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Full Discussion: Badly placed ()'s
Top Forums Shell Programming and Scripting Badly placed ()'s Post 303005984 by MadeInGermany on Wednesday 25th of October 2017 12:18:51 PM
Old 10-25-2017
It looks like you run your script by tcsh.
Is /bin/bash really a bash?
Code:
ls -l /bin/bash
/bin/bash --version

--
I see you run it with qsub. Don't know what qsub is but maybe you should force a bash with
Code:
qsub -o fastqc.log /bin/bash ~/bin/fastqc.sh

 

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LEARN ABOUT DEBIAN

gst-complete-0.8

gst-complete-0.8(1)						   User Commands					       gst-complete-0.8(1)

NAME

       gst-complete-0.8, gst-complete - perform bash completion for gst-launch command lines

SYNOPSIS

       complete -Cgst-complete-0.8 gst-launch

       gst-complete [--gst-list-mm] [--gst-mm=string] [--print]

DESCRIPTION

       gst-complete-0.8 enables bash to provide context-sensitive tab completion for gst-launch command lines. See gst-launch(1) for the syntax of
       gst-launch command lines.

       You must have a version of bash that supports programmable completion. Such versions of bash provide the complete built-in command.

       gst-complete is a wrapper script that runs the latest installed version of gst-complete-X.X. For example, if both gst-complete-0.7 and gst-
       complete-0.8 are installed on your system, gst-complete runs gst-complete-0.8.

OPTIONS

       The following options are supported by gst-complete-0.8 and gst-complete:

       --help	       Display detailed usage message. You can also use -? to specify this option.

       The following options are supported by gst-complete only:

       --gst-list-mm   List found major/minor versions. This option displays the versions that are available.

       --gst-mm=string Force  major/minor  version.  This  option  enables you to specify a specific version to run, if you do not want to run the
		       default version.

       --print	       Print wrapped command line. This option displays the command that will be run, and then runs the command.

EXAMPLES

       Example 1: Generating the Registry of Available Plugins by Running gst-compprep

       Run the following command in your .bash_profile or other appropriate place:

       example% complete -C gst-complete-0.8 gst-launch

       Example 2: Running the Wrapper Script and Displaying the Command Name

       example% gst-complete --print
       /usr/bin/gst-complete-0.8

FILES

       The following files are used by this application:

       /usr/bin/gst-complete-0.Executable for bash completion for gst-launch

       /usr/bin/gst-complete   Wrapper script that runs the latest installed version of gst-complete-X.X

ATTRIBUTES

       See attributes(5) for descriptions of the following attributes:

       +-----------------------------+-----------------------------+
       |      ATTRIBUTE TYPE	     |	    ATTRIBUTE VALUE	   |
       +-----------------------------+-----------------------------+
       |Availability		     |SUNWgnome-media		   |
       +-----------------------------+-----------------------------+
       |Interface stability	     |External			   |
       +-----------------------------+-----------------------------+

SEE ALSO

       gst-compprep(1), gst-feedback(1), gst-inspect(1), gst-launch(1), gst-launch-ext(1), gst-md5sum(1), gst-register(1), gst-thumbnail(1),  gst-
       typefind(1), gst-xmlinspect(1), gst-xmllaunch(1), gstreamer-properties(1), libgstreamer-0.8(3), libgstgetbits(3)

NOTES

       Original man page written by the GStreamer team at http://gstreamer.net/.

       Updated by Brian Cameron, Sun Microsystems Inc., 2004.

SunOS 5.10							    14 Oct 2004 					       gst-complete-0.8(1)
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