The hope was to store the output directory as a variable ($FILENAME) but I don't think that is the right way to do it. I changed the code to the below and put the .pl in the annovar directory to make it easier.
The overall goal is use ${id}.txt.hg19_multianno.txt as the input file and after the perl script is run on that file the output file is saved to the path L:\NGS\3_BUSINESS\Matrix\Torrent\matrix_${id}.txt . Thank you .
Code:
matrix() {
cd 'C:\Users\cmccabe\Desktop\annovar'
$( perl -ne 'chomp; system ("perl matrix.pl < ${id}.txt.hg19_multianno.txt" )' >> L:\NGS\3_BUSINESS\Matrix\Torrent\matrix_${id}.txt
printf "Process complete and new file saved in, Are there additional target gene patients? Y/N "; read match_choice
case "$match_choice" in
[yY]) id=""; menu ;;
[nN]) id=""; printf "\n Goodbye! /n/n "; sleep 2 && exit ;;
esac
}
Hello,
I am trying to write a bash script function to present the user a menu of options. The following is what I have so far:
function MainMenu {
while ]
do
echo "--------------------------------------------------------------------------------"
echo... (4 Replies)
I have a main menu
quit=n
while
do
clear
echo
echo "1. General system information"
echo "2. Hardware utilisation information"
echo "3. File management"
echo "4. User information"
echo "5. Information on network connectivity"
echo "6. Information on processes"
echo "Q.Quit" ... (3 Replies)
Greetings all,
I'm having some trouble writing a menu drive bash script, actually coding the menu part was not difficult however its a problem with a menu option I'm having trouble with.
My menu has 5 options, when the user selects the second option, they are then prompted to enter a number from... (5 Replies)
Hi again :)
This is just a sample whiptail menu.
Works great, but have been trying to get the chosen value into a variable but failing pretty bad...its ther but unsure how to echo it out when needed
#! /bin/bash
#This is the menu
whiptail --title "Menu example" --menu "Choose an... (9 Replies)
Dear Sir,
May I know how do I go about adding the following feature into the script below:
When user enter values other than 1,2,3,4,
a) Message “Wrong entry !!! Pls select 1,2,3 or 4” is displayed
b) The screen is cleared again and the menu is displayed.
#!/bin/bash
clear
var=1... (2 Replies)
Hi,
In the archives I found this:
And this works fine.
$if mode=vi
"\C-0-": digit-argument
TAB: menu-complete
"\e
But what I want is to reverse this. So I want that tab does reverse menu completion and shift tab does normal menu completion.
Can anyone help me with this? Thanks (0 Replies)
Hello,
Been trying to build a menu with whiptail lately. However, my code doesn't seems to be working even though when i compared to other similar code they looks the same.
#!/bin/bash
clear
whiptail --msgbox "Entering networking sub-menu" 20 78
whiptail --title Networking --menu... (8 Replies)
Ever since I added these two code blocks to my bash menu it just opens and closes right away. I use a batch file that worked fine until these codes were added and I am not sure what is wrong.
Basically, what I am trying to do in the additional section is if the answer is "Y" then it goes back... (13 Replies)
We have a simple menu with prompt of menu numbers to user.
It is still under construction.
Is there a way to "count" the menu choices so the prompt maximum count can be changed dynamically?
See attached TODO note in code
read_options(){
local choice
# the... (7 Replies)
Hi, I'm new to bash, and have an example menu script using Zenity. It works fine if the user enters A B or C, but if the user enters nothing, I can only figure out how to exit the script. How do I get the menu to reappear if no input is selected?
The script is:
title="Select example"... (2 Replies)
Discussion started by: allen11
2 Replies
LEARN ABOUT DEBIAN
ecaccess-file-move
ECACCESS-FILE-MOVE(1p) User Contributed Perl Documentation ECACCESS-FILE-MOVE(1p)NAME
ecaccess-file-move - Move or Rename ECaccess Files
SYNOPSIS
ecaccess-file-move -version|-help|-manual
ecaccess-file-move [-debug] source-ecaccess-file target-ecaccess-file
DESCRIPTION
Allow moving an ECaccess File. When the move occurs within the same ECaccess File System then it is a rename. When the move occurs across
two different ECaccess File Systems then first a copy is done and then a delete of the original file is done (e.g. similar to ecaccess-
file-copy ... -erase).
The source-ecaccess-file and target-ecaccess-file are in the form [domain:][/user-id/]path. Please read the "Shell commands -> File
Management" section of the "ecaccess" guide for more information on the ECaccess File System.
ARGUMENTS
source-ecaccess-file
The source ECaccess File name.
target-ecaccess-file
The target ECaccess File name.
OPTIONS -version
Display version number and exits.
-help Print a brief help message and exits.
-manual Prints the manual page and exits.
-debug Display the SOAP messages exchanged.
EXAMPLES
ecaccess-file-move ec:test1.txt ec:test2.txt
Rename the test1.txt file in the ECFS directory of the authenticated user in test2.txt.
ecaccess-file-move ec:test1.txt home:test2.txt
Copy the test1.txt file from the ECFS directory of the authenticated user to the test2.txt file in the $HOME directory of the authenticated
user, then delete the test1.txt file from ECFS.
SEE ALSO
ecaccess-file-delete, ecaccess-file-get, ecaccess-file-mget, ecaccess-file-modtime, ecaccess-file-mput, ecaccess-file-rmdir, ecaccess-file-
copy, ecaccess-file-dir, ecaccess-file-mdelete, ecaccess-file-mkdir, ecaccess-file-chmod, ecaccess-file-put, ecaccess-file-size and
ecaccess.
perl v5.14.2 2012-04-16 ECACCESS-FILE-MOVE(1p)
03-27-2015
.