02-19-2013
Quote:
Originally Posted by
RudiC
b) the file name format specifier you give does not fit the file names, at least one "m" is missing
And 2 "y"
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Dear Perl's Users,
Could anyone help me how to solve my problem. I have data with details below.
TTY NAME SEQUENCES
U-0 UNIX 0
U-1 UNIX 1
U-2 UNIX 2 <-- From 2 jump to 5
U-5 UNIX 5
U-6 UNIX 6 <-- From 6 jump to 20
U-20 ... (2 Replies)
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Hello all,
I have several directories with a sequence of files like this
IM-0001-0001.dcm
IM-0001-0002.dcm
IM-0001-0003.dcm
IM-0001-0004.dcm
IM-0001-0005.dcm
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Am using unix aix KSH...
I have the files called
MMRR0106.DAT
MMRR0206.DAT
MMRR0406.DAT
MMRR0506.DAT
MMRR0806.DAT
....
...
MMRR3006.DAT
MMRR0207.DAT
These files are in one dircetory /venky ?
I want the output like this ?
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Dear All members,
i have some trouble here, i want to ask your help. The case is:
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-ABCD1234
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f01_201304280000.DAT
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Hi,
I need to find out the missing sequence from a list. However the issue is there is not a fixed start and end, it depends on the generation of files.
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Hi,
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Dear all
i am having file with max 24 entries. i want to find which sequence is missing
file is like this
df00231587.dat
df01231587.dat
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df05231587.dat
.
.
.
df23231587.dat
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PP01674520141228X.gz
PP01674620141228X.gz
PP01674820141228X.gz
PP01674920141228X.gz
PP01675420141228X.gz
PP01675520141228X.gz
PP01676020141228X.gz
.
.
.
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Hi All,
I have a requirement that i need to list only the missing sequences with a unix script.
For Example:
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FILE_001.txt
FILE_002.txt
FILE_005.txt
FILE_006.txt
FILE_008.txt
FILE_009.txt
FILE_010.txt
FILE_014.txt
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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)