I would like to know how to pass a variable inside a variable to a function.
sample code below
--------------
for x in 1 9
do
check_null $C$x ##call function to check if the value is null
if
then
echo "line number:$var_cnt,... (2 Replies)
Anyone who can assist :
I am trying to pass the group vairiable to a filename:
rpt_tsavegrp=/export/legato/scripts/$group_savegrp_rpt.$dat
It will not pass to variable.
Anyone have any ideas what I am doing wrong here.
Thanks
# This script sends email that save group completed.... (3 Replies)
Hi,
I have a requirement to write a script file(script1.sh) to read the file from the folder say /usr1/profiles/active and pass the file name as a parameter to another script file say (script2.sh) which would subsitute this parameter.
The script2.sh will have a line like the one below
... (1 Reply)
Any help would be great. I know this is a dumb way of doing this, but I would like to know if there is a solution doing it this way. I'm very new at this and I'd like to learn more. Thanks! :D:D
count=0
while ; do
echo "enter your name"
read name_$count
let count=count+1
done
... (2 Replies)
Hello, i'm fairly new to scripting, so please bear with me (I did try looking this up first, i figured it had to have been asked already).
#!/bin/bash
fileName=`date | sed -n 's/ /_/g p' | sed -n 's/^/Backup_/p' | sed -n 's/$/\.tar/p'`; #THIS SETS BACKUP_DATE
echo $fileName #TEST OF VALUE
... (4 Replies)
Hi All,
Its extremely urgent regarding the following requirement.
I have created few files in a directory. I have write a program in shell scripting such that it prompts for the filename . once the filename is entered,it should print the contents of the file.
Can anyone help with... (7 Replies)
Hi all,
I am executing shell script in which I am using SQLLDR
In this SQLLDR I am passing text file having PL/SQL script. This script will produce some formated output, this output I have to spool in another text file. Currently I have given this in script file as following
Spool... (2 Replies)
I have a small program which needs to pass variable dynamically to form the name of a second variable whose value wil be passed on to a third variable.
***************** Program Start ******************
LOC1=/loc1
PAT1IN=/loc2
PAT2IN=/loc3
if ; then
for fpattern in `cat... (5 Replies)
I have a below syntax its working fine...
var12=$(ps -ef | grep apache | awk '{print $2,$4}')
Im getting expected output as below:
printf "%b\n" "${VAR12}"
dell 123
dell 456
dell 457
Now I wrote a while loop.. the output of VAR12 should be passed as input parameters to while loop and results... (5 Replies)
Hello,
A python beginner question on passing filename thru argument. My code is:
#!/usr/bin/python
import sys, getopt
import os
def main(argv):
try:
opts, args = getopt.getopt(sys.argv,"hi:o:ce", )
except getopt.GetoptError:
usage()
print("Usage: %s... (6 Replies)
Discussion started by: yifangt
6 Replies
LEARN ABOUT DEBIAN
asn2all
ASN2ALL(1) NCBI Tools User's Manual ASN2ALL(1)NAME
asn2all - generate reports from ASN.1 biological data
SYNOPSIS
asn2all [-] [-A acc] [-F filename] [-G] [-J n] [-K n] [-M] [-T] [-X] [-a type] [-b] [-c] [-d path] [-f format] [-h] [-i filename] [-k] [-l]
[-n policy] [-o filename] [-p path] [-r] [-v filename] [-x ext]
DESCRIPTION
asn2all is primarily intended for generating reports from the binary ASN.1 Bioseq-set release files downloaded from the NCBI ftp site
(ncbi-asn1 directory). It can produce GenBank and GenPept flatfiles, FASTA sequence files, INSDSet structured XML, TinySeq XML, and
Sequin-style 5-column feature tables.
The release files (which have the extension .aso.gz) should be uncompressed with gunzip(1), resulting in files with the extension .aso.
For example, gbpri1.aso is the first file in the primate division, and the command
gunzip gbpri1.aso.gz
will result in gbpri1.aso being created. The original gbpri1.aso.gz file is removed after successful decompression.
In asn2all, the name of the file to be processed is specified by the -i command line argument. Use -a t to indicate that it is a release
file and -b to indicate that it is binary ASN.1. A text ASN.1 file obtained from Entrez can be processed by using -a a instead of -a t -b.
Nucleotide and protein records can be processed simultaneously. Use the -o argument to indicate the nucleotide output file, and the -v
argument for the protein output file.
The -f argument determines the format to be generated, and is documented in more detail (along with other options) in the following sec-
tion.
OPTIONS
A summary of options is included below.
- Print usage message
-A accession
Accession to fetch; may take the form accession,complexity,flags where complexity should normally be 0 and a flags value of -1
enables fetching of external features
-F filename
Accession Filter file
-G Relaxed Genome Mapping
-J n Seq-loc from
-K n Seq-loc to
-M Seq-loc Minus strand
-T Use Threads
-X EXtended qualifier output
-a type
Input ASN.1 type:
a Automatic (default)
c Catenated
z Any
e Seq-entry
b Bioseq
s Bioseq-set
m Seq-submit
t batch processing (suitable for official releases; autodetects specific type)
-b Bioseq-set is Binary
-c Bioseq-set is Compressed
-d path
Path to indexed binary ASN.1 Data
-f format
Output Format:
g GenBank/GenPept (default)
m GenBank Master Style
f FASTA
d CDS FASTA
e Gene FASTA
t Sequin-style 5-column feature table
y TinySet XML (akin to FASTA)
s INSDSet XML (akin to GenBank/GenPept)
a structurally equivalent text ASN.1
x structurally equivalent XML
c cache components
-h Display extra Help message
-i filename
Input file name (standard input by default)
-k Enable local fetching
-l Lock components in advance
-n policy
Near FASTA policy:
a All
n Near only (default)
f Far only
-o filename
Nucleotide Output file name
-p path
Path to files
-r Enable Remote fetching
-v filename
Protein output file name
-x ext File selection suffix when working with entire directories. (default is .aso)
EXAMPLES
The command
asn2all -i gbpri1.aso -a t -b -f g -o gbpri1.nuc -v gbpri1.prt
will generate GenBank and GenPept reports from gbpri1.aso.
AUTHOR
The National Center for Biotechnology Information.
SEE ALSO asn2asn(1), asn2ff(1), asn2fsa(1), asn2gb(1), asn2idx(1), asn2xml(1), asndhuff(1), gene2xml(1), gunzip(1).
NCBI 2012-06-24 ASN2ALL(1)