I - maybe - spotted a little bug in the log file outputs…
If you type in a malformed mothur function call like :
( this command spans over two lines in the editor I wrote separated by a line feed -> so mothur can’t read it )
I get the answer :
[ERROR]:You are missing )
Here we got no space between the colon and the first character of the error message.
For other error cases like
[ERROR]: did not complete summary.seqs.
We got a space between them( and for warnings there is a space too ).
So maybe you can provide a convetion how error and warning messages are constructed?