Error: err: option file. add space around the equal sign?.
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3.3 years ago
dudka • 0

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!

software error codeml • 1.2k views
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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.

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

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