03-12-2014
The question sounds like a homework assignment.
Also looks like OP is interested in a shell script not any utility.
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1. UNIX for Advanced & Expert Users
Can anyone help me with the following:
I need to traverse subdirectories to create a list of files with the pathname. For example, here's what I get with a simple ls -alR command:
/MAIN/data/30007390 dte2>>ls -alR
.:
total 2
drwxrwx--- 4 ecfadmin staff 96 Oct 24 18:35 .
... (2 Replies)
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2. UNIX for Dummies Questions & Answers
Dear Techs,
In the past on a different box (HP) I use to be able to complete something I was typing by entering a portion of the filename in the pwd and I would hit the Esc key and it would match the rest of the filename. I did this without understanding how it was setup.
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Hi Canone please provide me solution how can achieve the result below:
File1.txt
$
sweet appleŁ1
scotish
green
$
This is a test1
$
sweet mangoŁ2
asia
yellow
$
This is a test 2
$
sweet apple red (there is no pound symbol here)
germany
green (1 Reply)
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4. UNIX for Dummies Questions & Answers
Hi,
Does anyone know how to make BASH provide a list of possible completions on the first tab, and then start cycling through the possibilites on the next tab?
Right now this is what I have in my .bashrc:
bind "set show-all-if-ambiguous on"
bind \\C-o:menu-complete
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5. Shell Programming and Scripting
Hi,
I want to split before reading the complete line as the line is very big and its throwing out of memory. can you suggest.
when i say
#cat $inputFile | while read eachLine
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Hi,
I am reading data from a variable which has spaces in it. I want to get the data after first space, i.e. if my data line is "My Name is Ashish...", I want the data returned as "Name is Ashish". I am using #!/bin/sh shell. Please help me with the code to read the complete data after first... (8 Replies)
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Hi
Is there any way GREP command can return word and not complete line.
My file has following data:
Hello Everyone I am NitinrajSrivastava
Hi Friends Welcome VrajSrivastava
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Hello all,
I have following line and want to search the exact match in text file.
30 6 * * * /data/abc/abc.ksh -f xya.sql -xyz@email -x -c -g
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Hi ,
I have a text file like below
abcd2223232321212121324343
asdsfffhfgfgfhgfhghghghghghgh
dfdfdfgfghfgfgfgfgfgghghghghgh
dfdfdfdfdfdfdfdfdfdfdfdfdfdfdfdf
1234567890sasasasfdfbffghffhf
abcd222323232121212abcdsds
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LEARN ABOUT DEBIAN
re-pcr
RE-PCR(1) General Commands Manual RE-PCR(1)
NAME
re-PCR -- Find sequence tagged sites (STS) in DNA sequences
SYNOPSIS
re-PCR [-hV] -p hash-file [-g gaps] [-n mism] [-lq] [primer ...]
re-PCR [-hV] -P hash-file [-g gaps] [-n mism] [-l] [-m margin] [-O+|-] [-C batchcnt] [-o outfile] [-r+|-] [primers-file ...]
re-PCR [-hV] -s hash-file [-g gaps] [-n mism] [-lq] [-m margin] [-o outfile] [-r+|-] [left right lo[-hi] [...]]
re-PCR [-hV] -S hash-file [-g gaps] [-n mism] [-lq] [-m margin] [-O+|-] [-C batchcnt] [-o outfile] [-r+|-] [stsfile ...]
DESCRIPTION
Implements reverse searching (called Reverse e-PCR) to make it feasible to search the human genome sequence and other large genomes by per-
forming STS and primer searches.
OPTIONS
-p=hash-file
Perform primer lookup using hash-file
-P=hash-file
Perform primer lookup using hash-file
-s=hash-file
Perform STS lookup using hash-file
-S=hash-file
Perform STS lookup using hash-file
-n=mism Set max allowed mismatches per primer for lookup
-g=gaps Set max allowed indels per primer for lookup
-m=margin Set variability for STS size for lookup
-l Use presize alignments (only if gaps>0)
-G Print alignments in comments
-d=min-max
Set default STS size
-r=+|- Enable/disable reverse STS lookup
-O=+|- Enable/disable syscall optimisation
-C=batchcnt
Set number of STSes per batch
-o=outfile
Set output file name
-q Quiet (no progress indicator)
EXAMPLE
famap -tN -b genome.famap org/chr_*.fa
fahash -b genome.hash -w 12 -f3 ${PWD}/genome.famap
re-PCR -s genome.hash -n1 -g1 ACTATTGATGATGA AGGTAGATGTTTTT 120-200
See famap(1) and fahash(1)
SEE ALSO
/usr/share/doc/ncbi-epcr/README.txt
bioperl(1), e-pcr(1), famap(1) and fahash(1)
AUTHORS
This manual page was written by Andreas Tille <tille@debian.org> for the Debian system (but may be used by others). Permission is granted
to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by
the Free Software Foundation.
On Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL.
April 2008 RE-PCR(1)