each input file is a tsv of 40 columns, the below is an example of multiple lines (I only show 4 columns, as all 40 are the same or close to it and the script does produce the desired output). The problem I am having is that if there and Additional CNV detected as in output 1, then the script works printing Additional CNV detected followed by the line or lines.
If there are No Additional CNV detected as in output 2, that line prints multiple times (presumably 2800 because that is the total lines).
I am using ubuntu 14.04 as my OS.
Post 1 is actual output produces with the complete files, but to keep the post easier to read I only used several lines.
The output is close as is, I just cant seem to solve why No Additional CNV detected repeats. Thank you very much .
file
Code:
chr1:11184539 CNV 5%:5.5,95%:2.68 Name
chr1:11184539 REF
chr1:11184539 SNV A
chr1:11184555 CNV 5%:0.9,95%:1.9 BRCA1
chr1:11184539 FUSION
chr1:11184539 INDEL G
chr1:11184555 CNV 5%:2.5,95%:2.68 Name2
chr1:11184555 CNV 5%:1.1,95%:1.8 BRCA2
Can someone help me with the following 2 objectives?
1) The following command is just an example. It gets a list of all print jobs. From there I am trying to extract the printer name. It works with the following command:
lpstat -W "completed" -o | awk -F- '{ print $1}'
Problem is, I want... (6 Replies)
I need to add the content of file1 to file2 - all lines but not those existing in file2 already, so the "cat file1 >> file2" doesn't work.
For example,
file1:
100 xxxxxx str1
102 xxxxxx str2
File2:
50 xxxxxxx xxx
30 xxxxxxxxxxx
102 xxxxxx str2 xxxx
......
the result:
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Hello,
I have file to work with. It has 5 columns. The first three, altogether, constitutes the position. The 4th column contains some values for downstream analysis and the fifth column contains some values that I want to add to 4th column (only if they happen to be in the same position).
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Hello everyone...
I need to find out, how to find longest line or possibly lines in several files which are arguments for script. The thing is, that I tried some possibilities before, but nothing worked correctly.
Example
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I know uniq exists, but am not sure how to remove repeating lines when they are groups of two different lines repeating themselves, without using sort. I need them to be sorted in the original order, just to remove repeats.
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Hey Guys!
I have written a code which combines lots of files into one big file(.csv).
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Hi,
I need to find the lines which are repeating in a file
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abcdef 23-1
abcdef 24-1
bcdeff 25-0
ttdcfg 26-0
ttdcfg 20-0
bcdef1 25-0
bcdef2 25-0
bcdef3 25-0
bcdef4 25-0
bcdef4 00-0any help is greatly appreciated. Thanks in advance.
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Hi,
I'm having trouble in achieving the following scenario. There is a txt file with thousands of lines and few lines are repeated, which needs to be removed using a script.
File.txt
20140522121432,0,12,ram
Loc=India
From=ram@xxx.com, To=ravi@yyy.com,,
1
2
3
4
.
.
30... (18 Replies)
I am trying to make my script as simple as a possible but, I am not sure if the way I am approaching is necessarily the most efficient or effective it can be. What I am mainly trying to fix is a for loop to remove a string from the specified files and within this loop I am trying to copy the lines... (2 Replies)
Discussion started by: Allie_gastrator
2 Replies
LEARN ABOUT POSIX
libbash
LIBBASH(7) libbash Manual LIBBASH(7)NAME
libbash -- A bash shared libraries package.
DESCRIPTION
libbash is a package that enables bash dynamic-like shared libraries. Actually its a tool for managing bash scripts whose functions you may
want to load and use in scripts of your own.
It contains a 'dynamic loader' for the shared libraries ( ldbash(1)), a configuration tool (ldbashconfig(8)), and some libraries.
Using ldbash(1) you are able to load loadable bash libraries, such as getopts(1) and hashstash(1). A bash shared library that can be loaded
using
ldbash(1) must answer 4 requirments:
1. It must be installed in $LIBBASH_PREFIX/lib/bash (default is /usr/lib/bash).
2. It must contain a line that begins with '#EXPORT='. That line will contain (after the '=') a list of functions that the library
exports. I.e. all the function that will be usable after loading that library will be listed in that line.
3. It must contain a line that begins with '#REQUIRE='. That line will contain (after the '=') a list of bash libraries that are
required for our library. I.e. every bash library that is in use in our bash library must be listed there.
4. The library must be listed (For more information, see ldbashconfig(8)).
Basic guidelines for writing library of your own:
1. Be aware, that your library will be actually sourced. So, basically, it should contain (i.e define) only functions.
2. Try to declare all variables intended for internal use as local.
3. Global variables and functions that are intended for internal use (i.e are not defined in '#EXPORT=') should begin with:
__<library_name>_
For example, internal function myfoosort of hashstash library should be named as
__hashstash_myfoosort
This helps to avoid conflicts in global name space when using libraries that come from different vendors.
4. See html manual for full version of this guide.
AUTHORS
Hai Zaar <haizaar@haizaar.com>
Gil Ran <ril@ran4.net>
SEE ALSO ldbash(1), ldbashconfig(8), getopts(1), hashstash(1)colors(1)messages(1)urlcoding(1)locks(1)Linux Epoch Linux
01-09-2018
.