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Full Discussion: Run a program-print parameters to output file-replace op file contents with max 4th col
Top Forums Shell Programming and Scripting Run a program-print parameters to output file-replace op file contents with max 4th col Post 302760173 by Corona688 on Wednesday 23rd of January 2013 01:27:25 PM
Old 01-23-2013
Code:
while read CHROM START END NAME
do
        # Create the bed file
        program input2.bed -chrom=$CHROM -start=$START -end=$END ${CHROM}_${START}_${END}_op.bed

        # Replace column 1 with filename,
        # column 2 with the last column,
        # reduce it to 2 columns,
        # and print all lines.
        awk '{$1=F ; $2=$NF; NF=2 } 1' F="${CHROM}_${START}_${END}" ${CHROM}_${START}_${END}_op.bed > /tmp/$$
        cat /tmp/$$ > ${CHROM}_${START}_${END}_op.bed
done < input1.bed
# Remove temporary file
rm -f /tmp/$$

For 3 and 4, you start with 3 lines and end with 1 line. Is this intended? I've assumed it's not, that you want 3 lines out for 3 lines in.
This User Gave Thanks to Corona688 For This Post:
jacobs.smith
 

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LEARN ABOUT ULTRIX

ppmtosixel

ppmtosixel(1)						      General Commands Manual						     ppmtosixel(1)

NAME

       ppmtosixel - convert a portable pixmap into DEC sixel format

SYNOPSIS

       ppmtosixel [-raw] [-margin] [ppmfile]

DESCRIPTION

       Reads  a  portable  pixmap  as input.  Produces sixel commands (SIX) as output.	The output is formatted for color printing, e.g. for a DEC
       LJ250 color inkjet printer.

       If RGB values from the PPM file do not have maxval=100, the RGB values are rescaled.  A printer control header and a color assignment table
       begin the SIX file.  Image data is written in a compressed format by default.  A printer control footer ends the image file.

OPTIONS

       -raw   If  specified,  each  pixel  will  be explicitly described in the image file.  If -raw is not specified, output will default to com-
	      pressed format in which identical adjacent pixels are replaced by "repeat pixel" commands.  A raw file is often an order	of  magni-
	      tude larger than a compressed file and prints much slower.

       -margin
	      If  -margin  is not specified, the image will be start at the left margin (of the window, paper, or whatever).  If -margin is speci-
	      fied, a 1.5 inch left margin will offset the image.

PRINTING

       Generally, sixel files must reach the printer unfiltered.  Use the lpr -x option or cat filename > /dev/tty0?.

BUGS

       Upon rescaling, truncation of the least significant bits of RGB values may result in poor color conversion.  If the original PPM maxval was
       greater	than  100,  rescaling  also reduces the image depth.  While the actual RGB values from the ppm file are more or less retained, the
       color palette of the LJ250 may not match the colors on your screen.  This seems to be a printer limitation.

SEE ALSO

       ppm(5)

AUTHOR

       Copyright (C) 1991 by Rick Vinci.

								   26 April 1991						     ppmtosixel(1)
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