Hello,
I have the following to remove spaces from beginning and end of a string.
infile=`echo "$infilename" | sed 's/^ *//;s/ *$//`
How do I modify the above code to remove spaces from beginning, end and in the middle of the string also.
ex:
... (4 Replies)
can any help how to remove blank spaces in a string?
STR="GOOD BYE"
by removing blank spaces, the string should be GOOD,BYE
thanks in advance (2 Replies)
Hi...
I am quite new to Unix and would like an issue to be resolved.
I have a file in the format below;
4,Reclaim,ECXTEST02,abc123,Harry Potter,5432 6730 0327 5469,0603,,MC,,1200,EUR,sho-001,,1,,,abc123,1223
I would like my output to be as follows;
4,Reclaim,ECXTEST02,abc123,Harry... (4 Replies)
Hi,
I need a help in deleting extra spaces in a text.
I have a huge file, a part of it is :-
3 09/21/08 03:32:07 started undef mino Oracle nmx004.wwdc.numonyx.com Message Text : The Oracle session with the PID 1103 has a CPU time ... (6 Replies)
Hi,
I have a source file as mentioned below: I want to remove all the extra spaces between the fields.
a b--------|sa df-------|3232---|3
sf sa------|afs sdf-----|43-----|33
a b c------|adfsa dsf---|23-32|23
*Here '-' idicates spaces
Now, I want output as below:
a b|sa df|3232|3... (7 Replies)
Hi Unix Gurus..
I am new to Unix. Please help me. The file I am getting is as follows:
Input File
"2011-07-06 03:53:23","0","I","NOT SET ",,,,"123985","SAW CUT CONCRETE SLAB 20"THICK",,"98.57","","EACH","N"
"2011-07-06 03:53:23","0","I","NOT SET ",,,,"204312","ARMAFLEX-1 3/8 X... (2 Replies)
HI,
I need the help from the experts like I have created one file with text like:
a b c d
e f g h
i j k l
So my question is that i have to write the script in which like in the first sentence it will take only one space after d and remove all the extra space in the end.I dont... (8 Replies)
I have a file of about 10k records and eace line is having an extra space of 5 byte at the end.. Iwant to remove the extra spaces at the end of each line.. Can someone please help me out.. I tried using sed command and its not working... can someone please help me out. (3 Replies)
Hi,
I want to remove all extra spaces, line breaks .
Need a new line entry only for term starting"array"
For eg: my input is
array(),
array(),
array(),
and my expected output is
array(),
array(),
array(),
Is it possible using awk? (5 Replies)
Hello,
I have an xml file and my aim is to grab each line in keywords file and search the string in another file.
When keyword is found in xml file,I expect the script to go to previous line in the xml file and grab the string/value between two strings. It's almost working with an error.
tab... (6 Replies)
Discussion started by: baris35
6 Replies
LEARN ABOUT DEBIAN
lastal
LASTAL(1) User Commands LASTAL(1)NAME
lastal - genome-scale comparison of biological sequences
SYNOPSIS
lastal [options] lastdb-name fasta-sequence-file(s)
DESCRIPTION
Find local sequence alignments.
Score options (default settings): -r: match score (DNA: 1, protein: blosum62, 0<Q<5: 6) -q: mismatch cost (DNA: 1, protein: blosum62,
0<Q<5: 18) -p: file for residue pair scores -a: gap existence cost (DNA: 7, protein: 11, 0<Q<5: 21) -b: gap extension cost (DNA: 1, pro-
tein: 2, 0<Q<5: 9) -c: unaligned residue pair cost (100000) -F: frameshift cost (off) -x: maximum score drop for gapped alignments
(max[y, a+b*20]) -y: maximum score drop for gapless alignments (t*10) -z: maximum score drop for final gapped alignments (x) -d: minimum
score for gapless alignments (e*3/5) -e: minimum score for gapped alignments (DNA: 40, protein: 100, 0<Q<5: 180)
Cosmetic options (default settings): -h: show all options and their default settings -v: be verbose: write messages about what lastal is
doing -o: output file -f: output format: 0=tabular, 1=maf (1)
Miscellaneous options (default settings): -s: strand: 0=reverse, 1=forward, 2=both (2 for DNA, 1 for protein) -m: maximum multiplicity for
initial matches (10) -l: minimum length for initial matches (1) -n: maximum number of gapless alignments per query position (infinity) -k:
step-size along the query sequence (1) -i: query batch size (1 MiB if Q>0, else 16 MiB if j=0, else 128 MiB) -u: mask lowercase during
extensions: 0=never, 1=gapless,
2=gapless+gapped but not final, 3=always (2 if lastdb -c and Q<5, else 0)
-w: supress repeats inside exact matches, offset by this distance or less (1000) -G: genetic code file -t: 'temperature' for calculating
probabilities (1/lambda) -g: 'gamma' parameter for gamma-centroid and LAMA (1) -j: output type: 0=match counts, 1=gapless, 2=redundant
gapped, 3=gapped,
4=column ambiguity estimates, 5=gamma-centroid, 6=LAMA (3)
-Q: input format: 0=fasta, 1=fastq-sanger, 2=fastq-solexa, 3=fastq-illumina,
4=prb, 5=PSSM (0)
REPORTING BUGS
Report bugs to: last (ATmark) cbrc (dot) jp
LAST home page: http://last.cbrc.jp/
lastal 199 May 2012 LASTAL(1)