I installed stacks using conda, and stacks 1.44 was installed. However, I would have loved to have the recent version 2.53 at least.
I decided to run
denovo.pl on the version 1.44 and the error message I got was
Unknown command line option: '--popmap'
My command is
denovo_map.pl --samples /public/home/WHC_BBT/Substacks21/ \ --popmap /public/home/WHC_BBT/Substacks21/popu-sub.txt \ -o /public/home/WHC_BBT/Substacks21/M3/ \ -M 3\ -n 3 \ -X "populations: -r 0.8 -T 10" \ --paired
How can I overcome this?
Do I need to remove 1.44 and install 2.53 directly instead of using conda?