09-28-2008
Oh yea, and I have to make sure I don't run this command on the Column Headers....
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1. Shell Programming and Scripting
I would like to remove characters from column 7 so that from an input file looking like this:
>HWI-EAS422_12:4:1:69:89 GGTTTAAATATTGCACAAAAGGTATAGAGCGT U0 1 0 0 ref_chr8.fa 6527777 F DD
I get something like that in an output file:
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2. Shell Programming and Scripting
Hi all,
I'm new to Unix and work primarily in bioinformatics. I am in need of a script which will allow me to replace "1" with "chr1" in only the first column of a file which looks like such:
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How do I use awk to log transform the fifth column of a tab-delimited text file? Thanks! (1 Reply)
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4. Shell Programming and Scripting
I have a file which looks like this:
73450 articles and news developmental psychology 2006-03-30 16:22:40 1 http://www.usnews.com
73450 articles and news developmental psychology 2006-03-30 16:22:40 2 http://www.apa.org
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5. UNIX for Dummies Questions & Answers
I have a file having the following entries:
test1 test2 test3
11 22 33
22 44 66
99 99 44
---
I want to add a column so that the above file becomes:
test1 test2 test3 notest
11 22 33 *
22 44 66 *
99 99 44 *
---
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6. Shell Programming and Scripting
Hello,
I have this sentence :Pattern1 Pattern2 Pattern3 Pattern4-which-contains-HELLO-string-and-other-stuff-and-second-HELLO-and-third-HELLO
I want to delete everything between the 3rd tab (\t) and the FIRST pattern "HELLO" of the line.
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7. Shell Programming and Scripting
Hi,
Can anyone please tell me about how we can delete an entire column from a tab delimited file?
Mu input_file.txt looks like this:
And I want the output as:
I used the below code
nawk -v d="1" 'BEGIN{FS=OFS="\t"}{$d=""}{print}' input_file.txtBut in the output, the first column is... (5 Replies)
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8. UNIX for Dummies Questions & Answers
I have tried the following to no avail.
xargs -n8 < test.txt
awk '{if(NR%6!=0){p=""}else{p="\n"};printf $0" "p}' Mod_Alm_log.txt > test.txt
I have tried different variations of the above, the problem is mixes lines together.
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9. Shell Programming and Scripting
input
"A","B","C,D","E","F"
"S","T","U,V","W","X"
"AA","BB","CC,DD","EEEE","FFF"
required output:
"A","B","C,D","C,D","F"
"S", T","U,V","U,V","X"
"AA","BB","CC,DD","CC,DD","FFF"
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10. UNIX for Beginners Questions & Answers
Hello Everyone..
I want to replace the retail col from FileI with cstp1 col from FileP if the strpno matches in both files
FileP.txt
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LEARN ABOUT HPUX
quot_hfs
quot_hfs(1M) quot_hfs(1M)
NAME
quot_hfs: quot - summarize ownership on an HFS file system
SYNOPSIS
filesystem ...
DESCRIPTION
The command displays the number of 1024-byte blocks in the named HFS filesystem that are currently owned by each user. filesystem is
either the name of the directory on which the file system is mounted or the name of the device containing the file system.
Options
recognizes the following options:
Generate a report for all mounted HFS file systems.
Report size rather than user statistics.
Generates histogram statistics in 3-column format:
Column 1: File size in blocks. Sizes are listed in ascending order up to 499 blocks per file. Files occupying 499
or more blocks are counted together on a single line as 499-block files (but column 3 is based on actual
number of blocks occupied).
Column 2: Number of files of size indicated in column 1.
Column 3: Cumulative total blocks occupied by files counted in current plus all preceding lines.
Use of this option overrides the and options.
Display number of files and space occupied by each user.
Specify the file system type
Calculate the number of blocks in the file based on file size
rather than actual blocks allocated. This option does not account for sparse files (files with holes in them).
Accept data from the
command (see ncheck(1M)) as input. Run the pipeline:
to produce a list of all files and their owners.
Report on users.
This is the default action.
Display three columns containing the number of blocks
not accessed in the last 30, 60, and 90 days.
Echo the completed command line, but perform no other
action. The command line is generated by incorporating the user-specified options and other information derived from This
option allows the user to verify the command line. If the options specified are valid, the completed command line is
echoed. If the options specified are not valid, an error message is printed.
AUTHOR
a disk quota command, was developed by the University of California, Berkeley, Sun Microsystems, Inc., and HP.
FILES
Static information about the file systems
Mounted file system table
Password file (contains user names)
SEE ALSO
du(1), find(1), ls(1), fstyp(1M), mount(1M), ncheck(1M), quot(1M), repquota(1M), quota(5).
quot_hfs(1M)