I'm using a script that does some modifications to data on disc and updates the database. The script (perl) uses STDOUT so the results are printed to the screen. I don't have permissions to modify the script. I want to capture the results in a file so I can see if errors occurred and also keep track of where I am in the modifications. I've tried redirection and append with '> and >>' and I've tried 'tee and tee -a'. I don't get any errors, but the file remains empty - 0 file size. If I take out the redirection, the script runs fine, it's just that there are so many files modified that I can't see the entire output to note errors. Any ideas?
Code:
scriptname.pl -r /vol1/OPS -d DATATYPE -v VERSION -b 2005-04-05 -e 2005-04-06 | tee -a s4pa_delete_map.log
scriptname.pl -r /vol1/OPS -d DATATYPE -v VERSION -b 2005-04-06 -e 2005-04-07 >> s4pa_delete_map.log
Moderator's Comments:
Please view this code tag video for how to use code tags when posting code and data.
Hi All,
I am checking for a empty input file to do some further action , but I am getting exit status 0 in both the cases , for empty and non empty file both.
The value of $? is coming 0 in if part also and else part too.
#!/bin/ksh
if ]; then
echo "data"
# exit 0
echo "$?"
else... (4 Replies)
Hi,
I'm trying to use sed within a shell script (bash, running ubuntu). The command works fine from the command line, but when I use it within the script, rather than creating a file with the name I've specified, it creates one that ends with a question mark '?' when you use ls, e.g.... (3 Replies)
I have a script that runs ditto for me, and occasionally (if I exit the script while ditto is running in the background) it will leave an empty file named 0 in the script's directory. The next time I run the script, it generates incorrect data because of this file. I know I can easily insert a... (1 Reply)
I have a script that runs ditto for me, and occasionally (if I exit the script while ditto is running in the background) it will leave an empty file named 0 in the script's directory. The next time I run the script, it generates incorrect data because of this file. I know I can easily insert a... (1 Reply)
Hi,
I am trying to create a lock file with the following code but for some reason after file is created it has
wrong name "PASP?.lock??"
Please let us know how to get rid of these '??' from file name and from where they are coming?
#!/bin/ksh... (6 Replies)
I am new to Linux. Using latest version of Ubuntu.
I want to make a script that creates a 1GB file filled with zeros using dd and then formats the file as vfat with a label of "MYFILE".
If anyone can help me it would be appreciated. (9 Replies)
Hi,
I have created a test script like this :
# cat script1.sh
DAY=$(date +%d)
MONTH=$(date +%b)
YEAR=$(date +%Y)
BC01="Blast_BC01"
BC15="Blast_BC15"
DIR1="$MONTH$YEAR_$BC01"
DIR2="$MONTH$YEAR_$BC07"
DIR3="$MONTH$YEAR_$BC15"
if ;then
mkdir -p "$YEAR/$DIR3"
fi
#
When I... (5 Replies)
I am new to Linux. Using latest version of Ubuntu.
I want to make a script that creates a 1GB file filled with zeros using dd and then formats the file as vfat with a label of "MYFILE".
If anyone can help me it would be appreciated. (1 Reply)
Discussion started by: amandasaza08
1 Replies
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)
09-18-2012
