Error: err: option file. add space around the equal sign?.

Question

[dudka]

I keep getting this error while trying to run codeml on my alignment:

Error: err: option file. add space around the equal sign?.

I thought it was about the length of the directory but I shorted it a lot and the error is still popping out.

Does anybody know where is this coming from?

Thanks!

[Joe]

It suggests it may be in your options file. Please share your input files and your exact command. There isn't enough information in your post at the moment.

I don't know CodeML that well myself, but I'd infer from that error that you have an options file which is supposed to look something like

option1 = xxx
option2 = yyy
option3 = zzz

but yours probably looks something like

option1=xxx
option2= yyy
option3 =zzz

And it expects the = sign to be surrounded by whitespace.

[艳丽]

Hi, have you got you problem resolved? I also came across the same error, could you please give some suggestions?