Sponsored Content
Top Forums Shell Programming and Scripting Extract sequences of bytes from binary for differents blocks Post 302843582 by wisecracker on Wednesday 14th of August 2013 02:52:10 AM
Old 08-14-2013
Yes I know a little Python but you must at least have an attempt yourself.
What have you tried so far?

What scripting, shell or otherwise, have you done?

Why does your code not work?

What error reports do you get?

Which shell are you using?

What HW and OS is this running on?

I have given a pointer and here is a new one which I generated yesterday after my post 3 on this thread:-

https://www.unix.com/unix-dummies-que...on-thread.html

LBNL, I am sure you have posted about this before on here some weeks ago!

EDIT:

How about dumping the binary file as a HEX string array, searching the array for a pattern, finding your wanted end point and re-converting back to a binary file again?

Last edited by wisecracker; 08-14-2013 at 06:24 AM.. Reason: Added an addendum...
 

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

Remove first N bytes and last N bytes from a binary file on AIX.

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)
Discussion started by: naveendronavall
1 Replies

2. UNIX for Advanced & Expert Users

Deal with binary sequences

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)
Discussion started by: Indalecio
2 Replies

3. Shell Programming and Scripting

Extract sequence blocks

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)
Discussion started by: solli
7 Replies

4. Shell Programming and Scripting

extract blocks of text from a file

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)
Discussion started by: cajunfries
7 Replies

5. Linux

Why does ext3 allocate 8 blocks for files that are few bytes long

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)
Discussion started by: Tavo
4 Replies

6. UNIX for Dummies Questions & Answers

X bytes of 0, Y bytes of random data, Z bytes of 5, T bytes of 1. ??

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)
Discussion started by: razolo13
1 Replies

7. Shell Programming and Scripting

Extract sequences based on the list

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)
Discussion started by: Diya123
2 Replies

8. Shell Programming and Scripting

Extract length wise sequences from fastq file

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)
Discussion started by: empyrean
4 Replies

9. Shell Programming and Scripting

Extract the part of sequences from a file

I have a text file, input.fasta contains some protein sequences. input.fasta is shown below. >P02649 MKVLWAALLVTFLAGCQAKVEQAVETEPEPELRQQTEWQSGQRWELALGRFWDYLRWVQT LSEQVQEELLSSQVTQELRALMDETMKELKAYKSELEEQLTPVAEETRARLSKELQAAQA RLGADMEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVY... (8 Replies)
Discussion started by: rahim42
8 Replies

10. Shell Programming and Scripting

Blocks of text in a file - extract when matches...

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
postwait(2)							System Calls Manual						       postwait(2)

NAME
postwait: pw_getukid(), pw_wait(), pw_post(), pw_postv(), pw_getvmax() - lightweight synchronization mechanism SYNOPSIS
DESCRIPTION
Postwait is a fast, lightweight sleep/wakeup mechanism that can be used for synchronization by cooperating kernel threads within a single process or between separate processes. A thread calls to block. It resumes execution when it is posted by another thread, the call expires, or is signaled. If one or more posts are already pending, returns immediately. Threads using postwait are identified by their ukid. A thread retrieves its ukid by calling It shares this ukid with anyone it chooses by any means it considers appropriate (for example, shared memory). is called with a timeout ts. If ts is NULL, the thread will not timeout. It will remain blocked until posted or a signal wakes it up. If ts points to a zero-valued timespec, will return immediately with a value (and indicating whether or not it was posted. If ts points to a timespec whose value is greater than zero, the thread will block for that amount of time unless it is posted or inter- rupted by a signal, in which case the timespec pointed to by ts is updated with the remaining time. The return value and are set to indi- cate the reason the call returned. is used to post many threads with a single call. It posts to all threads in the targets array. An value for each target is returned in the errors array. (0 indicates success.) If the errors pointer is zero, no target-specific errors are copied out. There is a maximum number of threads that can be posted with a single call. This value is returned by Posts sent to a kernel thread that already has a post pending against it are discarded. RETURN VALUE
returns 0 if it succeeds, -1 otherwise. returns 0 if posted, -1 otherwise. returns 0 if the post succeeds, -1 otherwise. returns 0 if every post succeeds, -1 otherwise. returns the maximum number of kernel threads that can be posted with a single call to ERRORS
sets to one of the following values if it fails: ukid points to an illegal address. The reliable detection of this error is implementation dependent. sets to one of the following values if it fails: was called with a timeout of 0 but the caller has no post(s) pending. was called with a timeout that expired. ts points to an illegal address. The reliable detection of this error is implementation dependent. was interrupted by a signal. The timespec pointed to by ts is invalid. sets to one of the following values if it fails: The ukid refers to a non-existent kernel thread. sets to one of the following values if it fails: targets points to an illegal address. The reliable detection of this error is implementation dependent. errors points to an illegal address. The reliable detection of this error is implementation dependent. count is less than 0. count exceeds the maximum value (as returned by A ukid refers to a non-existent kernel thread. postwait(2)
All times are GMT -4. The time now is 07:31 AM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy