but I don't think I can help troubleshoot this issue any further. Something about your systems specific python setup is wrong Best, Matt

@bentsherman - it's not quite a bug (it's how they intend it to be- https://docs.aws.amazon.com/cli/latest/reference/s3/sync.html), but I agree it's a really strange implementation choice. Just wanted to say I'm hitting...

Totally agree with you on the AWS CLI implementation, and I was as surprised as you are to find they implemented it this way, but it is what it is....

Thanks @bentsherman ! That makes to me. I also just want to point out to @Mridul-Chaudhary and others that may have this issue, that there's another workaround that works as...

You can provide a text file listing the location of each genome to the `-f` argument; that way it will get around the argument limit of your system. Best, Matt

You’ll just need to use “find” rather than “ls” to make the genome list. Best, Matt