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Full Discussion: awk incorrect format
Top Forums Shell Programming and Scripting awk incorrect format Post 303025262 by RudiC on Monday 29th of October 2018 06:12:57 PM
Old 10-29-2018
How about, hoping that any invisible surprises like the ones corona688 mentioned will have been taken care of, and untested, from a windows machine, so bear with me:


Code:
awk -F "\t" 'NR == FNR {REP[$3] = $4$5; next} REP[$1] == $4 {$3 = REP[$1]; gsub (/[^ACGT]/, "", $3); print}' OFS="\t" INPUT file2


BTW, if ($3 = $4) should read if ($3 == $4), but this would not explain the additional line feed that you complain about.
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AMSERVICE(8)						  System Administration Commands					      AMSERVICE(8)

NAME
amservice - run an amanda service on a client SYNOPSIS
amservice [-f input_file [-s]] [-o configoption...] hostname auth service DESCRIPTION
Amservice execute an Amanda service on a client. It can be used without amanda server configuration (amanda.conf and disklist). It can be used to check communication between a server and a client. Amservice reads stdin to capture the REQ packet to send to the client. See the amanda(8) man page for more details about Amanda. OPTIONS
hostname The hostname of the client. auth The auth to use, one of: bsd, bsdudp, bsdtcp, ssh, rsh or krb5. The client must be configured with this auth. service The amanda service to execute on the client. One of noop, selfcheck or sendsize. -f input_file Use the file input_file instead of stdin to read the REQ packet from. -s Redirect the first connected stream to stdin/stdout. The -f argument is required for the REQ packet, the REP packet is not printed on stdout. -o configoption See the "CONFIGURATION OVERRIDE" section in amanda(8). EXAMPLE
The noop service is easy to execute because it does not require a REQ packet: amservice hostname bsdtcp noop < /dev/null The example executes the noop service on the client using bsdtcp auth. This is useful for debugging connection problems. It print an OPTIONS line upon success. It is more difficult to execute the selfcheck or sendsize service, as these require a valid REQ packet. If you have already uccessfully run amanda, you can find valid REQ packets in the amandad.*.debug files. EXIT CODE
The exit code of amservice is one of: 0 = success 1 = error executing amandad on the client. As amservice doesn't parse the REP packet, it can only detect failures in executing amandad on the client. amservice can exit with value 0 even if the user is not authorized to execute the service. An error message will be printed. SEE ALSO
amanda(8), amanda(8), amcheck(8), amdump(8), amadmin(8) The Amanda Wiki: : http://wiki.zmanda.com/ AUTHOR
Jean-Louis Martineau <martineau@zmanda.com> Zmanda, Inc. (http://www.zmanda.com) Amanda 3.3.1 02/21/2012 AMSERVICE(8)
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