You're going about this all wrong.
The files you have attached
windows_annovar.sh
windows_annovar.pl
are the same file. You can't just rename files and expect them to run with different interpreters.
Code:
Line 117 windows_annovar.sh
cd 'C:\Users\cmccabe\Desktop\annovar'
$( perl table_annovar.pl ${id}_matched.avinput humandb/ -buildver ... blah blah blah)
This is calling perl table_annovar.pl to access a database (humandb) I think. Do you have all those perl files installed?? If so, perl needs to know where to find them. The full path to the folder that contains them should be in PATH as well as the full path to the perl modules.
PATH belongs in windows_annovar.sh...not this one. Actually, it belongs in the shell environment.
Get rid of this file.
my requirment is
i have to call a batch file from a c++ program
that batch file is called with the argument as print.txt
print.txt is a text file which should get printed on printer (any printer) when a batch file call is made
1) how to call a batch file in c++
2) how to print the text... (1 Reply)
what is a command to call a batch file from a c++ program
when called with the argument which is a text file, then how to print that text file on a printer.
please help me with code if possible (3 Replies)
EDIT: Is this wrong thread?
Hi I am on an Apple Mac and I am trying to run this batch file on my Mac and was wondering if anyone could tell me what a script that will make this run and work on my Mac. I was hoping that you could tell me the script in the shell format?
So here's the batch... (4 Replies)
Hi
I have to create a windows batch file which will read an input file and remove "double quotes" from each line of the file.
For eg.If input file name is abcd.csv and contents is :
"asasd,123123,213213,asd"
"esfrf,dsfsdf,234324,sdfsdf"
Then the batch file should remove "" from the... (11 Replies)
Hi all
I am using tru64 Unix and I want a ready batch file which makes me to change all user passwords at the same time ,instead of changing everyone separately.
Please could anyone help me to do that.
bye. (1 Reply)
Hello everyone. I am new to shell scripting and i am required to create a shell script, the purpose of which i will explain below.
I am on a solaris server btw.
Before delving into the requirements, i will give youse an overview of what is currently in place and its purpose.
... (2 Replies)
Hi all,
What I would like to achieve is to batch change the code below in every pdf in a given directory (each pdf is uncompressed so that can be easily edited).
An example of the javascript code:
if (this.hostContainer) { try { this.hostContainer.postMessage(pp_216', 15259]);... (3 Replies)
Hi guys,
I need a script to change the file names e.g.:-
below are the mentioned files, i want t0 change the last character of the name 00000.cdr with e.g bep01.smsc.191214210500-00000.cdr to bep01.smsc.191214210500-92311.cdr next file be like bep01.smsc.191214210500-92312.cdr
# ls -ltr... (9 Replies)
In the below perl executes if one file is processed perfect. However, when multiple files are processed in batch which is preferred I get the below error that I can not seem to fix it as the '' necessary for the command to execute, but seem to only work for one -arg option. Thank you :).
... (2 Replies)
Discussion started by: cmccabe
2 Replies
LEARN ABOUT LINUX
shtool-path
SHTOOL-PATH.TMP(1) GNU Portable Shell Tool SHTOOL-PATH.TMP(1)NAME
shtool-path - GNU shtool command dealing with shell path variables
SYNOPSIS
shtool path [-s|--suppress] [-r|--reverse] [-d|--dirname] [-b|--basename] [-m|--magic] [-p|--path path] str [str ...]
DESCRIPTION
This command deals with shell $PATH variables. It can find a program through one or more filenames given by one or more str arguments. It
prints the absolute filesystem path to the program displayed on "stdout" plus an exit code of 0 if it was really found.
OPTIONS
The following command line options are available.
-s, --suppress
Supress output. Useful to only test whether a program exists with the help of the return code.
-r, --reverse
Transform a forward path to a subdirectory into a reverse path.
-d, --dirname
Output the directory name of str.
-b, --basename
Output the base name of str.
-m, --magic
Enable advanced magic search for ""perl"" and ""cpp"".
-p, --path path
Search in path. Default is to search in $PATH.
EXAMPLE
# shell script
awk=`shtool path -p "${PATH}:." gawk nawk awk`
perl=`shtool path -m perl`
cpp=`shtool path -m cpp`
revpath=`shtool path -r path/to/subdir`
HISTORY
The GNU shtool path command was originally written by Ralf S. Engelschall <rse@engelschall.com> in 1998 for Apache. It was later taken
over into GNU shtool.
SEE ALSO shtool(1), which(1).
18-Jul-2008 shtool 2.0.8 SHTOOL-PATH.TMP(1)
11-28-2014
