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Re: [Bammds-users] Issue using bammds


From: George Foody (Researcher)
Subject: Re: [Bammds-users] Issue using bammds
Date: Wed, 12 Apr 2017 18:55:45 +0000

I have also tried the suggestion posted on https://lists.nongnu.org/archive/html/bammds-users/2016-12/msg00001.html which removed skip. However as soon as I do this (or remove part of skip) I get the following error (I have been trying this on the Gus data)


Error in setcolorder(ans, reorder) : 
  neworder is length 0 but x has 1878 columns.
Calls: all ... read_data_files -> as.data.frame -> <Anonymous> -> setcolorder
Execution halted

Any help would be much appreciated


George Foody
PhD student 

Archaeogenetics Research Group

Department of Biological Sciences

Description: Description: Description: Description: Description: Description: ico-1 address@hidden

School of Applied Sciences | University of Huddersfield | Queensgate | Huddersfield | HD1 3DH


From: George Foody (Researcher)
Sent: 11 April 2017 14:52:20
To: address@hidden
Subject: Issue using bammds
 

Dear sir/madam

I keep getting the following error when using bammds, using the Gus test data: I have tried reinstalling several times

[mpileup] 1 samples in 2 input files
<mpileup> Set max per-file depth to 8000
Error in data.table::fread(asd_file, sep = "auto", sep2 = "auto", nrows = nrows,  : 
  'skip' must be a length 1 vector of type numeric or integer >=0, or single character search string
Calls: all -> read_data_files -> as.data.frame -> <Anonymous>
Execution halted

Regards


George Foody
PhD student 

Archaeogenetics Research Group

Department of Biological Sciences

Description: Description: Description: Description: Description: Description: ico-1 address@hidden

School of Applied Sciences | University of Huddersfield | Queensgate | Huddersfield | HD1 3DH


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