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Full Discussion: PLINK help
Top Forums Shell Programming and Scripting PLINK help Post 302695519 by smitra on Monday 3rd of September 2012 05:09:45 AM
Old 09-03-2012
Hello,
I tried to use

Code:
 ./plink --noweb --fam myfile.fam --bim myfile.bim --make-bed --out myfile.bed

But still didn't work. Here is the error message below. Can anybody PLEASE HELP?

Many thanks in advance.

@----------------------------------------------------------@
| PLINK! | v1.07 | 10/Aug/2009 |
|----------------------------------------------------------|
| (C) 2009 Shaun Purcell, GNU General Public License, v2 |
|----------------------------------------------------------|
| For documentation, citation & bug-report instructions: |
| PLINK: Whole genome data analysis toolset |
@----------------------------------------------------------@

Skipping web check... [ --noweb ]
Writing this text to log file [ myfile.bed.log ]
Analysis started: Mon Sep 3 10:06:10 2012

Options in effect:
--noweb
--fam myfile.fam
--bim myfile.bim
--make-bed
--out myfile.bed

** For gPLINK compatibility, do not use '.' in --out **

ERROR: No file [ plink.bed ] exists.
 

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replacekey(1)						      General Commands Manual						     replacekey(1)

NAME
replacekey - replace keywords in a FITS header SYNOPSIS
replacekey [options] <in> DESCRIPTION
replacekey is aimed at replacing keywords in a FITS file's header by new keywords provided by the user on the command-line. ALGORITHM
The user can provide a new_keyword, an old_keyword, a value and a comment. first searchs for old_keyword if provided. If it finds it, it replaces the associated card by the new one (new_keyword=value/comment). If old_keyword is either not found or not provided, associated card by the new one (new_keyword=value/comment). new_keyword has to be provided. Examples: You want to change the value of VALUE from 32 to 16 in myfile.fits: % replacekey -k "VALUE" -v "16" myfile.fits If you want to replace the card with the keyword OLD by "NEW = 3.14 / This is a usefull key" in myfile.fits: % replacekey -k "NEW" -v "3.14" -c "This is a usefull key" -K "OLD" myfile.fits If your do not care about the HISTORY cards you have in the header, and want to replace the first one by VALUE=32, you would do: % replacekey -k "VALUE" -v "32" -K "HISTORY" myfile.fits OPTIONS
-k or --key key To provide the new keyword. -K or --old key To provide the old keyword. -v or --val val To provide the new value. -c or --com com To provide the new comment. SEE ALSO
hierarch28 to convert HIERARCH ESO keywords to regular 8-char keywords. FILES
Files shall all comply with FITS format BUGS
Modifications are so far only possible in the main header, not in the extensions. 28 Oct 1999 replacekey(1)
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