Is there a command that sets a variable length?
I have a input of a variable length field but my output for that field needs to be set to 32 char.
Is there such a command?
I am on a sun box running ksh
Thanks (2 Replies)
I have a customer who logged some cc and bank account numbers in their apache logs. I got the cc numbers x'd out with
sed -e 's/args=\{16\}/args=XXXXXXXXXXXXXXXX/g' -e 's/cardnum=\{16\}/cardnum=XXXXXXXXXXXXXXXX/g'but that wasn't too difficult due to the value being 16 digits.
The bank account... (7 Replies)
Hi all,
I am trying to find the best way of making a change to 1 char in a string, the string can be between 1 and 14 characters.
I am reading a line in from a file which contains
012341231231:2:102939283:NNN: Require :NBN:
012838238232:3:372932:NNN: Require :NNB:
I need to change 1 N or a... (8 Replies)
Very, very new to unix scripting and have a unique situation. I have a file of records that contain 3 records types:
(H)eader Records
(D)etail Records
(T)railer Records
The Detail records are 82 bytes in length which is perfect. The Header and Trailer records sometimes are 82 bytes in... (3 Replies)
Hi,
Can anyone help with a effective solution ?
I need to change a variable length text field (between 1 - 18 characters) to a fixed length text of 18 characters with the unused portion, at the end, filled with spaces.
The text field is actually field 10 of a .csv file however I could cut... (7 Replies)
I have a string like
Months=jan feb mar april x y ..
Here the number of fields in Months is not definite
I need to extract each field in the Months string and pass it to awk . Don't want to use for in since it is a loop . How can i do it (2 Replies)
Hi All,
I am trying to replace the variable in the file after the particular match string. It is being replaced if i hardcode the value and with use of "&" with sed.
sed -e "s/URL./& http:\\localhost:7223/g"
But when am trying to pass the variable it is failing. I tried multiple... (9 Replies)
Hi Team,
I have an issue to split the file which is having special chracter(German Char) using awk command.
I have a different length records in a file. I am separating the files based on the length using awk command.
The command is working fine if the record is not having any... (7 Replies)
My sample file is variable length, with out any field delimiters. It has min of 18 chars length and the 'CRLF' is potentially between 12-14 chars. How do I replace this with a space? I still want to keep end of record, but just want to remove these new lines chars in the middle of the data.
... (7 Replies)
Discussion started by: chandrath
7 Replies
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)