chip seq issues (hopefully resolved)

[KenSaville]

Hi
In running throug the chip seq (the yease glucose v ethanol example) example I ran into a couple of issues - posting in case any one else runs into this.

samtools sort: couldn't allocate memory for bam_mem.
I was running this on a linode cloud instance (which is a pretty easy way to get to a linux machine) 2 cores and 8 GB of Ram. I think the script was set for 8 cores. when I removed this option it seemed to work. But I did it on only one thread so it took quite a while.

when it got to the bam trimming step - got a "bam command not found error" I installed bamutils through conda and am rerunning. will update when it works (probably could have waited to post this) but either I installed things wrong or the bamutils package wasn't included in the original install script.

[KenSaville]

update - the bam trimming is working