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Shell Programming and Scripting
Perl to parse
Post 302939340 by cmccabe on Tuesday 24th of March 2015 07:00:37 PM
03-24-2015
In the attached file the lastline:
NM_004004.5:c.35delG NC_000013.10:g.20763686delC NM_004004.5:c.35delG XM_005266354.1:c.35delG XM_005266355.1:c.35delG XM_005266356.1:c.35delG and the third column (the header row is skipped) NC_000013.10:g.20763686delC is the column/field to be parsed into the desired output: 13 20763686 20763686 C -
there is no "-" in the file the only indicator is in $5 there is a "-" to signify a deletion.
The code in the post seems to work for the first and second case (where there is a >), but not for the third (del).
Thank you
.
NM_004004.5:c.35delG NC_000013.10:g.20763686delC NM_004004.5:c.35delG XM_005266354.1:c.35delG XM_005266355.1:c.35delG XM_005266356.1:c.35delG and the third column (the header row is skipped) NC_000013.10:g.20763686delC is the column/field to be parsed into the desired output: 13 20763686 20763686 C -
there is no "-" in the file the only indicator is in $5 there is a "-" to signify a deletion.
The code in the post seems to work for the first and second case (where there is a >), but not for the third (del).
Thank you
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LEARN ABOUT OPENSOLARIS
indicator
indicator(1F) FMLI Commands indicator(1F) NAME
indicator - display application specific alarms and/or the "working" indicator SYNOPSIS
indicator [-b [n]] [-c column] [-l length] [-o] [-w] [string]... DESCRIPTION
The indicator function displays application specific alarms or the "working" indicator, or both, on the FMLI banner line. The argument string is a string to be displayed on the banner line, and should always be the last argument given. Note that string is not automatically cleared from the banner line. OPTIONS
-bn The -b option rings the terminal bell n times, where n is an integer from 1 to 10. The default value is 1. If the terminal has no bell, the screen is flashed instead, if possible. -c column The -c option defines the column of the banner line at which to start the indicator string. The argument column must be an integer from 0 to DISPLAYW-1. If the -c option is not used, column defaults to 0 . -l length The -l option defines the maximum length of the string displayed. If string is longer than length characters, it will be trun- cated. The argument length must be an integer from 1 to DISPLAYW. If the -l option is not used, length defaults to DISPLAYW. Note that if string doesn't fit it will be truncated. -o The -o option causes indicator to duplicate its output to stdout . -w The -w option turns on the "working" indicator. EXAMPLES
Example 1 A sample output of the indicator command. When the value entered in a form field is invalid, the following use of indicator will ring the bell three times and display the word WRONG starting at column 1 of the banner line. invalidmsg=`indicator -b 3 -c 1 "WRONG"` To clear the indicator after telling the user the entry is wrong: invalidmsg=`indicator -b 9 -c 1 "WRONG"; sleep 3; indicator -c 1 " "` In this example the value of invalidmsg (in this case the default value Input is not valid), still appears on the FMLI message line. ATTRIBUTES
See attributes(5) for descriptions of the following attributes: +-----------------------------+-----------------------------+ | ATTRIBUTE TYPE | ATTRIBUTE VALUE | +-----------------------------+-----------------------------+ |Availability |SUNWcsu | +-----------------------------+-----------------------------+ SEE ALSO
attributes(5) SunOS 5.11 5 Jul 1990 indicator(1F)