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Full Discussion: Redirecting STDERR to file and screen, STDOUT only to file
Top Forums Shell Programming and Scripting Redirecting STDERR to file and screen, STDOUT only to file Post 302698387 by thuranga on Monday 10th of September 2012 03:22:38 AM
Old 09-10-2012
Quote:
Originally Posted by bakunin

...

Code:
script 2>&1 1>/some/file | tee -a /some/file

This finally does what we want: output to <stdout> is put into "/some/file", output to <stderr> is being displayed before being appended to /some/file" too.

The only uncertainty left is that i am not sure if the exact sequence of the messages will be preserved, especially if there is high load and many messages. You will have to try that. I'll be tankful if you could post a follow-up telling us this.
Hi bakunin,
thank you for your notes! I tried your adjustments, but the STDOUT will always displayed on screen.

I need this for a cronjob. Actually everything (STDOUT & STDERR) is written to a log. But I want to get informed, when an error occurs.
 

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LEARN ABOUT DEBIAN

fastq_quality_trimmer

FASTQ_QUALITY_TRIMMER(1)					   User Commands					  FASTQ_QUALITY_TRIMMER(1)

NAME

       fastq_quality_trimmer - Filters sequences based on quality

DESCRIPTION

       usage:  fastq_quality_trimmer  [-h]  [-v]  [-t  N]  [-l	N] [-z] [-i INFILE] [-o OUTFILE] Part of FASTX Toolkit 0.0.13.1 by A. Gordon (gor-
       don@cshl.edu)

       [-h]   = This helpful help screen.

       [-t N] = Quality threshold - nucleotides with lower

	      quality will be trimmed (from the end of the sequence).

       [-l N] = Minimum length - sequences shorter than this (after trimming)

	      will be discarded. Default = 0 = no minimum length.

       [-z]   = Compress output with GZIP.

       [-i INFILE]
	      = FASTQ input file. default is STDIN.

	      [-o OUTFILE] = FASTQ output file. default is STDOUT.  [-v]	 = Verbose - report number of sequences.

       If [-o] is specified,
	      report will be printed to STDOUT.

	      If [-o] is not specified (and output goes to STDOUT), report will be printed to STDERR.

SEE ALSO

       The quality of this automatically generated manpage might be insufficient.  It is suggested to visit

	      http://hannonlab.cshl.edu/fastx_toolkit/commandline.html

       to get a better layout as well as an overview about connected FASTX tools.

fastq_quality_trimmer 0.0.13.1					    April 2012						  FASTQ_QUALITY_TRIMMER(1)
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