Closed jdselwyn closed 4 years ago
This line in the config file: no freebayes -J --pooled-discrete (yes|no)
no freebayes -J --pooled-discrete (yes|no)
Needs to change to this: no freebayes -J --pooled-discrete (yes or no)
no freebayes -J --pooled-discrete (yes or no)
So the parsing of the genotyping properly goes to Individual genotyping not Pools with ploidy 2
I will update dDocentHPC.bash to accept either
I resolved this by dialing back the length of the search patterns for pulling the settings out of the config file. Changes have been pushed to github
This line in the config file:
no freebayes -J --pooled-discrete (yes|no)
Needs to change to this:
no freebayes -J --pooled-discrete (yes or no)
So the parsing of the genotyping properly goes to Individual genotyping not Pools with ploidy 2