I am trying to create a bash script that will create new function by using the user input. The below will create the necessary files in the correct format, however when it comes to the # create function I am at a loss.
If the name entered was NEWNAME and the genes were GENE1,GENE2 then two files would be created using NEWNAME. That executes as expected and in the # convert name to lower case, NEWNAME is converted to lowercase as variable string. This variable starts the function. The ... in the code are mostly hardcoded lines that use either NEWNAME or $string in them. I am not sure if this is the best way but maybe its a start. Thank you .
Code:
#!/bin/bash
# enter name
printf "What is the name of the panel (please use CAPS): "; read name
# enter gene input
printf "%s \n" "Please enter gene(s), use a comma between multiple:" ; IFS="," read -a genes
for (( i = 0; i < ${#genes[@]}; i++ ))
do
printf "%s\n" "${genes[$i]}" > /home/cmccabe/Desktop/NGS/panels/new.txt
# remove line endings and trim
sed 's/\r$//' < /home/cmccabe/Desktop/NGS/panels/new.txt | sed 's/^[ \t]*//;s/[ \t]*$//' > /home/cmccabe/Desktop/NGS/panels/${name}_unix_trim.bed
done
# create total target length for input
awk 'NR==FNR{A[$1];next}$1 in A' /home/cmccabe/Desktop/NGS/panels/${name}_unix_trim.bed /home/cmccabe/Desktop/NGS/bed/bedtools/IDP_total_target_length_by_panel/IDP_unix_trim_total_target_length.bed > /home/cmccabe/Desktop/NGS/bed/bedtools/IDP_total_target_length_by_panel/${name}_unix_trim_total_target_length.bed
#-------------------------------------------------------------------------#
# convert name to lower case
y="$name"
val=$(echo "$y" | tr '[:upper:]' '[:lower:]')
string="$val"
echo "This is the new panel to add" $string
# create function
printf "$string() {"
.....
.....
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Discussion started by: cmccabe
5 Replies
LEARN ABOUT DEBIAN
gnome-panel-preferences
gnome-panel-preferences(1) User Commands gnome-panel-preferences(1)NAME
gnome-panel-preferences - configure the behavior of panels
SYNOPSIS
gnome-panel-preferences [gnome-std-options]
DESCRIPTION
The Panel preference tool enables you to configure the behavior of all of your panels.
OPTIONS
The following options are supported:
gnome-std-optionStandard options available for use with most GNOME applications. See gnome-std-options(5).
EXAMPLES
Example 1: Launching the Panel preference tool
example% gnome-panel-preferences
EXIT STATUS
The following exit values are returned:
0 Application exited successfully
>0 Application exited with failure
FILES
The following files are used by this application:
/usr/bin/gnome-panel-preExecutable for Panel preferences tool
ATTRIBUTES
See attributes(5) for descriptions of the following attributes:
+-----------------------------+-----------------------------+
| ATTRIBUTE TYPE | ATTRIBUTE VALUE |
+-----------------------------+-----------------------------+
|Availability |SUNWgnome-panel |
+-----------------------------+-----------------------------+
|Interface stability |External |
+-----------------------------+-----------------------------+
SEE ALSO
Preference Tools Manual
Latest version of the GNOME Desktop User Guide for your platform.
gnome-panel(1), gnome-std-options(5)NOTES
Written by Glynn Foster, Sun Microsystems Inc., 2003.
SunOS 5.10 2 Oct 2003 gnome-panel-preferences(1)
12-28-2017
.