Sponsored Content
Full Discussion: Match entries
Top Forums Shell Programming and Scripting Match entries Post 302696483 by manigrover on Wednesday 5th of September 2012 05:04:03 AM
Old 09-05-2012
Request to check

Hi

it shows follwoing error this time after covnerting into sed file
Code:
bash-3.2$ sed -f file_sed drugbanktest > file_output
sed: file file_sed line 55: unknown option to `s'
bash-3.2$ sed -f file_sed drugbanktest > file_output
sed: file file_sed line 55: unknown option to `s'

@ Raj

When I m running the code on my big files the output is nothign but just combination of file1 and file 2 no change further

For eg if u can just check in the attached two files

file drug contain name of drugs and disease in front of those

file drugbandrugs contains name of Symbols and then name of drugs

so it should search the drug name in the drug file and if matched than write the disease name in front of it in output.
 

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

sed command to match log entries

Hello, I would like to write a sed comman dwith pattern matching .to match those record which have some character(userd id) present in it. Example : Logfile contents -- 127.0.0.1 - - "POST /cgi-bin/cgi-module-example.pl HTTP/1.1" 200 1866 127.0.0.1 - - "POST... (4 Replies)
Discussion started by: jambesh
4 Replies

2. UNIX and Linux Applications

mysql query all entries which 'dont' match

I am trying to query a list of hosts and extract all entries which 'dont' match. SELECT LOGS.host, GOODLIST.host FROM LOGS,db.GOODLIST WHERE (LOGS.host <> GOODLIST.host)When I use this query, it is very very slow. Matching the host with the GOODLIST.host works great and fast but when I use <>... (1 Reply)
Discussion started by: hazno
1 Replies

3. Shell Programming and Scripting

Match the word or words and fetch the entries

Hi all, I have 7 words Now I have 1 file which contain data in large number of rows and columns and 6th column contain any of these words or may be more than one words among above 7 words: I want script should search for the above mentioned 7 words in the 6th column ... (9 Replies)
Discussion started by: manigrover
9 Replies

4. Shell Programming and Scripting

Match first column entries precisely and fetch whatever in front of it

Hi all I have 2 files: first file AABC TTYP JKBH CVBN NHJK KJHM Second file is AABC,XCYU,JUHD Alllele1 GACXT It is approved study TTYP,JKBH Allele2 PPRD It is clinical trial study JKBH Allele2 PPRD ... (5 Replies)
Discussion started by: Priyanka Chopra
5 Replies

5. Shell Programming and Scripting

Match first column and separate entries

Hi I have 2 big files containing following information: file 1 12345 345634 217341 87234693 8236493 file 2: 12345 1237 (6 Replies)
Discussion started by: kaav06
6 Replies

6. Shell Programming and Scripting

Match pattern1 in file, match pattern2, substitute value1 in line

not getting anywhere with this an xml file contains multiple clients set up with same tags, different values. I need to parse the file for client foo, and change the value of tag "64bit" from false to true. cat clients.xml <Client type"FIX"> <ClientName>foo</ClientName>... (3 Replies)
Discussion started by: jack.bauer
3 Replies

7. Shell Programming and Scripting

Display match or no match and write a text file to a directory

The below bash connects to a site, downloads a file, searches that file based of user input - could be multiple (all that seems to work). What I am not able to figure out is how to display on the screen match found or no match found" and write a file to a directory (C:\Users\cmccabe\Desktop\wget)... (4 Replies)
Discussion started by: cmccabe
4 Replies

8. Shell Programming and Scripting

awk to update file based on partial match in field1 and exact match in field2

I am trying to create a cronjob that will run on startup that will look at a list.txt file to see if there is a later version of a database using database.txt as the source. The matching lines are written to output. $1 in database.txt will be in list.txt as a partial match. $2 of database.txt... (2 Replies)
Discussion started by: cmccabe
2 Replies

9. Shell Programming and Scripting

awk to print match or non-match and select fields/patterns for non-matches

In the awk below I am trying to output those lines that Match between file1 and file2, those Missing in file1, and those missing in file2. Using each $1,$2,$4,$5 value as a key to match on, that is if those 4 fields are found in both files the match, but if those 4 fields are not found then missing... (0 Replies)
Discussion started by: cmccabe
0 Replies

10. UNIX for Beginners Questions & Answers

Data match 2 files based on first 2 columns matching only and join if match

Hi, i have 2 files , the data i need to match is in masterfile and i need to pull out column 3 from master if column 1 and 2 match and output entire row to new file I have tried with join and awk and i keep getting blank outputs or same file is there an easier way than what i am... (4 Replies)
Discussion started by: axis88
4 Replies
SED(1)								   User Commands							    SED(1)

