The perl command is not executing? I am trying to run the .pl in my cygwin home directory (C:\cygwin\home\cmccabe) using ${id}.txt.hg19_multianno.txt (located in the annovar directory) as the input file to be formatted and $FILENAME is the output file to be saved. The .pl is attached as well. Thank you .
Code:
matrix() {
printf "\n\n"
cd 'C:\Users\cmccabe\Desktop\annovar'
my $FILENAME = 'L:\NGS\3_BUSINESS\Matrix\Torrent\matrix_${id}.txt';
$( perl -ne 'chomp; system ("perl ~/matrix.pl < ./${id}.txt.hg19_multianno.txt")' > )$FILENAME) )
printf "Process complete and new file saved in ($FILENAME), 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 " ;;
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
x2sys_merge
X2SYS_MERGE(1gmt) Generic Mapping Tools X2SYS_MERGE(1gmt)NAME
x2sys_merge - Merge an updated COEs tables
SYNOPSIS
x2sys_merge -Amain_COElist.d -Mnew_COElist.d
DESCRIPTION
x2sys_merge will read two crossovers data base and output the contents of the main one updated with the COEs in the second one. The second
file should only contain updated COEs relatively to the first one. That is, it MUST NOT contain any new two tracks intersections (This
point is NOT checked in the code). This program is useful when, for any good reason like file editing NAV correction or whatever, one had
to recompute only the COEs between the edited files and the rest of the database.
-A Specify the file main_COElist.d with the main crossover error data base.
-M Specify the file new_COElist.d with the newly computed crossover error data base.
OPTIONS
No space between the option flag and the associated arguments.
EXAMPLES
To update the main COE_data.txt with the new COEs estimations saved in the smaller COE_fresh.txt, try
x2sys_merge -ACOE_data.txt -MCOE_fresh.txt > COE_updated.txt
SEE ALSO x2sys_binlist(1), x2sys_cross(1), x2sys_datalist(1), x2sys_get(1), x2sys_init(1), x2sys_list(1), x2sys_put(1), x2sys_report(1)GMT 4.5.7 15 Jul 2011 X2SYS_MERGE(1gmt)
03-27-2015
.