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1. Shell Programming and Scripting
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
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2. Shell Programming and Scripting
I need to know if file1 is a subset of file2 i.e all the contents of file1 are present in file2 or not.
Here is how i would do it.
Read line by line file1 and grep every line in file2 in a for loop. any failing grep would means that it is not a subset.
Is there a quicker or easier way... (3 Replies)
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3. UNIX for Dummies Questions & Answers
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)
Discussion started by: pathunkathunk
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4. Shell Programming and Scripting
HI,
I would like a little help on writing a if statement.
What i have so far is:
#!/bin/bash
FILE1=path/to/file1
FILE2=path/to/file2
echo ${FILE1} ${FILE2}
if ]
then
echo file1 and file2 not found
else
echo FILE ok
fi (6 Replies)
Discussion started by: techy1
6 Replies
5. Shell Programming and Scripting
Hi guys!
I'm trying to write something to find each line of file1 into file2, if line is found return YES, if not found return NO. The result can be written to a new file.
Can you please help me out?
FILE1 INPUT:
WATER
CAR
SNAKE
(in reality this file has about 600 lines each with a... (2 Replies)
Discussion started by: demmel
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6. UNIX for Dummies Questions & Answers
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)
Discussion started by: pathunkathunk
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7. Shell Programming and Scripting
Hi
I started to learn bash a week ago. I need filter the strings from the last column of a "file2" that match with a column from an other "file1"
file1:
chr10100036394-100038350AK077761
chr10100041065-100046547AK032226
chr10100041065-100046547AK016270
chr10100041065-100046547AK078231
...... (6 Replies)
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8. Shell Programming and Scripting
Hello, I am new to shell scripting and i need to create a script with the following directions and I can not figure it out.
Create a shell script called newest.bash that takes two filenames as input arguments ($1 and $2) and prints out the name of the newest file (i.e. the file with the... (1 Reply)
Discussion started by: mandylynn78
1 Replies
9. UNIX for Dummies Questions & Answers
file1 has pgap500 500
file2 has bunch of data
cat file1 file2 > file3
cp file2 file3.dat then vi pgap500 500 onto 1st line
compare file3 and fil3.dat, they are not the same.
any idea ? the 1st line, i want to put pg500 xxx
---------- Post updated at 07:35 AM ---------- Previous... (2 Replies)
Discussion started by: tjmannonline
2 Replies
10. Shell Programming and Scripting
Hi, i've two files (file1, file2) i want to take value (in column1) and search in file2 if the they match print the value from file2.
this is what i have so far.
awk 'FILENAME=="file1"{ arr=$1 }
FILENAME=="file2"
{print $0}
' file1 file2 (2 Replies)
Discussion started by: myguess21
2 Replies
File::Copy(3pm) Perl Programmers Reference Guide File::Copy(3pm)
NAME
File::Copy - Copy files or filehandles
SYNOPSIS
use File::Copy;
copy("file1","file2") or die "Copy failed: $!";
copy("Copy.pm",*STDOUT);
move("/dev1/fileA","/dev2/fileB");
use File::Copy "cp";
$n = FileHandle->new("/a/file","r");
cp($n,"x");
DESCRIPTION
The File::Copy module provides two basic functions, "copy" and "move", which are useful for getting the contents of a file from one place
to another.
copy
The "copy" function takes two parameters: a file to copy from and a file to copy to. Either argument may be a string, a FileHandle
reference or a FileHandle glob. Obviously, if the first argument is a filehandle of some sort, it will be read from, and if it is a
file name it will be opened for reading. Likewise, the second argument will be written to (and created if need be). Trying to copy a
file on top of itself is a fatal error.
Note that passing in files as handles instead of names may lead to loss of information on some operating systems; it is recommended
that you use file names whenever possible. Files are opened in binary mode where applicable. To get a consistent behaviour when
copying from a filehandle to a file, use "binmode" on the filehandle.
An optional third parameter can be used to specify the buffer size used for copying. This is the number of bytes from the first file,
that will be held in memory at any given time, before being written to the second file. The default buffer size depends upon the file,
but will generally be the whole file (up to 2MB), or 1k for filehandles that do not reference files (eg. sockets).