NAME
sed - stream editor for filtering and transforming text SYNOPSIS
sed [OPTION]... {script-only-if-no-other-script} [input-file]... DESCRIPTION
Sed is a stream editor. A stream editor is used to perform basic text transformations on an input stream (a file or input from a pipe- line). While in some ways similar to an editor which permits scripted edits (such as ed), sed works by making only one pass over the input(s), and is consequently more efficient. But it is sed's ability to filter text in a pipeline which particularly distinguishes it from other types of editors. -n, --quiet, --silent suppress automatic printing of pattern space -e script, --expression=script add the script to the commands to be executed -f script-file, --file=script-file add the contents of script-file to the commands to be executed --follow-symlinks follow symlinks when processing in place -i[SUFFIX], --in-place[=SUFFIX] edit files in place (makes backup if extension supplied) -l N, --line-length=N specify the desired line-wrap length for the `l' command --posix disable all GNU extensions. -r, --regexp-extended use extended regular expressions in the script. -s, --separate consider files as separate rather than as a single continuous long stream. -u, --unbuffered load minimal amounts of data from the input files and flush the output buffers more often --help display this help and exit --version output version information and exit If no -e, --expression, -f, or --file option is given, then the first non-option argument is taken as the sed script to interpret. All remaining arguments are names of input files; if no input files are specified, then the standard input is read. GNU sed home page: <http://www.gnu.org/software/sed/>. General help using GNU software: <http://www.gnu.org/gethelp/>. E-mail bug reports to: <bug-gnu-utils@gnu.org>. Be sure to include the word ``sed'' somewhere in the ``Subject:'' field. COMMAND SYNOPSIS
This is just a brief synopsis of sed commands to serve as a reminder to those who already know sed; other documentation (such as the tex- info document) must be consulted for fuller descriptions. Zero-address ``commands'' : label Label for b and t commands. #comment The comment extends until the next newline (or the end of a -e script fragment). } The closing bracket of a { } block. Zero- or One- address commands = Print the current line number. a text Append text, which has each embedded newline preceded by a backslash. i text Insert text, which has each embedded newline preceded by a backslash. q [exit-code] Immediately quit the sed script without processing any more input, except that if auto-print is not disabled the current pattern space will be printed. The exit code argument is a GNU extension. Q [exit-code] Immediately quit the sed script without processing any more input. This is a GNU extension. r filename Append text read from filename. R filename Append a line read from filename. Each invocation of the command reads a line from the file. This is a GNU extension. Commands which accept address ranges { Begin a block of commands (end with a }). b label Branch to label; if label is omitted, branch to end of script. c text Replace the selected lines with text, which has each embedded newline preceded by a backslash. d Delete pattern space. Start next cycle. D Delete up to the first embedded newline in the pattern space. Start next cycle, but skip reading from the input if there is still data in the pattern space. h H Copy/append pattern space to hold space. g G Copy/append hold space to pattern space. l List out the current line in a ``visually unambiguous'' form. l width List out the current line in a ``visually unambiguous'' form, breaking it at width characters. This is a GNU extension. n N Read/append the next line of input into the pattern space. p Print the current pattern space. P Print up to the first embedded newline of the current pattern space. s/regexp/replacement/ Attempt to match regexp against the pattern space. If successful, replace that portion matched with replacement. The replacement may contain the special character & to refer to that portion of the pattern space which matched, and the special escapes 1 through 9 to refer to the corresponding matching sub-expressions in the regexp. t label If a s/// has done a successful substitution since the last input line was read and since the last t or T command, then branch to label; if label is omitted, branch to end of script. T label If no s/// has done a successful substitution since the last input line was read and since the last t or T command, then branch to label; if label is omitted, branch to end of script. This is a GNU extension. w filename Write the current pattern space to filename. W filename Write the first line of the current pattern space to filename. This is a GNU extension. x Exchange the contents of the hold and pattern spaces. y/source/dest/ Transliterate the characters in the pattern space which appear in source to the corresponding character in dest. Addresses Sed commands can be given with no addresses, in which case the command will be executed for all input lines; with one address, in which case the command will only be executed for input lines which match that address; or with two addresses, in which case the command will be executed for all input lines which match the inclusive range of lines starting from the first address and continuing to the second address. Three things to note about address ranges: the syntax is addr1,addr2 (i.e., the addresses are separated by a comma); the line which addr1 matched will always be accepted, even if addr2 selects an earlier line; and if addr2 is a regexp, it will not be tested against the line that addr1 matched. After the address (or address-range), and before the command, a ! may be inserted, which specifies that the command shall only be executed if the address (or address-range) does not match. The following address types are supported: number Match only the specified line number. first~step Match every step'th line starting with line first. For example, ``sed -n 1~2p'' will print all the odd-numbered lines in the input stream, and the address 2~5 will match every fifth line, starting with the second. first can be zero; in this case, sed operates as if it were equal to step. (This is an extension.) $ Match the last line. /regexp/ Match lines matching the regular expression regexp. cregexpc Match lines matching the regular expression regexp. The c may be any character. GNU sed also supports some special 2-address forms: 0,addr2 Start out in "matched first address" state, until addr2 is found. This is similar to 1,addr2, except that if addr2 matches the very first line of input the 0,addr2 form will be at the end of its range, whereas the 1,addr2 form will still be at the beginning of its range. This works only when addr2 is a regular expression. addr1,+N Will match addr1 and the N lines following addr1. addr1,~N Will match addr1 and the lines following addr1 until the next line whose input line number is a multiple of N. REGULAR EXPRESSIONS
POSIX.2 BREs should be supported, but they aren't completely because of performance problems. The sequence in a regular expression matches the newline character, and similarly for a, , and other sequences. BUGS
E-mail bug reports to bonzini@gnu.org. Be sure to include the word ``sed'' somewhere in the ``Subject:'' field. Also, please include the output of ``sed --version'' in the body of your report if at all possible. COPYRIGHT
Copyright (C) 2009 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICU- LAR PURPOSE, to the extent permitted by law. GNU sed home page: <http://www.gnu.org/software/sed/>. General help using GNU software: <http://www.gnu.org/gethelp/>. E-mail bug reports to: <bug-gnu-utils@gnu.org>. Be sure to include the word ``sed'' somewhere in the ``Subject:'' field. SEE ALSO
awk(1), ed(1), grep(1), tr(1), perlre(1), sed.info, any of various books on sed, the sed FAQ (http://sed.sf.net/grabbag/tutorials/sed- faq.txt), http://sed.sf.net/grabbag/. The full documentation for sed is maintained as a Texinfo manual. If the info and sed programs are properly installed at your site, the command info sed should give you access to the complete manual. sed 4.2.1 December 2010 SED(1)
All times are GMT -4. The time now is 01:29 PM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy