10 More Discussions You Might Find Interesting
1. Shell Programming and Scripting
I have this fastq file:
@M04961:22:000000000-B5VGJ:1:1101:9280:7106 1:N:0:86
GGGGGGGGGGGGCATGAAAACATACAAACCGTCTTTCCAGAAATTGTTCCAAGTATCGGCAACAGCTTTATCAATACCATGAAAAATATCAACCACACCA
+test-1
GGGGGGGGGGGGGGGGGCCGGGGGFF,EDFFGEDFG,@DGGCGGEGGG7DCGGGF68CGFFFGGGG@CGDGFFDFEFEFF:30CGAFFDFEFF8CAF;;8... (10 Replies)
Discussion started by: Xterra
10 Replies
2. Shell Programming and Scripting
Need to count consecutive characters in a string and give the output as below
i/p=aaaabbcaa
o/p=a4b2c1a2 (10 Replies)
Discussion started by: prasanna2166
10 Replies
3. Shell Programming and Scripting
I have a large dataset with following structure;
C 0001 Carbon
D SAR001 methane
D SAR002 ethane
D SAR003 propane
D SAR004 butane
D SAR005 pentane
C 0002 Hydrogen
C 0003 Nitrogen
C 0004 Oxygen
D SAR011 ozone
D SAR012 super oxide
C 0005 Sulphur
D SAR013... (3 Replies)
Discussion started by: Syeda Sumayya
3 Replies
4. Shell Programming and Scripting
Hi All!
I would like to solve a problem but I have no clue of how do it!I will be grateful if someone could help me!
I have a file like this:
> genes | transcript
...sequence....
>ENSMUSG00000006638|ENSMUST00000006814
GGGAAATGGAATACCCCTACACAACCAAGATGCTGAGTTCCTCCCTGAGCCCGCAAAACG... (2 Replies)
Discussion started by: giuliangiuseppe
2 Replies
5. UNIX for Dummies Questions & Answers
Hi everyone, and thanks after all
I'm a biologist and i have to extract information from one text. The text is something like this
1023 A A 56 0 cc...,,,,..gg..Cc.c,,c..CC..,,
1024 T T 86 0 ..,,,..aaAA..,,aAA,,a,,A,,a
1025 G G 125 0 ... (5 Replies)
Discussion started by: beajorrin
5 Replies
6. Shell Programming and Scripting
Hi i have data like
abchd 124 ldskc aattggcc
each separated by tab space i want to count number of characters in 4th column and print it in new column with tabspace for every line can anyone help me how to do it.
Thanks. (3 Replies)
Discussion started by: bhargavpbk88
3 Replies
7. Shell Programming and Scripting
I have a file that I need to count the number of "Y"s in the file, but just the "Y"s that fall between certain columns. Like:
file1:
1234567890123456789012345
BBBBBBYBBBBYBBYBBYBBYBBB
I want to count the 'Y's between 17 and 21 = 2 "Y"s
Thanks (12 Replies)
Discussion started by: jbt828
12 Replies
8. Programming
i have a string "dfasdfasdfadf"
i want to count the number of times each character is repeated..
For instance, d is repeated 4 times, f is repeated 4 times..
can u give a program in c (1 Reply)
Discussion started by: pgmfourms
1 Replies
9. Shell Programming and Scripting
Hello, Member or professional
need help how to count characters by line of file
Example of the file is here
cdr20080817164322811681txt
cdr20080817164322811txt
cdr20080817164322811683txt
cdr20080817164322811684txt
I want to count the characters by line of file . The output that I... (4 Replies)
Discussion started by: ooilinlove
4 Replies
10. UNIX for Dummies Questions & Answers
Hi all,
I am logging any access to a server, and i wanted to write a script which tells me how much entries there are.
The Problem is that
"wc -l log"
outputs the correct number of lines but with the name of the file attached.
is there any nice possibility to solve this that i ONLY... (3 Replies)
Discussion started by: JP_II
3 Replies
MSH(1) [nmh-1.5] MSH(1)
NAME
msh - nmh shell (and BBoard reader)
SYNOPSIS
msh [-prompt string] [-scan | -noscan] [-topcur | -notopcur] [file] [-version] [-help]
DESCRIPTION
msh is an interactive program that implements a subset of the normal nmh commands operating on a single file in packf'dformat. That is,
msh is used to read a file that contains a number of messages, as opposed to the standard nmh style of reading a number of files, each file
being a separate message in a folder. msh's chief advantage is that the normal nmh style does not allow a file to have more than one mes-
sage in it. Hence, msh is ideal for reading BBoards, as these files are delivered by the transport system in this format. In addition,
msh can be used on other files, such as message archives which have been packed (see packf(1)). Finally, msh is an excellent nmh tutor.
As the only commands available to the user are nmh commands, this allows nmh beginners to concentrate on how commands to nmh are formed and
(more or less) what they mean.
When invoked, msh reads the named file, and enters a command loop. The user may type most of the normal nmh commands. The syntax and
semantics of these commands typed to msh are identical to their nmh counterparts. In cases where the nature of msh would be inconsistent
(e.g., specifying a +folder with some commands), msh will duly inform the user. The commands that msh currently supports (in some slightly
modified or restricted forms) are:
ali
burst
comp
dist
folder
forw
inc
mark
mhmail
mhn
msgchk
next
packf
pick
prev
refile
repl
rmm
scan
send
show
sortm
whatnow
whom
In addition, msh has a help command which gives a brief overview. To terminate msh, type CTRL-D, or use the quit command.
If the file is writable and has been modified, then using quit will query the user if the file should be updated.
The -prompt string switch sets the prompting string for msh.
You may wish to use an alternate nmh profile for the commands that msh executes; see mh-profile(5) for details about the $MH environment
variable.
The exit command is identical to the quit command in msh.
msh supports an output redirection facility. Commands may be followed by one of
^> file~^write output to file
^>> file~^append output to file
^| command~^pipe output to UNIX command
If file starts with a " " (tilde), then a csh-like expansion takes place. Note that command is interpreted by sh. Also note that msh does
NOT support history substitutions, variable substitutions, or alias substitutions.
When parsing commands to the left of any redirection symbol, msh will honor `' (back-slash) as the quote next-character symbol, and `"'
(double-quote) as quote-word delimiters. All other input tokens are separated by whitespace (spaces and tabs).
FILES
$HOME/.mh_profile The user profile
/etc/nmh/mts.conf nmh mts configuration file
PROFILE COMPONENTS
Path: To determine the user's nmh directory
Msg-Protect: To set mode when creating a new `file'
fileproc: Program to file messages
showproc: Program to show messages
SEE ALSO
packf(1)
DEFAULTS
`file' defaults to "./msgbox"
`-prompt (msh) '
`-noscan'
`-notopcur'
CONTEXT
None
BUGS
The argument to the -prompt switch must be interpreted as a single token by the shell that invokes msh. Therefore, one must usually place
the argument to this switch inside double-quotes.
There is a strict limit of messages per file in packf'd format which msh can handle. Usually, this limit is 1000 messages.
Please remember that msh is not the C-Shell, and that a lot of the nice facilities provided by the latter are not present in the former.
In particular, msh does not understand back-quoting, so the only effective way to use pick inside msh is to always use the -seq select
switch. Clever users of nmh will put the line
pick: -seq select -list
in their .mh_profile file so that pick works equally well from both the shell and msh.
sortm always uses -noverbose and if -textfield field is used, -limit 0.
The msh program inherits most (if not all) of the bugs from the nmh commands it implements.
MH.6.8 11 June 2012 MSH(1)