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Question: problems installing mothur
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gravatar for amitpande74
5 months ago by
amitpande74 • 10
amitpande74 • 10 wrote:

Hi,

I am trying to set up Mothur toolsuite from jjohnson on my local instance and having some troubles....it says mothur 1.33 was not found in conda. Kindly help.
mothur galaxy • 292 views
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modified 5 months ago • written 5 months ago by amitpande74 • 10
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gravatar for Saskia Hiltemann
5 months ago by
Saskia Hiltemann • 70
Saskia Hiltemann • 70 wrote:

Hi :)

Please try installing the more recent version of the mothur tools (owner iuc) instead: https://toolshed.g2.bx.psu.edu/view/iuc/suite_mothur/a5ee03dfb216
ADD COMMENT • link written 5 months ago by Saskia Hiltemann • 70
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gravatar for amitpande74
5 months ago by
amitpande74 • 10
amitpande74 • 10 wrote:

Hi, This question is regarding Trim with an oligos file option. https://www.mothur.org/wiki/Oligos_File How to supply this file ?
ADD COMMENT • link written 5 months ago by amitpande74 • 10

Use the Make.contigs tool form option "Trim with an oligos file?" set to "yes" and select the dataset from the working history.

ADD REPLY • link written 5 months ago by Jennifer Hillman Jackson ♦ 25k
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gravatar for amitpande74
5 months ago by
amitpande74 • 10
amitpande74 • 10 wrote:

Hi Jennifer, Thanks for your reply.....but my question was more on the side of the file and its format which has to be uploaded in the history. https://www.mothur.org/wiki/Oligos_File does not mention it explicitly....I even tried compiling mothur from its source code yet ....still struggling. If you can , kindly help.
ADD COMMENT • link written 5 months ago by amitpande74 • 10

The file is just plain text and should be formatted as described in the link you reference. Any text editor could be used. The spaces between the data columns should all be a single tab. Make sure there are no extra blank lines at the top, internally, or at the end of the file.

ADD REPLY • link written 5 months ago by Jennifer Hillman Jackson ♦ 25k
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