make.file with inputdir printing inputdir

It would be totally killer if mothur could...
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kmitchell
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Joined: Wed Mar 10, 2010 8:19 pm
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make.file with inputdir printing inputdir

Post by kmitchell » Thu May 24, 2018 1:26 pm

Somewhere between 1.38 and 1.40 the behavior of make.file when using inputdir changed. in 1.38 the resulting file would be

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sample1   inputdir/sample1_R1.fastq.gz   inputdir/sample1_R2.fastq.gz
in 1.40 it's

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sample1   sample1_R1.fastq.gz   sample1_R2.fastq.gz
Is there a flag that I'm missing that will control that behavior? If not, could there be one?

westcott
Posts: 1729
Joined: Thu Sep 03, 2009 7:47 am

Re: make.file with inputdir printing inputdir

Post by westcott » Fri Jun 01, 2018 9:01 am

Thanks for the suggestion! Yes, we can add a parameter for this. You can watch the progress of the enhancement here, https://github.com/mothur/mothur/issues/466.

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