mothur

How to use set.current?

Hello,
I don’t understand how to use the set.current command. In the wiki, the last paragraph mentions the “current” parameter but I don’t understand how to use it. I would like to “import” all the contents of the current_files.summary (the last state before closing the previous mothur session) at once but I have found how to do it.
In older forum posts, the command “load.logfile” seems to do just that, but apparently this command does not exist anymore.
Thank you for your help,
Maxime

Hello,
I have found the solution, I simply called the file I had created with get.current before closing the session (and renamed to keep track):
mothur > set.current(current=current_files.summary_2020-04-07)
However, this current file includes a line “contigsreport=stability.contigs.report” that apparently causes a problem:
[ERROR]: mothur does not save a current file for stability.contigs.report
The current_files.summary file created by get.current is the same as the current_files.summary_2020-04-07 except for the contigsreport line. The contigs step is much earlier and I don’t think it will have consequences but I just wanted to report this error.
Yours,
Maxime

By the way, what are the permissions for wiki editing? I have created a GitHub account in this prospect, but all I am offered is to create a fork of mothur…
Maxime

You fork the wiki, make an edit, and then come back to our repository and propose a pull request

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