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Full Discussion: Shell scripting looping issue
Top Forums Shell Programming and Scripting Shell scripting looping issue Post 303007461 by swathi reddy1 on Friday 17th of November 2017 12:03:19 AM
Old 11-17-2017
Hi Don,

Thanks for your response

1)we are using unix

3)getsequence.txt will contain format like 'E_MSC_EKMS1_20171013_0100127269.dat'
4)these are the files in my directory

Code:
E_MSC_EKMS1_20160501_1100023455.dat
E_MSC_EKMS1_20160501_1100023455.ctl

E_MSC_EKMS1_20160501_1100023456.dat
E_MSC_EKMS1_20160501_1100023456.ctl

E_MSC_EKMS1_20160501_1100023457.dat
E_MSC_EKMS1_20160501_1100023457.ctl

they need to be renamed like

Code:
E_MSC_EKMS1_20160501_0100000005.dat
E_MSC_EKMS1_20160501_0100000005.ctl

E_MSC_EKMS1_20160501_0100000004.dat
E_MSC_EKMS1_20160501_0100000004.ctl

E_MSC_EKMS1_20160501_0100000003.dat
E_MSC_EKMS1_20160501_0100000003.ctl

5)yes when user types 1
Last edited by Don Cragun; 11-17-2017 at 02:51 AM.. Reason: Add CODE tags again.
 

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LEARN ABOUT DEBIAN

unknown

UNKNOWN(1)						      General Commands Manual							UNKNOWN(1)

NAME

       unknown - identify possible genotypes for unknowns

SYNOPSIS

       A program to rapidly identify which genotypes are possible for individuals typed as unknowns in the input pedigree.

       unknown [ -cl ]

DESCRIPTION

       unknown infers possible genotypes and mating combinations for parents with unknown genotypes for ilink(1), mlink(1) and linkmap(1).

OPTIONS

       -c     Use conditional allele frequencies.

       -l     Choose a good set of loop breakers automatically.

RETURN VALUE

       0     Successful completion

ERRORS

       10    File not found
       255   Failure

EXAMPLES

       Normally, unknown(1) is run immediately prior to its sister programs, ilink(1), mlink(1) and linkmap(1), like this:

       unknown
       mlink

FILES

       unknown(1) reads the two files pedfile.dat and datafile.dat as its own input and produces various temporary files that are used as input to
       the next program. These temporary files are ipedfile.dat, upedfile.dat, speedfile.dat and newspeedfile.dat.

NOTES

       unknown(1) is part of the FASTLINK package, which is a re-implementation of the LINKAGE suite  of  computer  tools  that  help  investigate
       genetic linkage as first proposed G.M. Lathrop, J.M. Lalouel, C. Julier, and J. Ott.

AUTHORS

       Dylan Cooper, Alejandro Schaffer, and Tony Schurtz based on work originally by Jurg Ott, Ph.D, et. al.

       This manual page was written by Elizabeth Barham <lizzy@soggytrousers.net> for the Debian GNU/Linux system (but may be used by others).

WORD-WIDE-WEB
       http://www.ncbi.nlm.nih.gov/CBBResearch/Schaffer/fastlink.html

SEE ALSO

       ilink(1), linkmap(1), lodscore(1), mlink(1).

								  April 15, 2003							UNKNOWN(1)
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