Login or Register to Ask a Question and Join Our Community

Sponsored Content
Full Discussion: Gnu parallel and awk syntax quotes
Top Forums UNIX for Dummies Questions & Answers Gnu parallel and awk syntax quotes Post 302596811 by genehunter on Wednesday 8th of February 2012 10:28:30 AM
Old 02-08-2012
Power Gnu parallel and awk syntax quotes
I have many files that has the following structure.
Code:
CHR         SNP         BP   A1       TEST    NMISS         OR       SE      L95      U95         STAT            P 
   1   rs2980319     766985    A        ADD     4948      1.068  0.08356   0.9065    1.258       0.7853       0.4323
   1   rs2980319     766985    A     VAR1     4948      1.109  0.02484    1.057    1.165        4.177    2.952e-05
   1   rs2980319     766985    A        VAR2     4948  1.567e+27    2.441 1.31e+25 1.875e+29        25.65   4.009e-145
   1   rs2980319     766985    A        VAR3     4948  3.031e+12    2.221 3.902e+10 2.355e+14        12.94     2.63e-38

I want to output certain columns and lines which only contain "ADD" in the 5th column.
I am trying to use GNU parallel and am having no luck getting output.
Code:
>parallel ""awk 'NR==1{print $2, $1, $3, $4, $7, $9, $10, $12; next} $5=="ADD"{print $2, $1, $3, $4, $7, $9, $10, $12 | "sort -gk8"}' OFS="\t" {1}_fileA.assoc > {1}_fileA.assoc.ADD

The syntax seems too dense for me.
Any help is appreciated.
 

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

Single v. double quotes in sed (GNU utilities for Win32 version)

I'm using sed for Windows at a WinNT command prompt. Wrapping the expressions with single quotes doesn't work. I have to use double quotes. Is this the norm for the Windows implementation? (2 Replies)
Discussion started by: daddydojo
2 Replies

2. UNIX for Dummies Questions & Answers

Parallel processing using AWK program

Hi All, could any expert tell me about writing a parallel processing program using AWK program is possible or not? Any example would be much appreciated... With Regards / Mysore Ganapati :confused: (5 Replies)
Discussion started by: ganapati
5 Replies

3. UNIX for Dummies Questions & Answers

| help | unix | grep (GNU grep) 2.5.1 | advanced regex syntax

Hello, I'm working on unix with grep (GNU grep) 2.5.1. I'm going through some of the newer regex syntax using Regular Expression Reference - Advanced Syntax a guide. ls -aLl /bin | grep "\(x\)" Which works, just highlights 'x' where ever, when ever. I'm trying to to get (?:) to work but... (4 Replies)
Discussion started by: MykC
4 Replies

4. Shell Programming and Scripting

quotes using awk

i want to print the statement below using awk,but i am unable to get the quotes ("22345",1,"Thank you"); How can i do this (5 Replies)
Discussion started by: tomjones
5 Replies

5. Shell Programming and Scripting

syntax issue with quotes in mysql command for a bash script

i'm trying to write a bash script that executes a mysql statement mysql -sN -e INSERT INTO "$database"."$tableprefix"users (var1, var2,var3) VALUES (123, '1','') i don't know where to put the quotes it doesnt work with this one: ` it seems i can only put double quotes around the... (0 Replies)
Discussion started by: vanessafan99
0 Replies

6. Shell Programming and Scripting

awk without quotes

I want to execute awk command without quotes. who am i | awk {'print $2'} above code should be something like: who am i | awk {print $2} Why such weird requirement? Im assigning command to a variable, hence i need to escape the quotes. e.g: x='who am i | awk {\'print $2\'}' I want... (11 Replies)
Discussion started by: Arun_Linux
11 Replies

7. Shell Programming and Scripting

Converting from Linux bash (GNU) to Solaris script syntax errors

Original script written on CentOS 6.3 with GNU bash 4.1.2 Destination system is Solaris 9 with GNU bash 2.05 (not changeable by me) I have a script written on the linux side but now we need to provide a version to another site that "doesn't like linux". I've been going through changing the ] or... (13 Replies)
Discussion started by: oly_r
13 Replies

