Thanks for your help. I've tried the code and extracts the sequences.
Some other things may be pending for me, but I'll investigate how to do it (like printing some bytes as decimal, etc).
I was trying to print all the sequences for each block in the same line, but I'm only able to print correctly the firsts sequences fine, but the sequences of sub-block still appears in different line.
I was trying modifying the print routine as below, but is no correct yet for my goal.
The desired output is:
Thanks again.
Hi all,
Does anybody know or guide me on how to remove the first N bytes and the last N bytes from a binary file? Is there any AWK or SED or any command that I can use to achieve this?
Your help is greatly appreciated!!
Best Regards,
Naveen. (1 Reply)
Hello,
I have come across the necessity for me to deal with binary sequences and I had a few questions.
1- Does any UNIX scripting language provide any tool or command for converting text data to binary sequences? Example of binary sequence: "0x97 0x93 0x85 0x40 0xd5 0xd6 0xd7"
2- If I want... (2 Replies)
Hi,
I have an one-line file consisting of a sequence of 660 letters. I would like to extract 9-letter blocks iteratively:
ASDFGHJKLQWERTYUIOPZXCVBNM
first block: ASDFGHJKL
1nd block: SDFGHJKLQ
What I have so far only gives me the first block, can anyone please explain why?
cat... (7 Replies)
Hi,
This is part of a large text file I need to separate out.
I'd like some help to build a shell script that will extract the text between sets of dashed lines, write that to a new file using the whole or part of the first text string as the new file name, then move on to the next one and... (7 Replies)
The title is clear: why does ext3 allocate 8 blocks for files that are few bytes long?
If I create a file named "test", put a few chars in it, and then I run:
stat test
I get that "Blocks: 8"
I searched in the web and found that ext does that, it allocates 8 blocks even if It doesn't need... (4 Replies)
Hello guys. I really hope someone will help me with this one..
So, I have to write this script who:
- creates a file home/student/vmdisk of 10 mb
- formats that file to ext3
- mounts that partition to /mnt/partition
- creates a file /mnt/partition/data. In this file, there will... (1 Reply)
Hi,
I have a file with more than 28000 records and it looks like below..
>mm10_refflat_ABCD range=chr1:1234567-2345678
tgtgcacactacacatgactagtacatgactagac....so on
>mm10_refflat_BCD range=chr1:3234567-4545678...
tgtgcacactacacatgactagtatgtgcacactacacatgactagta
.
.
.
.
.
so on
... (2 Replies)
I have a fastq file from small RNA sequencing with sequence lengths between 15 - 30. I wanted to filter sequence lengths between 21-25 and write to another fastq file. how can i do that? (4 Replies)
I have a text file, input.fasta contains some protein sequences. input.fasta is shown below.
>P02649
MKVLWAALLVTFLAGCQAKVEQAVETEPEPELRQQTEWQSGQRWELALGRFWDYLRWVQT
LSEQVQEELLSSQVTQELRALMDETMKELKAYKSELEEQLTPVAEETRARLSKELQAAQA
RLGADMEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVY... (8 Replies)
I sat down yesterday to write this script and have just realised that my methodology is broken........
In essense I have.....
----------------------------------------------------------------- (This line really is in the file)
Service ID: 12345 ... (7 Replies)
Discussion started by: Bashingaway
7 Replies
LEARN ABOUT NETBSD
seq
SEQ(1) BSD General Commands Manual SEQ(1)NAME
seq -- print sequences of numbers
SYNOPSIS
seq [-w] [-f format] [-s string] [-t string] [first [incr]] last
DESCRIPTION
The seq utility prints a sequence of numbers, one per line (default), from first (default 1), to near last as possible, in increments of incr
(default 1). When first is larger than last the default incr is -1.
All numbers are interpreted as floating point.
Normally integer values are printed as decimal integers.
The seq utility accepts the following options:
-f format Use a printf(3) style format to print each number. Only the A, a, E, e, F, f, G, g, and % conversion characters are valid,
along with any optional flags and an optional numeric mimimum field width or precision. The format can contain character
escape sequences in backslash notation as defined in ANSI X3.159-1989 (``ANSI C89''). The default is %g.
-s string Use string to separate numbers. The string can contain character escape sequences in backslash notation as defined in ANSI
X3.159-1989 (``ANSI C89''). The default is
.
-t string Use string to terminate sequence of numbers. The string can contain character escape sequences in backslash notation as
defined in ANSI X3.159-1989 (``ANSI C89''). This option is useful when the default separator does not contain a
.
-w Equalize the widths of all numbers by padding with zeros as necessary. This option has no effect with the -f option. If any
sequence numbers will be printed in exponential notation, the default conversion is changed to %e.
The seq utility exits 0 on success and non-zero if an error occurs.
EXAMPLES
# seq 1 3
1
2
3
# seq 3 1
3
2
1
# seq -w 0 .05 .1
0.00
0.05
0.10
SEE ALSO jot(1), printf(1), printf(3)HISTORY
The seq command first appeared in Plan 9 from Bell Labs. A seq command appeared in NetBSD 3.0. This command was based on the command of the
same name in Plan 9 from Bell Labs and the GNU core utilities. The GNU seq command first appeared in the 1.13 shell utilities release.
BUGS
The -w option does not handle the transition from pure floating point to exponent representation very well. The seq command is not bug for
bug compatible with the Plan 9 from Bell Labs or GNU versions of seq.
BSD May 27, 2010 BSD