Re: [Inchworm-users] Running inchworm

[Brian H. <bh...@br...>]

Hi Nicholas,

Try giving the full path to the inchworm utility.

Also, I encourage you to use trinity as opposed to just inchworm.

Get trinity at trinityrnaseq.sf.net

The most recent version of inchworm is in trinity.

Best

-brian

(via iPhone)


On Sep 12, 2011, at 5:04 PM, "Sanford, Nicholas" <nic...@tt...> wrote:

> Hello,
> I have installed inchworm on a unix server but I am having trouble running the program.  I am trying to do de novo transcriptome assembly so I am using the command:
> 
> inchworm --reads Bayer5.fa --run_inchworm --DS >B5assembly.fasta
> 
> When I enter this command I get the following result:
> 
> -bash: inchworm: command not found
> 
> Can you tell me what I am doing wrong??
> 
> 
> Thank you,
> Nicholas Sanford
> Research Assistant
> Texas Tech University
> Department of Plant and Soil Science
> nic...@tt...<mailto:nic...@tt...>
> 972 837 7536
> 
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