You may use the syntax "use File::Copy "cp"" to get at the "cp" alias for this function. The syntax is exactly the same. The behavior
is nearly the same as well: as of version 2.15, <cp> will preserve the source file's permission bits like the shell utility cp(1) would
do, while "copy" uses the default permissions for the target file (which may depend on the process' "umask", file ownership, inherited
ACLs, etc.). If an error occurs in setting permissions, "cp" will return 0, regardless of whether the file was successfully copied.
move
The "move" function also takes two parameters: the current name and the intended name of the file to be moved. If the destination
already exists and is a directory, and the source is not a directory, then the source file will be renamed into the directory specified
by the destination.
If possible, move() will simply rename the file. Otherwise, it copies the file to the new location and deletes the original. If an
error occurs during this copy-and-delete process, you may be left with a (possibly partial) copy of the file under the destination
name.
You may use the "mv" alias for this function in the same way that you may use the <cp> alias for "copy".
syscopy
File::Copy also provides the "syscopy" routine, which copies the file specified in the first parameter to the file specified in the
second parameter, preserving OS-specific attributes and file structure. For Unix systems, this is equivalent to the simple "copy"
routine, which doesn't preserve OS-specific attributes. For VMS systems, this calls the "rmscopy" routine (see below). For OS/2
systems, this calls the "syscopy" XSUB directly. For Win32 systems, this calls "Win32::CopyFile".
On Mac OS (Classic), "syscopy" calls "Mac::MoreFiles::FSpFileCopy", if available.
Special behaviour if "syscopy" is defined (OS/2, VMS and Win32):
If both arguments to "copy" are not file handles, then "copy" will perform a "system copy" of the input file to a new output file, in
order to preserve file attributes, indexed file structure, etc. The buffer size parameter is ignored. If either argument to "copy" is
a handle to an opened file, then data is copied using Perl operators, and no effort is made to preserve file attributes or record
structure.
The system copy routine may also be called directly under VMS and OS/2 as "File::Copy::syscopy" (or under VMS as "File::Copy::rmscopy",
which is the routine that does the actual work for syscopy).
rmscopy($from,$to[,$date_flag])
The first and second arguments may be strings, typeglobs, typeglob references, or objects inheriting from IO::Handle; they are used in
all cases to obtain the filespec of the input and output files, respectively. The name and type of the input file are used as defaults
for the output file, if necessary.
A new version of the output file is always created, which inherits the structure and RMS attributes of the input file, except for owner
and protections (and possibly timestamps; see below). All data from the input file is copied to the output file; if either of the
first two parameters to "rmscopy" is a file handle, its position is unchanged. (Note that this means a file handle pointing to the
output file will be associated with an old version of that file after "rmscopy" returns, not the newly created version.)
The third parameter is an integer flag, which tells "rmscopy" how to handle timestamps. If it is < 0, none of the input file's
timestamps are propagated to the output file. If it is > 0, then it is interpreted as a bitmask: if bit 0 (the LSB) is set, then
timestamps other than the revision date are propagated; if bit 1 is set, the revision date is propagated. If the third parameter to
"rmscopy" is 0, then it behaves much like the DCL COPY command: if the name or type of the output file was explicitly specified, then
no timestamps are propagated, but if they were taken implicitly from the input filespec, then all timestamps other than the revision
date are propagated. If this parameter is not supplied, it defaults to 0.
Like "copy", "rmscopy" returns 1 on success. If an error occurs, it sets $!, deletes the output file, and returns 0.
RETURN
All functions return 1 on success, 0 on failure. $! will be set if an error was encountered.
NOTES
o On Mac OS (Classic), the path separator is ':', not '/', and the current directory is denoted as ':', not '.'. You should be careful
about specifying relative pathnames. While a full path always begins with a volume name, a relative pathname should always begin with a
':'. If specifying a volume name only, a trailing ':' is required.
E.g.
copy("file1", "tmp"); # creates the file 'tmp' in the current directory
copy("file1", ":tmp:"); # creates :tmp:file1
copy("file1", ":tmp"); # same as above
copy("file1", "tmp"); # same as above, if 'tmp' is a directory (but don't do
# that, since it may cause confusion, see example #1)
copy("file1", "tmp:file1"); # error, since 'tmp:' is not a volume
copy("file1", ":tmp:file1"); # ok, partial path
copy("file1", "DataHD:"); # creates DataHD:file1
move("MacintoshHD:fileA", "DataHD:fileB"); # moves (doesn't copy) files from one
# volume to another
AUTHOR
File::Copy was written by Aaron Sherman <ajs@ajs.com> in 1995, and updated by Charles Bailey <bailey@newman.upenn.edu> in 1996.
perl v5.12.1 2010-04-26 File::Copy(3pm)