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Full Discussion: Extract line from file and save as new file.
Top Forums Shell Programming and Scripting Extract line from file and save as new file. Post 303018249 by nans on Friday 1st of June 2018 09:04:03 AM
Old 06-01-2018
Extract line from file and save as new file.
Hello,
I have a tab-file "result.txt "that looks like this
Code:
CNV.ID    Sample    Correlation    N.comp    Start.b    End.b    CNV.type    N.exons    BF    Reads.expected    Reads.observed    Reads.ratio    Gene
1    S10.Run.variant_ready    0.999411647    7    381    382    duplication    2    7.61    547    714    1.31    Gene1
2    S10.Run.variant_ready    0.999411647    7    1998    2016    duplication    19    133    14396    18691    1.3    Gene2
3    S11.Run.variant_ready    0.999286215    13    302    302    deletion    1    2.67    188    129    0.686    Gene3
4    S11.Run.variant_ready    0.999286215    13    341    341    deletion    1    4.58    548    386    0.704    Gene4
5    S11.Run.variant_ready    0.999286215    13    383    383    duplication    1    3.61    503    646    1.28    Gene5
6    S12.Run.variant_ready    0.999286215    13    388    388    deletion    1    2.8    45    24    0.533    Gene6

I need to extract each "Sample" (Column 2) and store it as a separate file with the contents. For example, from the above file, I need to extract all lines (ie, row 1&2 in this case) corresponding to "S10.Run39.variant_ready" and store it as S10.txt (ie SAMPLE name).

This is what I have tried so far

Code:
while read ID SAMPLE; do echo "$SAMPLE" > "$SAMPLE"; done < result.txt

I don't end up with a file with contents but rather each row as a file name. Please advise.

thanks
Last edited by RudiC; 06-01-2018 at 12:25 PM..
 

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LEARN ABOUT V7

pgmtexture

pgmtexture(1)						      General Commands Manual						     pgmtexture(1)

NAME

       pgmtexture - calculate textural features on a portable graymap

SYNOPSIS

       pgmtexture [-d d] [pgmfile]

DESCRIPTION

       Reads  a  portable graymap as input.  Calculates textural features based on spatial dependence matrices at 0, 45, 90, and 135 degrees for a
       distance d (default = 1).  Textural features include:

	      (1) Angular Second Moment,
	      (2) Contrast,
	      (3) Correlation,
	      (4) Variance,
	      (5) Inverse Difference Moment,
	      (6) Sum Average,
	      (7) Sum Variance,
	      (8) Sum Entropy,
	      (9) Entropy,
	      (10) Difference Variance,
	      (11) Difference Entropy,
	      (12, 13) Information Measures of Correlation, and
	      (14) Maximal Correlation Coefficient.

       Algorithm taken from:
       Haralick, R.M., K. Shanmugam, and I. Dinstein. 1973. Textural features for image classification.  IEEE Transactions on  Systems,  Man,  and
       Cybertinetics, SMC-3(6):610-621.

BUGS

       The  program  can  run incredibly slow for large images (larger than 64 x 64) and command line options are limited.  The method for finding
       (14) the maximal correlation coefficient, which requires finding the second largest eigenvalue of a matrix Q, does not always converge.

REFERENCES

       IEEE Transactions on Systems, Man, and Cybertinetics, SMC-3(6):610-621.

SEE ALSO

       pgm(5), pnmcut(1)

AUTHOR

       Copyright (C) 1991 by Texas Agricultural Experiment Station, employer for hire of James Darrell McCauley.

								    22 Aug 1991 						     pgmtexture(1)
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