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Full Discussion: Badly placed ()'s
Top Forums Shell Programming and Scripting Badly placed ()'s Post 303006043 by drl on Thursday 26th of October 2017 09:10:03 AM
Old 10-26-2017
Hi.

Just a guess, change from:
Code:
fastqc -f fastq -o /data4/user/test/fastqc/ $i

to (by adding quotes):
Code:
fastqc -f fastq -o /data4/user/test/fastqc/ "$i"

Good luck ... cheers, drl
 

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QSUB(1) 						User Contributed Perl Documentation						   QSUB(1)

NAME
qsub - submit a batch job in a familiar pbs format SYNOPSIS
qsub [-a date_time] [-A account_string] [-b secs] [-C directive_prefix] [-e path] [-I] [-l resource_list] [-m mail_options] [-M user_list] [-N name] [-o path] [-p priority] [-q destination] [-W additional_attributes] [-h] [script] DESCRIPTION
The qsub command displays information about nodes. It is aimed to be feature-compatible with PBS' qsub. OPTIONS
-a Display information for all nodes. This is the default if no node name is specified. -I Interactive execution. -j join It is not necessary (currently also not possible) since stderr/stdout are always joined. -v [variable_list] Exporting single variables via -v is not supported, since the entire login environment is exported by the default. -V The -V option to export the current environment is not required since it is done by default. -? | --help brief help message --man full documentation perl v5.14.2 2012-04-10 QSUB(1)
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