8. Shell Programming and Scripting

awk - Print where value is in quotes

Hi All, I have input data like follows: "1234"|"ABC" "1234"|"CBA" "1222"|"ZZZ" I am trying to awk print all records where Col1 = "1234". Below is the code I have so far: Var1=1 Var2=1234 awk -F "|" "$ ${Var1} == "\"${Var2}\"" { print; }' inputfile However when the AWK... (2 Replies)
Discussion started by: RichZR
2 Replies

9. Shell Programming and Scripting

Using quotes in awk

Hello, i had a problem running a script , and after investigation found its all to do with the quotes: cat file1 line1 val1 val2 line2 val1 val2 line3 val1 val2 awk 'BEGIN {RS="\n\n"; FS="\n";} {print $1 $2}' file1 This gives me the wrong output: (5 Replies)
Discussion started by: andy391791
5 Replies

10. Shell Programming and Scripting

Python GNU parallel single command on multiple cores

Hello, I have a 4 core machine. Here is my initial script cd /work/ python script.py input.txt output.txt 1 2 3 This script runs for 1.5hrs. So I read across the web and figured out that you can use GNU parallel to submit multiple jobs using parallel. But I am not sure if I can run... (4 Replies)
Discussion started by: jacobs.smith
4 Replies

LEARN ABOUT SUNOS

mlib_signaliir_p4_f32s_f32s

mlib_SignalIIR_P4_S16_S16_Sat(3MLIB)			    mediaLib Library Functions			      mlib_SignalIIR_P4_S16_S16_Sat(3MLIB)

NAME

       mlib_SignalIIR_P4_S16_S16_Sat,  mlib_SignalIIR_P4_S16S_S16S_Sat, mlib_SignalIIR_P4_F32_F32, mlib_SignalIIR_P4_F32S_F32S - parallel Infinite
       Impulse Response (IIR) filtering

SYNOPSIS

       cc [ flag... ] file... -lmlib [ library... ]
       #include <mlib.h>

       mlib_status mlib_SignalIIR_P4_S16_S16_Sat(mlib_s16 *dst, const mlib_s16 *src, void *filter, mlib_s32 n);

       mlib_status mlib_SignalIIR_P4_S16S_S16S_Sat(mlib_s16 *dst, const mlib_s16 *src, void *filter, mlib_s32 n);

       mlib_status mlib_SignalIIR_P4_F32_F32(mlib_f32 *dst, const mlib_f32 *src, void *filter, mlib_s32 n);

       mlib_status mlib_SignalIIR_P4_F32S_F32S(mlib_f32 *dst, const mlib_f32 *src, void *filter, mlib_s32 n);

DESCRIPTION

       Each of these functions applies a fourth order parallel IIR filter to one signal packet and updates the filter state.

       Equation that represents the fourth order parallel IIR filtering.

       Equation that represents the fourth order parallel IIR filtering

       The fourth order parallel IIR filter is represented by the following figure:

	      Please see the online man page on docs.sun.com or a print copy for the diagram.

       Figure that represents the fourth order parallel IIR filter

PARAMETERS

       Each of the functions takes the following arguments:

       dst	       Destination signal array.

       src	       Source signal array.

       filter	       Internal filter structure.

       n	       Number of signal samples.

RETURN VALUES

       Each of the functions returns MLIB_SUCCESS if successful. Otherwise it returns MLIB_FAILURE.

ATTRIBUTES

       See attributes(5) for descriptions of the following attributes:

       +-----------------------------+-----------------------------+
       |      ATTRIBUTE TYPE	     |	    ATTRIBUTE VALUE	   |
       +-----------------------------+-----------------------------+
       |Interface Stability	     |Evolving			   |
       +-----------------------------+-----------------------------+
       |MT-Level		     |MT-Safe			   |
       +-----------------------------+-----------------------------+

SEE ALSO

       mlib_SignalIIR_Biquad_S16_S16_Sat(3MLIB),  mlib_SignalIIRFree_Biquad_S16_S16(3MLIB),  mlib_SignalIIRFree_P4_S16_S16(3MLIB),   mlib_SignalI-
       IRInit_Biquad_S16_S16(3MLIB), mlib_SignalIIRInit_P4_S16_S16(3MLIB), attributes(5)

SunOS 5.10							    9 Nov 2004				      mlib_SignalIIR_P4_S16_S16_Sat(3MLIB)
All times are GMT -4. The time now is 04:13 AM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy