I have 2 input files file1 and file2 each containing 5 columns. The first column contains the chromosomes (range from 1-19,X of which only chr1 and chr2 were shown in example).
what i want to do is
condition1 if chr pos1 and pos2 in both files overlap
then i want to compare the pos3 and pos4. if they (pos3 and pos4) overlap i want to output them to output_1file
and
if they (pos3 and pos4) wont overlap then output to output_2 file.
so if we compare file 1 with file2
Hi,
I am a newbie in unix programming so maybe this is a simple question.
I would like to know how can I make a script that outputs only the values that are not between any given start and end positions
Example
file1:
2 30
40 80
82 100
file2:
ID1 1
ID2 35
ID3 80
ID4 81
ID6 160... (1 Reply)
Hi,
I want to match and print columns that match.
So my file looks like this:
h1 20 30 h1 25 27
h2 50 70 h2 90 95
h2 60 80 h2 70 75
h3 130 150 h3 177 190
h4 140 190 h4 300 305
So there are 6 columns. Column 1 and 4 are names. I am able to get the... (2 Replies)
Hi Everyone!
I was wondering if there's an easy way to have terminals (gnome-terminal for instance) be open in such a way that they're not overlapping each other?
I suppose I could play around with the --geometry option but that would imply me checking whether a terminal is already at a given... (3 Replies)
I am making a game, but I can't figure out how to put one image over the other. The background of the front image, covers up the picturebox under it.
For example, I have two fish images, but when one is in front of the other, its background covers up the other fish.
I attached a picture as an... (1 Reply)
hey guys,
i'm having trouble with a real time multi threaded program that uses lots of shared memory on solaris 8. it sometime crashes out of the blue, a randomness that suggests some sort of memory leak or shared memory overlap.
any tips? freeware or otherwise useful software?
any way i can... (2 Replies)
Greetings folks,
I have a rather lengthy list of banned IP ranges in iptables. Initially it was constructed as a rather ad-hoc affair, then later I discovered a site which had IP Block By Country lists, and imported several into iptables.
If possible, I'd like to be able to verify if the list... (0 Replies)
Dear Gurus,
I have 57 tab-delimited different text files, each one containing entries in 3 columns. The first column in each file contains names of objects. Some names are present in more than one file. I would like to find those names and store them in a separate text file, preferably with a... (6 Replies)
I have 2 files; file 1 having smaller positions that overlap with the positions with positions in file2.
file1
aaa 20 22 apple
aaa 18 25 banana
aaa 12 30 grapes
aaa 22 25 melon
file2
aaa 18 26 cdded
aaa 10 35 abcde
I want to get something like this
output
aaa 18 26 cdded banana... (4 Replies)
Discussion started by: anurupa777
4 Replies
LEARN ABOUT PLAN9
sort
SORT(1) General Commands Manual SORT(1)NAME
sort - sort and/or merge files
SYNOPSIS
sort [ -cmuMbdfinrwtx ] [ +pos1 [ -pos2 ] ... ] ... [ -k pos1 [ ,pos2 ] ] ... [ -o output ] [ -T dir ... ] [ option ... ] [ file ...
]
DESCRIPTION
Sort sorts lines of all the files together and writes the result on the standard output. If no input files are named, the standard input
is sorted.
The default sort key is an entire line. Default ordering is lexicographic by runes. The ordering is affected globally by the following
options, one or more of which may appear.
-M Compare as months. The first three non-white space characters of the field are folded to upper case and compared so that precedes
etc. Invalid fields compare low to
-b Ignore leading white space (spaces and tabs) in field comparisons.
-d `Phone directory' order: only letters, accented letters, digits and white space are significant in comparisons.
-f Fold lower case letters onto upper case. Accented characters are folded to their non-accented upper case form.
-i Ignore characters outside the ASCII range 040-0176 in non-numeric comparisons.
-w Like -i, but ignore only tabs and spaces.
-n An initial numeric string, consisting of optional white space, optional plus or minus sign, and zero or more digits with optional
decimal point, is sorted by arithmetic value.
-g Numbers, like -n but with optional e-style exponents, are sorted by value.
-r Reverse the sense of comparisons.
-tx `Tab character' separating fields is x.
The notation +pos1 -pos2 restricts a sort key to a field beginning at pos1 and ending just before pos2. Pos1 and pos2 each have the form
m.n, optionally followed by one or more of the flags Mbdfginr, where m tells a number of fields to skip from the beginning of the line and
n tells a number of characters to skip further. If any flags are present they override all the global ordering options for this key. A
missing .n means .0; a missing -pos2 means the end of the line. Under the -tx option, fields are strings separated by x; otherwise fields
are non-empty strings separated by white space. White space before a field is part of the field, except under option -b. A b flag may be
attached independently to pos1 and pos2.
The notation -k pos1[,pos2] is how POSIX sort defines fields: pos1 and pos2 have the same format but different meanings. The value of m is
origin 1 instead of origin 0 and a missing .n in pos2 is the end of the field.
When there are multiple sort keys, later keys are compared only after all earlier keys compare equal. Lines that otherwise compare equal
are ordered with all bytes significant.
These option arguments are also understood:
-c Check that the single input file is sorted according to the ordering rules; give no output unless the file is out of sort.
-m Merge; assume the input files are already sorted.
-u Suppress all but one in each set of equal lines. Ignored bytes and bytes outside keys do not participate in this comparison.
-o The next argument is the name of an output file to use instead of the standard output. This file may be the same as one of the
inputs.
-Tdir Put temporary files in dir rather than in /tmp.
EXAMPLES
Print in alphabetical order all the unique spellings
in a list of words where capitalized words differ from uncapitalized.
Print the users file
sorted by user name (the second colon-separated field).
Print the first instance of each month in an already sorted file.
Options -um with just one input file make the choice of a unique representative from a set of equal lines predictable.
grep -n '^' input | sort -t: +1f +0n | sed 's/[0-9]*://'
A stable sort: input lines that compare equal will come out in their original order.
FILES
/tmp/sort.<pid>.<ordinal>
SOURCE
/sys/src/cmd/sort.c
SEE ALSO uniq(1), look(1)DIAGNOSTICS
Sort comments and exits with non-null status for various trouble conditions and for disorder discovered under option -c.
BUGS
An external null character can be confused with an internally generated end-of-field character. The result can make a sub-field not sort
less than a longer field.
Some of the options, e.g. -i and -M, are hopelessly provincial.
SORT(1)