something along these lines:
default 2 lines before/after awk -f gene.awk file2.txt file1.txt
or 30 lines before/after awk -v ba=30 -f gene.awk file2.txt file1.txt
where gene.awk is:
Or depending on your OS/version of grep you could do (for 2 lines before/after): grep -A 2 -B 2 -F -f file2.txt file1.txt
Works great! Initially it was outputting 80 million rows, but that was my bad because a ".' had made its way into the column of data in file2
Last edited by Geneanalyst; 10-31-2018 at 07:18 AM..
I am trying to automate a process of searching through a set of files and replace all occurrences of a formatted text with the next item in the list of a second file. Basically i need to replace all instances of T????CLK???? with an IP address from a list in a second file. the second file is one IP... (9 Replies)
Hi all,
Please your help with this.
I have 2 files,
File_1-->contains a column of N numbers
File_2-->contains many lines with other info and numbers from File_1 within it.
I would like to get from File_2 all the lines containing within the same line each of N numbers from File_1... (4 Replies)
File1 row is same as column 2 in file 2.
Also file 2 will either start with A, B or C.
And 3rd column in file 2 is always F2.
When column 2 of file 2 matches file1 column, print all those rows into a separate file.
Here is an example.
file 1:
100
103
104
108
file 2:
... (6 Replies)
I have very limited coding skills but I'm wondering if someone could help me with this. There are many threads about matching strings in two files, but I have no idea how to add a column from one file to another based on a matching string.
I'm looking to match column1 in file1 to the number... (3 Replies)
Hello to all,
I hope somebody could help me with this:
I have this File1 (real has 5 million of lines):
Number Category
--------------- --------------------------------------
8734060355 3
8734060356 ... (6 Replies)
I'm trying to use awk to do the following. I have file1 with many lines, each containing 5 fields describing an individual set. I have file2 which is a template config file with variable space holders to be replaced by the values in file1. I would like to substitute each set of values in file1 with... (6 Replies)
I have a list of IDs in file1 and a list of sequences in file2. I can print sequences from file2, but I'm asking for help in printing the sequences in the same order as the IDs appear in file1.
file1:
EN_comp12952_c0_seq3:367-1668
ES_comp17168_c1_seq6:1-864
EN_comp13395_c3_seq14:231-1088... (5 Replies)
I have 2 file, file1 and file2. file1 has some keys and file2 has keys+some other data. I want to remove the lines from file2,if the key for that line exists in file1.
file1:
key1
key2
flie2:
key1,moredata
key2,moredata
key3,moredata
Required output:
key3,moredata
Thanks
EDIT:... (6 Replies)
I want to print only the lines in file2 that match file1, in the same order as they appear in file 1
file1
file2
desired output:
I'm getting the lines to match
awk 'FNR==NR {a++}; FNR!=NR && a' file1 file2
but they are in sorted order, which is not what I want:
Can anyone... (4 Replies)
I am trying to use awk to find all the $2 values in file2 which is ~30MB and tab-delimited, that are between $2 and $3 in file1 which is ~2GB and tab-delimited.
I have just found out that I need to use $1 and $2 and $3 from file1 and $1 and $2of file2 must match $1 of file1 and be in the range... (6 Replies)
Discussion started by: cmccabe
6 Replies
LEARN ABOUT DEBIAN
combine
COMBINE(1)COMBINE(1)NAME
combine - combine sets of lines from two files using boolean operations
SYNOPSIS
combine file1 and file2
combine file1 not file2
combine file1 or file2
combine file1 xor file2
_ file1 and file2 _
_ file1 not file2 _
_ file1 or file2 _
_ file1 xor file2 _
DESCRIPTION
combine combines the lines in two files. Depending on the boolean operation specified, the contents will be combined in different ways:
and Outputs lines that are in file1 if they are also present in file2.
not Outputs lines that are in file1 but not in file2.
or Outputs lines that are in file1 or file2.
xor Outputs lines that are in either file1 or file2, but not in both files.
"-" can be specified for either file to read stdin for that file.
The input files need not be sorted, and the lines are output in the order they occur in file1 (followed by the order they occur in file2
for the two "or" operations). Bear in mind that this means that the operations are not commutative; "a and b" will not necessarily be the
same as "b and a". To obtain commutative behavior sort and uniq the result.
Note that this program can be installed as "_" to allow for the syntactic sugar shown in the latter half of the synopsis (similar to the
test/[ command). It is not currently installed as "_" by default, but you can alias it to that if you like.
SEE ALSO join(1)AUTHOR
Copyright 2006 by Joey Hess <joey@kitenet.net>
Licensed under the GNU GPL.
moreutils 2012-04-09 COMBINE(1)