Sponsored Content
Top Forums UNIX for Beginners Questions & Answers Pattern matching using awk from a file Post 303045531 by Sanchari on Monday 30th of March 2020 07:28:41 PM
Old 03-30-2020
Pattern matching using awk from a file

Hello, I have a very large file (DB_file.txt) with coordinate positions, example:


example for the DB_file.txt
Code:
chr1    1000    2000    chr1    10000    11000    3    281    0    0.459585414218248    0    0    0    1218    1    1.88650643678468    0    0    0    0.000000425582664277006    3.87833663319237    0.000000425597761316606    0.201115300038799    0.743522481235195    0.822936566866982
chr1    1000    2000    chr1    11000    12000    4    281    0    0.459585414218248    0    0    0    459    1    0.710924839477969    0    0    0    0.000000355375953311341    1.75327208538672    0.000000192399150742434    0.068194541602096    0.101318817290739    0.81707019750747
chr1    1000    2000    chr1    12000    13000    5    281    0    0.459585414218248    0    0    0    1415    1    2.19163104109222    0    0    0    0.000000310867653966458    3.44281554060217    0.000000377804900731428    0.128881860609444    0.263803805858084    0.81707019750747
chr1    1000    2000    chr1    13000    14000    1    281    0    0.459585414218248    0    0    0    437    1    0.676850010570529    0    0    0    0.000000285200375223444    1.49690344452761    0.000000164265976667856    0.335040184988013    0.776177861586765    0.837324774202159
chr1    1000    2000    chr1    14000    15000    1    281    0    0.459585414218248    0    0    0    530    1    0.820893605497437    0    0    0    0.000000271516726063383    1.60662404023105    0.000000176306406449545    0.322230259464951    0.799436461434159    0.850447555722604
chr1    1000    2000    chr1    16000    17000    1    281    0    0.459585414218248    0    0    0    490    1    0.758939371120272    0    0    0    0.000000253854147173018    1.41695624386548    0.000000155492795574155    0.343542270137564    0.75754917047966    0.828368055880824
 chr1    1000    2000   chr1    18000    19000    2    281    0    0.459585414218248    0    0    0    130    1    0.201351261725787    0    0    0    0.000000231422263301451    0.691389012939271    0.0000000758710869983566    0.119714987783608    0.152817308925748    0.81707019750747

I have a pattern file with the following:


Code:
chr1    1000    2000    chr1    10000    11000
chr1    1000    2000    chr1    11000    12000
chr1    1000    2000    chr1    12000    13000

For a single query, I am using the command:
Code:
awk '{if ($1 == "chr1" && $2 == "1000" && $3 == "2000" && $4 == "chr1" && $5 == "38000" && $6 == "39000") print $0}'  DB_file.txt

How can I do for all the patterns in a file ?
 

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

AWK pattern matching, first and last

In a nutshell, I need to work out how to return the last matching pattern from an awk //,// search. I can bring back the first, but am unsure how to obtain the last, and a simple tail won't work as the match could be over multiple lines. Secondly I would like some way of pattern matching, a... (10 Replies)
Discussion started by: smb_uk
10 Replies

2. Shell Programming and Scripting

pattern matching using awk.

Dear Team, How do we match two patterns on the same line using awk?Are there any logical operators which i could use in awk like awk '\gokul && chennai\' <filename> Eg: Input file: gokul,10/11/1986,coimbatore. gokul,10/11/1986,bangalore. gokul,12/04/2008,chennai.... (2 Replies)
Discussion started by: gokulj
2 Replies

3. Shell Programming and Scripting

AWK pattern matching

Hi, How can I tell awk to print all lines/columns if column number 5 contains the word Monday? I have tried nawk -F, '$5==Monday' OFS=, myfile > outputfile but that doesn't work (I am a newb!!) Thanks, (7 Replies)
Discussion started by: keenboy100
7 Replies

4. UNIX for Dummies Questions & Answers

awk - pattern matching?

