One way through scripting..I wouldn't claim it to be faster unless the sequence of number is less. ---------- Post updated at 06:06 PM ---------- Previous update was at 05:46 PM ----------
Sorry.Misunderstood the requirement. Ignore the above script..
as you can see there is a delimiter after c8 "::". Awk sees the rest as fields because it doesn't recognize spaces and tabs as delimiters. So i am basically looking to isolate 20030003ba13f6cc. Can anyone help?
c8::20030003ba13f6cc disk connected configured unknown (2 Replies)
Hi,
Is there a way to create sequence numbers in unix
i have a set of batches(which contain records) and i want to assign a number to every batch. how can i do that? (1 Reply)
I am just a newbie to perl scripting. I need help with listing of hexadecimal numbers in a column as follows.
INPUT FIle:
08AF ship steel
08B0 ship steel
08B1 ship steel
08B2 flight docs
08B3 flight docs
08B4 flight docs
08B5 flight docs
08B6 flight decl ... (3 Replies)
Hi all,
I have a file like this
ID 3BP5L_HUMAN Reviewed; 393 AA.
AC Q7L8J4; Q96FI5; Q9BQH8; Q9C0E3;
DT 05-FEB-2008, integrated into UniProtKB/Swiss-Prot.
DT 05-JUL-2004, sequence version 1.
DT 05-SEP-2012, entry version 71.
FT COILED 59 140 ... (1 Reply)
Use and complete the template provided. The entire template must be completed. If you don't, your post may be deleted!
1. The problem statement, all variables and given/known data:
I am trying to convert a C language program over to Sparc Assembley and I am getting Undefined first referenced... (4 Replies)
Dear all,
I have a imput file like this
imput
scaffold_0 10558458 10558459 1.8
scaffold_0 10558464 10558465 1.75
scaffold_0 10558467 10558468 1.8
scaffold_0 10558468 10558469 1.71428571428571
scaffold_0 10558469... (5 Replies)
Hi,
I need to find out the missing sequence from a list. However the issue is there is not a fixed start and end, it depends on the generation of files.
For eg, it might start with 4000 and end with 9000.
Based on this, I need a script which greps the start and end sequence from the... (3 Replies)
Dear all
i am having file with max 24 entries. i want to find which sequence is missing
file is like this
df00231587.dat
df01231587.dat
df03231587.dat
df05231587.dat
.
.
.
df23231587.dat
the changing seq is 00-23,so i would like to find out which seq is missing like in above... (13 Replies)
I need awk script to generate part number sequencing based on data in multiple columns like below
Input File
---------
Col A|Col B|Col C|
1|a|x|
2|b|y|
|c|z|
| |m|
| |n|
And out put should be like
1ax
1ay
1az
1am
1an
1bx
1by (6 Replies)
Hi, I try to explain my problem , I have a file like this:
aasdsaffsc23
scdsfsddvf46567
mionome0001.pdb
asdsdvcxvds
dsfdvcvc2324w
What I need to do is to create 1000 files in which myname line listing a sequence of numbers from 0001 to 1000. So I want to have :
nomefile0001.txt that must... (10 Replies)
Discussion started by: danyz84
10 Replies
LEARN ABOUT DEBIAN
squizz
SQUIZZ(1) User Manuals SQUIZZ(1)NAME
squizz - Sequence format checker
SYNOPSIS
squizz [-AShlns] [-c format] [-f format] file
OPTIONS
Following command line options are allowed:
-A Restrict detection/verification to alignment formats (conflict with -S option).
-S Restrict detection/verification to sequence formats (conflict with -A option).
-c format
Convert detected sequence/alignment into format. This option implies strict alignment checking.
-f format
Assume input format is format. Do not try to detect the format, just verify that the given one is correct.
-h Usage display.
-l List all supported formats.
-n Count and report detected entries. This option is only available when the detection is restricted to a single type (with -A or -S
options) and strict checks (without -s option) are enabled.
-s Disable strict format checks (enabled by default).
DESCRIPTION
squizz is a sequence format file checker, but it has some conversion capabilities too.
squizz can detect the most common sequence and alignment formats :
* EMBL, FASTA, GCG, GDE, GENBANK, IG, NBRF, PIR (codata), RAW, and SWISSPROT.
* CLUSTAL, FASTA, MSF, NEXUS, PHYLIP (interleaved and sequential) and STOCKHOLM.
squizz can do some conversions too, if the format the input format is supported. Only 3 types are available : sequence to sequence, align-
ment to alignment, and alignment to sequence (the last one, sequence to alignment, require multiple alignments algorithms and cannot be
handled with formatting tools).
Strict format checks validate the previously detected objects, by making some sanity checks:
- sequence strings must exists.
- alignment is made of more than one sequence.
- alignment sequence strings must have the same length.
- alignment sequence names must exists, and be unique.
SEE ALSO seqfmt(5), alifmt(5)AUTHOR
Nicolas Joly (njoly@pasteur.fr), Institut Pasteur.
Unix 2009-05-19 SQUIZZ(1)