This can be thought of as an ordering problem. Usually we think of situations like this in terms of character sorts.
However, we could also specify a set of strings to be used as the ordering sequence. In this case:
So we place these strings into a sort-order file, and sort the data files. Program msort can handle these kinds of tasks. Here is an example with 2 simple data files:
producing:
The msort program is slower than the usual system sorting code, sort, but has a number of additional features that make its use very attractive.
As this demonstration illustrates, a single call to msort handles this task. The creation (and maintenance) of the sort-order file can be done easily with a text editor.
Hi,
I have a requirement where
I need to move Bunch of folders containing multiple files to another archive location.
i want to use mv command .I am thinking when we use mv command to move directory does it create directory 1st and then move all the files ?
e.g
source... (4 Replies)
I am trying to grab a folder and all the folders and files underneath it and send it from one computer to another. I basically want to compress the whole folder into a tar, tgz, or zip file so that it can be sent as one file. is there a command to compress a folder and all its contents into a tar... (7 Replies)
Hi All,
I am using the awk command to replace ',' by '\t' (tabs) in a csv file. I would like to apply this to all .csv files in a directory and create .txt files with the tabs.
How would I do this in a script?
I have the following script called "csvtabs":
awk 'BEGIN {
FS... (4 Replies)
Hi there
how to create a command in csh that would print files only from 1 folder but as an argument takes home directory for e.g. in my home diecrtory I have 3 folders unix, windows,mac and alot of files. and I running the program as ./op ~
this should return me files from unix folder without... (1 Reply)
Hey gyuz,
I wanna calculate the number of mapped reads of a bam file in a region of interest. I used this code to do so :
samtools view input.bam chrname:region1 > region1.txt
This will store all the reads from given bam file within the region of interest in region1.txt
Now I have... (5 Replies)
Hi All,
<Re-posting in Correct group>
I'm trying to select all the files in a folder that starts with a particular name format and are created in a gven date range using 'ls' command...but i'm not successful....
Example : I'm trying to see all the text files in a folder who names start... (6 Replies)
Hi ,
I've learnt that the following command will remove the files from the given folder for given no.of days
find /home/etc -type f -atime -10 -exec rm -f {} \;
But how can I change the above command that will move the files to another specified directory instead of removing the... (1 Reply)
Dear folks
I have two data set which there names are "final.map" and "1.geno" and look like this structures:
final.map:
gi|358485511|ref|NC_006088.3| 2044
gi|358485511|ref|NC_006088.3| 2048
gi|358485511|ref|NC_006088.3| 2187
gi|358485511|ref|NC_006088.3| 17654
... (2 Replies)
Hi, I'd like to loop an action over all files with given extension within a folder.
The "main" action is: awk -F "\t" 'BEGIN{OFS="\t"}{if ($10=="S") print$0; }' input.txt > output.txt
The input.txt should be every file in the folder with *.subVCF extension; and the output should be a file... (3 Replies)
Discussion started by: dovah
3 Replies
LEARN ABOUT POSIX
zgrep
ZGREP(1) General Commands Manual ZGREP(1)NAME
zgrep - search possibly compressed files for a regular expression
SYNOPSIS
zgrep [ grep_options ] [ -e ] pattern filename...
DESCRIPTION
Zgrep invokes grep on compressed or gzipped files. These grep options will cause zgrep to terminate with an error code:
(-[drRzZ]|--di*|--exc*|--inc*|--rec*|--nu*). All other options specified are passed directly to grep. If no file is specified, then the
standard input is decompressed if necessary and fed to grep. Otherwise the given files are uncompressed if necessary and fed to grep.
If the GREP environment variable is set, zgrep uses it as the grep program to be invoked.
EXIT CODE
2 - An option that is not supported was specified.
AUTHOR
Charles Levert (charles@comm.polymtl.ca)
SEE ALSO grep(1), gzexe(1), gzip(1), zdiff(1), zforce(1), zmore(1), znew(1)ZGREP(1)