If you don't have to use awk, the result you ask for can perhaps be achieved using basic shell tools and sed.
Eg. if the files are called file1, file2 and file3 and have the headers stripped off you could achieve the desired result this way:
This assumes that the fields in file1, file2 and file3 are separated with spaces. If they are sepatared by tabs, the sed command has to be modified so it prints tabs instead of spaces, but I didn't test it.
EDIT: You should post more details of the data you need to manipulate. For example, if more than one files are shorter than the others, the above will not work reliably. Also, is it possible that some records are skipped? For example a line starting with cnvi0000004 is immediately followed by a line starting with cnvi0000006. The best solution in my opinion would be to preprocess the files so they are of equal length of lines, and insert "empty" data for missing fields, eg. "-".
EDIT2: A more robust sed command handling possible consecutive empty records:
Last edited by ikki; 06-04-2010 at 10:11 AM..
Reason: addemdum
Hello,
My apologies if this has been posted elsewhere, I have had a look at several threads but I am still confused how to use these functions. I have two files, each with 5 columns:
File A: (tab-delimited)
PDB CHAIN Start End Fragment
1avq A 171 176 awyfan
1avq A 172 177 wyfany
1c7k A 2 7... (3 Replies)
I have n files (for ex:64 files) with one similar column. Is it possible to combine them all based on that column ?
file1
ax100 20 30 40
ax200 22 33 44
file2
ax100 10 20 40
ax200 12 13 44
file2
ax100 0 0 4
ax200 2 3 4 (9 Replies)
Hi Friends,
I have a file1 with 3400 records that are tab separated and I have a file2 with 6220 records. I want to merge both these files. I tried using join file1 and file2 after sorting. But, the records should be (3400*6220 = 21148000). Instead, I get only around 11133567. Is there anything... (13 Replies)
Hi,
I have 20 tab delimited text files that have a common column (column 1). The files are named GSM1.txt through GSM20.txt. Each file has 3 columns (2 other columns in addition to the first common column).
I want to write a script to join the files by the first common column so that in the... (5 Replies)
hi guys,
i need help
I need to join file2 to file1 when column 3 in my file1 and column 1 in my file2 in the same string
file1
AA|RR|ESKIM
RE|DD|RED
WE|WW|SUPSS
file2
ESKIM|ES
SUPSS|SS
Output
AA|RR|ESKIM|ES
RE|DD|RED|
WE|WW|SUPSS|SS (3 Replies)
Hello,
I have a file with 2 columns ( tableName , ColumnName) delimited by a Pipe like below . File is sorted by ColumnName.
Table1|Column1
Table2|Column1
Table5|Column1
Table3|Column2
Table2|Column2
Table4|Column3
Table2|Column3
Table2|Column4
Table5|Column4
Table2|Column5
From... (6 Replies)
Hello,
This post is already here but want to do this with another way
Merge multiples files with multiples duplicates keys by filling "NULL" the void columns for anothers joinning files
file1.csv:
1|abc
1|def
2|ghi
2|jkl
3|mno
3|pqr
file2.csv:
1|123|jojo
1|NULL|bibi... (2 Replies)
Discussion started by: yjacknewton
2 Replies
LEARN ABOUT OPENDARWIN
join
JOIN(1) BSD General Commands Manual JOIN(1)NAME
join -- relational database operator
SYNOPSIS
join [-a file_number | -v file_number] [-e string] [-o list] [-t char] [-1 field] [-2 field] file1 file2
DESCRIPTION
The join utility performs an ``equality join'' on the specified files and writes the result to the standard output. The ``join field'' is
the field in each file by which the files are compared. The first field in each line is used by default. There is one line in the output
for each pair of lines in file1 and file2 which have identical join fields. Each output line consists of the join field, the remaining
fields from file1 and then the remaining fields from file2.
The default field separators are tab and space characters. In this case, multiple tabs and spaces count as a single field separator, and
leading tabs and spaces are ignored. The default output field separator is a single space character.
Many of the options use file and field numbers. Both file numbers and field numbers are 1 based, i.e. the first file on the command line is
file number 1 and the first field is field number 1. The following options are available:
-a file_number
In addition to the default output, produce a line for each unpairable line in file file_number.
-e string
Replace empty output fields with string.
-o list
The -o option specifies the fields that will be output from each file for each line with matching join fields. Each element of list
has the either the form 'file_number.field', where file_number is a file number and field is a field number, or the form '0' (zero),
representing the join field. The elements of list must be either comma (``,'') or whitespace separated. (The latter requires quot-
ing to protect it from the shell, or, a simpler approach is to use multiple -o options.)
-t char
Use character char as a field delimiter for both input and output. Every occurrence of char in a line is significant.
-v file_number
Do not display the default output, but display a line for each unpairable line in file file_number. The options -v 1 and -v 2 may be
specified at the same time.
-1 field
Join on the field'th field of file 1.
-2 field
Join on the field'th field of file 2.
When the default field delimiter characters are used, the files to be joined should be ordered in the collating sequence of sort(1), using
the -b option, on the fields on which they are to be joined, otherwise join may not report all field matches. When the field delimiter char-
acters are specified by the -t option, the collating sequence should be the same as sort(1) without the -b option.
If one of the arguments file1 or file2 is ``-'', the standard input is used.
DIAGNOSTICS
The join utility exits 0 on success, and >0 if an error occurs.
COMPATIBILITY
For compatibility with historic versions of join, the following options are available:
-a In addition to the default output, produce a line for each unpairable line in both file 1 and file 2.
-j1 field
Join on the field'th field of file 1.
-j2 field
Join on the field'th field of file 2.
-j field
Join on the field'th field of both file 1 and file 2.
-o list ...
Historical implementations of join permitted multiple arguments to the -o option. These arguments were of the form
'file_number.field_number' as described for the current -o option. This has obvious difficulties in the presence of files named
'1.2'.
These options are available only so historic shellscripts don't require modification and should not be used.
STANDARDS
The join command conforms to IEEE Std 1003.1-2001 (``POSIX.1'').
SEE ALSO awk(1), comm(1), paste(1), sort(1), uniq(1)BSD April 18, 2002 BSD