The awk below produces an output with the original header and only the matching lines (which is good), but the output where the original line numbering in the match found on is used. I can not figure out how to sequentially number the output instead of using the original.
I did try to add {$1=++n; print} before the FNR==1 and though it executed the output was not correct. Thank you .
R_Index Chr Start End Ref Alt Func.refGeneWithVer Gene.refGeneWithVer
1362 chr1 235972867 235972867 T C exonic LYST
5 chr1 985239 985239 C T splicing AGRN
1701 chr2 48027375 48027375 T C exonic MSH6
R_Index Chr Start End Ref Alt Func.refGeneWithVer Gene.refGeneWithVer
1362 chr1 235972867 235972867 T C exonic LYST
1701 chr2 48027375 48027375 T C exonic MSH6
desired output
Code:
R_Index Chr Start End Ref Alt Func.refGeneWithVer Gene.refGeneWithVer
1 chr1 235972867 235972867 T C exonic LYST
2 chr2 48027375 48027375 T C exonic MSH6
We have to convert a sequential file to a 80 char line sequential file (HP UX platform).The sequential file contains special characters. which after conversion of the file to line sequential are getting coverted into "new line" or "tab" and file is getting distorted. Is there any way to read these... (2 Replies)
I have a set of files of multi-line records with the records separated by a blank line. I needed to add a record number to the front of each line followed by a colon and did the following:
awk 'BEGIN {FS = "\n"; RS = ""}{for (i=1; i<=NF; i++)print NR,":",$i}' ~/Desktop/data98-1-25.txt >... (3 Replies)
I'm pretty new to sed and awk, and I can't quite figure this one out. I've been trying with sed, as I'm more comfortable with it for the time being, but any tool that fits the bill will be fine.
I have a few files, whose contents appear more or less like so:
1|True|12094856|12094856|Test|... (7 Replies)
I have a simple text file.
I want to number each line in that file .
for example:
My text file is
unix
my file
test
My output should be
1 unix
2 my file
3 test (5 Replies)
I am using ghostscript to convert a multi-page pdf file to individual jpg files. I am wondering if there is a way to get ghostscript to start numbering the output jpg files from zero? What i am trying to convey is that it starts naming my files from page_001.jpg, page_002.jpg, etc., and would like... (0 Replies)
Hi
I have a file sequential way i.e. written in contineous mode and the Record Seperator is AM from which the record is seperated .Now to process I have to make line sequential,and more over record length is not same it varies as per the input address,
AM1234563 John Murray 24 Old streeet old... (5 Replies)
Hi,
I want to do the following:
Extract some lines from different files and copy them into one file, with the first column being the line number. I do this with
cat file1 file2 file3 |grep 'xxx' |nl > output.file
Works fine. But if I want to add data of interest from a fourth file to the... (2 Replies)
Hi
I have a file like this:
Peter North
Mary
Peter North
Peter Borough
Mary
I need there to put 'X' (or anything) on a new line between the two lines where 'Peter' begins the line. There will be many matches to this string, but they will always begin with 'Peter'.
Ie, the resulting... (2 Replies)
Hi I am in a bind, I need create a script that will rename files as they come into a folder with sequential numbering at the begining starting at 1 and proceeding to ten then starting at 1 again. Such as 1_filename.pdf, 2_filename.pdf, 3_filename.pdf, 4_filename.pdf, 5_filename.pdf, 6_filename.pdf,... (6 Replies)
The below awk is supposed filter $8 of example.txt using the each line in gene.txt. I think it is but why is it renumbering the 1,2,3 in $1 to 28,29,394? I have attached the data as it is large, example.txt is the file to be searched, gene.txt has the lines to match, and filtered.txt is the current... (2 Replies)
Discussion started by: cmccabe
2 Replies
LEARN ABOUT BSD
join
JOIN(1) General Commands Manual JOIN(1)NAME
join - relational database operator
SYNOPSIS
join [ options ] file1 file2
DESCRIPTION
Join forms, on the standard output, a join of the two relations specified by the lines of file1 and file2. If file1 is `-', the standard
input is used.
File1 and file2 must be sorted in increasing ASCII collating sequence on the fields on which they are to be joined, normally the first in
each line.
There is one line in the output for each pair of lines in file1 and file2 that have identical join fields. The output line normally con-
sists of the common field, then the rest of the line from file1, then the rest of the line from file2.
Fields are normally separated by blank, tab or newline. In this case, multiple separators count as one, and leading separators are dis-
carded.
These options are recognized:
-an In addition to the normal output, produce a line for each unpairable line in file n, where n is 1 or 2.
-e s Replace empty output fields by string s.
-jn m Join on the mth field of file n. If n is missing, use the mth field in each file.
-o list
Each output line comprises the fields specified in list, each element of which has the form n.m, where n is a file number and m is a
field number.
-tc Use character c as a separator (tab character). Every appearance of c in a line is significant.
SEE ALSO sort(1), comm(1), awk(1)BUGS
With default field separation, the collating sequence is that of sort -b; with -t, the sequence is that of a plain sort.
The conventions of join, sort, comm, uniq, look and awk(1) are wildly incongruous.
7th Edition April 29, 1985 JOIN(1)
11-16-2017
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