Hi, fajohnson...
Your command line is worked. But still left all the header of the nucleotide sequence. Do you have better idea that I just remain the first header of those same nucleotide sequence?
My input:
>HWI-EAS382_30FC7AAXX:4:1:631:449
>HWI-EAS382_30FC7AAXX:4:1:93:1407
>HWI-EAS382_30FC7AAXX:4:1:154:1123
>HWI-EAS382_30FC7AAXX:4:1:912:1008
>HWI-EAS382_30FC7AAXX:4:1:57:316
>HWI-EAS382_30FC7AAXX:4:1:1287:1193
>HWI-EAS382_30FC7AAXX:4:1:1451:1559
>HWI-EAS382_30FC7AAXX:4:1:1431:1913
TTTCCGCGAACTGCAAAAGACGTTTCGTATGCCGTT
My output just want left this:
>HWI-EAS382_30FC7AAXX:4:1:631:449
TTTCCGCGAACTGCAAAAGACGTTTCGTATGCCGTT
Hi,
I have a scenario here where I have created a flatfile with the below mentioned information. File as you can see is dispalyed in three columns
1st column is FileNameString
2nd column is Report_Name (this has spaces)
3rd column is Flag
Result file needed is, removal of duplicate... (1 Reply)
Can anyone help me how can i print only the unique entry in a line?
MI_AP MI_AP MI_CM MI_MF
RC_NAP MBS_AP SF_RAN MBS_AP NT_CAR
so that it will on output the one unique entry per line.
MI_AP MI_CM MI_MF
RC_NAP MBS_AP SF_RAN NT_CAR
I can't find the same situation on the knowledge... (5 Replies)
For example, if I have the file whose content are:
>HWI-EAS382_30FC7AAXX:7:1:927:1368
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
>HWI-EAS382_30FC7AAXX:7:1:924:1373
ACGAACTTTAAAGCACCTCTTGGCTCGTATGCCGTC
I want my output calculate the total of nucleotide. So my output should look like this:... (2 Replies)
Hi,
Please help!
I have a file having duplicate words in some line and I want to remove the duplicate words.
The order of the words in the output file doesn't matter.
INPUT_FILE
pink_kite red_pen ball pink_kite ball
yellow_flower white no white no
cloud nine_pen pink cloud pink nine_pen... (6 Replies)
I have a file a.txt having content like
deepak
ram
sham
deepram
sita
kumar
I Want to delete the first line containing "deep" ...
I tried using...
grep -i 'deep' a.txt
It gives me 2 rows...I want to delete the first one..
+ need to know the command to delete the line from... (5 Replies)
Hi
Ive been scratching over this for some time with no solution.
I have a file like this
1 bla bla 1
2 bla bla 2
4 bla bla 3
5 bla bla 1
6 bla bla 1
I want to remove consecutive occurrences of lines like bla bla 1, but the first column may be different.
Any ideasss?? (23 Replies)
So I have a bunch of files that look like this
>gi|33332323
MMKCRGVIMVVEKVMKRDGRIVPFDESRIRWAVQ---
>gi|45235353
MMKCR----VEKMRDVFFDESIRWAVQ
They go on...sequences are much longer but all in two line (fasta) format.
I want to remove duplicate pairs of ID(GI) number and sequence. I tried... (12 Replies)
Hello,
I have a file which have several duplicate entries on the same line:
File
ID source
1 GM GF GM
2 GM GF GM GF GM GF GM GF GM GF
3 GM GF GM SF GM GF GM SF
4 FF FF FF FF
5 FF GM FF ... (2 Replies)
HI,
I have the below input file
/* ----------------- cmdsDlyStartFWJ -----------------*/
UNIX_JOB CMDS065J
RUN ANY
CMDNAME sleep 5
AGENT CMDSHP
USER proddata
RUN MON,TUE,WED,THU,FRI
DELAYSUB 02:00
/* "Triggers daily file watcher jobs" */
ENVAR... (5 Replies)
Discussion started by: varun22486
5 Replies
LEARN ABOUT CENTOS
xmlstarlet
XMLSTARLET(1) xmlstarlet Manual XMLSTARLET(1)NAME
xmlstarlet - command line XML/XSLT toolkit
SYNOPSIS
xmlstarlet [<options>] [<command>] [<cmd-options>]
INTRODUCTION
XMLStarlet is a set of command line utilities (tools) which can be used to transform, query, validate, and edit XML documents and files us-
ing simple set of shell commands in similar way it is done for plain text files using UNIX grep, sed, awk, diff, patch, join, etc commands.
This set of command line utilities can be used by those who deal with many XML documents on UNIX shell command prompt as well as for auto-
mated XML processing with shell scripts.
OPTIONS --version
Display the version of xmlstarlet.
--help Display help.
COMMANDS
Type: xmlstarlet <command> --help <ENTER> for command help
Available commands include:
ed (or edit)
Edit/update XML document(s).
sel (or select)
Select data or query XML document(s) (XPATH, etc).
tr (or transform)
Transform XML documents(s) using XSLT.
val (or validate)
Validate XML document(s) (well-formed/DTD/XSD/RelaxNG).
fo (or format)
Format XML document(s).
el (or elements)
Display element structure of XML document.
c14n (or canonic)
XML canonicalization.
ls (or list)
List directory as XML.
esc (or escape)
Escape special XML characters.
unesc (or unescape)
Unescape special XML characters.
pyx (or xmln)
Convert XML into PYX format (based on ESIS - ISO 8879).
p2x (or depyx)
Convert PYX into XML.
REFERENCES
XMLStarlet is a command line toolkit to query/edit/check/transform XML documents (for more information see http://xmlstar.source-
forge.net/).
AUTHOR
Mikhail Grushinskiy.
XMLSTARLET(1)