Has anyone seen this error?

[eric.merkley]

Failed to run normal search: [Error 2] The system cannot find the file specified: 'C:\\Users\\merk000\\Documents\\Dirigent\\XL_analysis_09-30-2013\\SCX_retained_fractions_pool_lotsdecoys\\1.sample\\search\\decoy1_qry.proteins.txt'

Running the newest version of pLink.  The example file works fine, but when I try to run my data I get this error.  Also, the 2.report folder is never generated and the log file contains a bunch of lines like this:

can't open report file C:\Users\merk000\Documents\Dirigent\XL_analysis_09-30-2013\SCX_retained_fractions_pool_lotsdecoys\1.sample\search\decoy1_qry.proteins.txt

From reading this mailing list, I already tried reformatting my mgf file headers, and making sure I had all the needed dll's.  Does anyone have any other ideas?  Thanks.

-Eric

[eric.merkley]

Not sure I can say I figured it out, but it's working now.  Seemed to be related to the length of my fasta file.  When I switched from 100 scrambled decoy sequences to 50, it ran fine.

[gershon...@gmail.com]

The problem isn't the size of the fasta file, it is the extension. If the file extension is decoy1_qry.proteins.fasta  and you write decoy1_qry.proteins.txt in the ini file, you get that error message. If you fix the extension, then you should be fine.