Hello all, I am trying to sort thru a database and print all the customers whose first names are only four characters. I just want to pull the first name only from the database. the database records appear like this in file: Mike Harrington:(510) 548-1278:250:100:175; first is name Mike... (4 Replies)
Discussion started by: citizencro
4 Replies

5. Shell Programming and Scripting

awk - writing matching pattern to a new file and deleting it from the current file

Hello , I have comma delimited file with over 20 fileds that i need to do some validations on. I have to check if certain fields are null and then write the line containing the null field into a new file and then delete the line from the current file. Can someone tell me how i could go... (2 Replies)
Discussion started by: goddevil
2 Replies

6. Shell Programming and Scripting

awk pattern matching

can somebody provide me with some ksh code that will return true if my the contents in my variable match anyone of these strings ORA|ERROR|SP2 variable="Error:ORA-01017: Invalid username/password; logon denied\nSP2-0640:Not connected" I tried this and it does not seem to work for me ... (3 Replies)
Discussion started by: BeefStu
3 Replies

7. Shell Programming and Scripting

Pattern matching using awk

Hi I am trying to find a pattern match with column one containing 3 numbers. input file tmp.lst abcd456|1|23123|123123|23423 kumadff|a|dadfadf|adfd|adfadfadf xxxd999|d|adfdfs|adfadf|adfdasfadf admin|a|dafdf|adfadfa||| output file tmp4.lst abcd456|1|23123|123123|23423... (3 Replies)
Discussion started by: vamsekumar
3 Replies

8. Shell Programming and Scripting

awk pattern matching

I have two files, want to compare file1 data with file2 second column and print line which are not matching. Need help in matching the pattern, file2 second column number can be leading 0 or 00 or 000. Example: file1 1 2 3 file2 a,0001 b,02 c,000 d,01 e,2 f,0005 Expected output:... (20 Replies)
Discussion started by: vegasluxor
20 Replies

9. Shell Programming and Scripting

Awk: Matching Pattern From other file with length

Hi, I have input file whose first column needs(match.txt) to be matched with the first column of the input file with min & max length as defined in match.txt. But conditions are not matching. Please help on the changes in the code below as for multiple enteries in match.txt complete match.txt will... (3 Replies)
Discussion started by: siramitsharma
3 Replies

10. Shell Programming and Scripting

Big pattern file matching within another pattern file in awk or shell

Hi I need to do a patten match between files . I am new to shell scripting and have come up with this so far. It take 50 seconds to process files of 2mb size . I need to tune this code as file size will be around 50mb and need to save time. Main issue is that I need to search the pattern from... (2 Replies)
Discussion started by: nitin_daharwal
2 Replies
MOUNT_UMAP(8)						    BSD System Manager's Manual 					     MOUNT_UMAP(8)

NAME
mount_umap -- user and group ID remapping file system layer SYNOPSIS
mount_umap [-o options] -g gid-mapfile -u uid-mapfile target mount-point DESCRIPTION
The mount_umap command is used to mount a sub-tree of an existing file system that uses a different set of uids and gids than the local sys- tem. Such a file system could be mounted from a remote site via NFS, a local file system on removable media brought from some foreign loca- tion that uses a different user/group database, or could be a local file system for another operating system which does not support Unix- style user/group IDs, or which uses a different numbering scheme. Both target and mount-point are converted to absolute paths before use. The options are as follows: -g gid-mapfile Use the group ID mapping specified in gid-mapfile. This flag is required. -o Options are specified with a -o flag followed by a comma separated string of options. See the mount(8) man page for possible options and their meanings. -u uid-mapfile Use the user ID mapping specified in uid-mapfile. This flag is required. The mount_umap command uses a set of files provided by the user to make correspondences between uids and gids in the sub-tree's original environment and some other set of ids in the local environment. For instance, user smith might have uid 1000 in the original environment, while having uid 2000 in the local environment. The mount_umap command allows the subtree from smith's original environment to be mapped in such a way that all files with owning uid 1000 look like they are actually owned by uid 2000. target should be the current location of the sub-tree in the local system's name space. mount-point should be a directory where the mapped subtree is to be placed. uid-mapfile and gid-mapfile describe the mappings to be made between identifiers. The format of the user and group ID mapping files is very simple. The first line of the file is the total number of mappings present in the file. The remaining lines each consist of two numbers: the ID in the mapped subtree and the ID in the original subtree. For example, to map uid 1000 in the original subtree to uid 2000 in the mapped subtree: 1 2000 1000 For user IDs in the original subtree for which no mapping exists, the user ID will be mapped to the user ``nobody''. For group IDs in the original subtree for which no mapping exists, the group ID will be mapped to the group ``nobody''. There is a limit of 64 user ID mappings and 16 group ID mappings. The mapfiles can be located anywhere in the file hierarchy, but they must be owned by root, and they must be writable only by root. mount_umap will refuse to map the sub-tree if the ownership or permissions on these files are improper. It will also report an error if the count of mappings in the first line of the map files is not correct. SEE ALSO
mount(8), mount_null(8) HISTORY
The mount_umap utility first appeared in 4.4BSD. BUGS
The implementation is not very sophisticated. BSD
March 6, 2001 BSD
All times are GMT -4. The time now is 06:08 PM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy