Hi,
I have a requirement that i need to store only the filename without its extension. Can anyone please help me to do this.
For Example, i have stored the filename in a varialble called fname. I need to extract all the charecters before the first occurence of the dot.
If fname has value... (3 Replies)
Hi,
Any help on this would be very appreciated.
I capture the full path & filename in a variable like (varFile=/home/user/extfile.txt). Now in my shell script I have to use only the filename part i.e. extfile.txt. How do I extract only the filename part from the variable?
Thanks in... (3 Replies)
I am trying to write a script that prompts users for date and time, then process the gzip file into awk. During the ksh part of the script another file is created and needs to be processed with a different set of pattern matches then I need to combine the two in the end. I'm stuck at the part... (6 Replies)
Hi,
I need to extract the file name without filetype.
Suppose in DIR1 if i have files like F1.txt and F2.DOC then i need to return F1 and F2 only with out file types (txt and DOC).
I tried with the following code
newname = ` $i | cut -d "'." -f1`
but it is giving the error " 0403-006... (1 Reply)
Hi,
I am a beginner in Unix so please bear with me...
I have a directory which has files in format: RECF-YYYY-MM-DD-input. For example, RECF-2008-02-25-input. I need to extract the YYYYY-MM-DD substring from this filename and convert that into date and compare it with a date. How do I do that?... (7 Replies)
Hi all,
I have a list of xml file. I need to split the files to a different files when see the <ko> tag.
The list of filename are
B20090908.1100-20090908.1200_CDMA=1,NO=2,SITE=3.xml
B20090908.1200-20090908.1300_CDMA=1,NO=2,SITE=3.xml
B20090908.1300-20090908.1400_CDMA=1,NO=2,SITE=3.xml
... (3 Replies)
hi all,
I'm trying to automate some tasks and while I've got the script itself working, I'm having difficulties with automatic file detection and associated variable setting...
for example, in a directory I've got several files... something along the lines of:
xis0_NAME_src.file... (2 Replies)
Hi All,
Thanks in Advance
I am working on a shell script. I need some assistance.
My Requirement:
1) There are some set of files in a directory like given below
OTP_UFSC_20120530000000_acc.csv
OTP_UFSC_20120530000000_faf.csv
OTP_UFSC_20120530000000_prom.csv... (0 Replies)
Hi All,
Thanks in Advance
I am working on a shell script. I need some assistance.
My code:
if
then
set "subscriber" "promplan" "mapping" "dedicatedaccount" "faflistSub" "faflistAcc" "accumulator"\
"pam_account";
for i in 1 2 3 4 5 6 7 8;... (0 Replies)
Hi
I would like to extract the first portion of filename from a list of files.
The filename pattern is of the form 123456789_TEXT_TEXT_TEXT_.csv. I want to extract just the numerical portion of this filename from the list of files and then output this into another text file.
K (6 Replies)
Discussion started by: kamal_p_99
6 Replies
LEARN ABOUT DEBIAN
blastclust
BLASTCLUST(1) NCBI Tools User's Manual BLASTCLUST(1)NAME
blastclust - BLAST score-based single-linkage clustering
SYNOPSIS
blastclust [-] [-C] [-L X] [-S X] [-W N] [-a N] [-b F] [-c filename] [-d filename] [-e F] [-i filename] [-l filename] [-o filename] [-p F]
[-r filename] [-s filename] [-v [filename]]
DESCRIPTION
blastclust automatically and systematically clusters protein or DNA sequences based on pairwise matches found using the BLAST algorithm in
case of proteins or Mega BLAST algorithm for DNA. In the latter case a single Mega BLAST search is performed for all the sequences combined
against a database created from the same sequences. blastclust finds pairs of sequences that have statistically significant matches and
clusters them using single-linkage clustering.
OPTIONS
A summary of options is included below.
- Print usage message
-C Complete unfinished clustering
-L X Length coverage threshold (default = 0.9)
-S X Score coverage threshold (bit score / length if < 3.0, percentage of identities otherwise; default = 1.75)
-W N Use words of size N (length of best perfect match; zero invokes default behavior: 3 for proteins, 32 for nucleotides)
-a N Number of CPU's to use (default = 1)
-b F Do not require coverage on both neighbours
-c filename
Read advanced options from configuration file filename
-d filename
Input as a database
-e F Disable id parsing in database formatting
-i filename
FASTA input file (program will format the database and remove files in the end; default = stdin)
-l filename
Restrict reclustering to id list in filename
-o filename
Output file for list of clusters (default = stdout)
-p F Input is nucleotides, not proteins.
-r filename
Restore neighbors for reclustering from filename
-s filename
Save all neighbours to filename
-v [filename]
Print verbose progress messages (to filename)
AUTHOR
The National Center for Biotechnology Information.
SEE ALSO blast(1), formatdb(1), /usr/share/doc/blast2/blastclust.html, <http://www.ncbi.nlm.nih.gov/BLAST/>
NCBI 2004-06-25 BLASTCLUST(1)