Sponsored Content
Top Forums UNIX for Beginners Questions & Answers Grep solutions tab-delimited file Post 303016542 by andmal on Saturday 28th of April 2018 03:49:47 PM
Old 04-28-2018
Sorry if I made it look confusing. There are matches. PLease consider the below example instead:

File 1
Code:
chr1:17373
chr1:17375
chr1:17398
chr1:17407

~100,000 rows


File 2
Code:
chr1    17372    17373    rs750111615
chr1    17374    17375    rs755771866
chr1    17378    17379    rs754322362
chr1    17384    17385    rs201535981
chr1    17395    17398    rs200784459
chr1    17405    17406    rs772228657
chr1    17405    17407    rs372841554

~15 M rows

The result I need is

Code:
chr1:17373 rs750111615
chr1:17375    rs755771866
chr1:17398    rs200784459
chr1:17407    rs372841554

Again, help would be much appreciated.


Moderator's Comments:
Mod Comment Please use CODE tags as required by forum rules!

Last edited by RudiC; 04-28-2018 at 07:23 PM.. Reason: Added CODE tags.
 

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

Converting Tab delimited file to Comma delimited file in Unix

Hi, Can anyone let me know on how to convert a Tab delimited file to Comma delimited file in Unix Thanks!! (22 Replies)
Discussion started by: charan81
22 Replies

2. UNIX for Dummies Questions & Answers

Converting Space delimited file to Tab delimited file

Hi all, I have a file with single white space delimited values, I want to convert them to a tab delimited file. I tried sed, tr ... but nothing is working. Thanks, Rajeevan D (16 Replies)
Discussion started by: jeevs81
16 Replies

3. UNIX for Dummies Questions & Answers

100 $1's to new tab delimited file

Hi I have 100 files each with only one column of 10 numbers that I wish to add to a new file so that I get 100 columns collected in one tab delimited file. I tried something like: foreach num (1 2 3) foreach? gawk -F '\t' '{$num=$1}1' OFS='\t' Eu9_10.2patienter/pospep_10.2patient$num >>... (5 Replies)
Discussion started by: Banni
5 Replies

4. UNIX for Dummies Questions & Answers

tab delimited file that is not tab delimited.

Hi Forum I have a tab delimited file that opens well in Openoffice calc (excel). But when I perform any operation in command line, it reads the file incorrectly. When I 'save As' the same file in office as tab delimited then it works fine. The file that I think is tab delimited is actually... (8 Replies)
Discussion started by: imlearning
8 Replies

5. Shell Programming and Scripting

Help with converting Pipe delimited file to Tab Delimited

I have a file which was pipe delimited, I need to make it tab delimited. I tried with sed but no use cat file | sed 's/|//t/g' The above command substituted "/t" not tab in the place of pipe. Sample file: abc|123|2012-01-30|2012-04-28|xyz have to convert to: abc 123... (6 Replies)
Discussion started by: karumudi7
6 Replies

6. Shell Programming and Scripting

How to make tab delimited file to space delimited?

Hi How to make tab delimited file to space delimited? in put file: ABC kgy jkh ghj ash kjl o/p file: ABC kgy jkh ghj ash kjl Use code tags, thanks. (1 Reply)
Discussion started by: jagdishrout
1 Replies

7. UNIX for Dummies Questions & Answers

Need help with tab delimited file in unix

Hi, I need urgent help with a tab delimited file I am working on. This is the file : TTTT|YYYYYYY|jargon-journal|MP0000000UID||"j1, j2, j3" I need th following output: TTTT|YYYYYYY|jargon-journal|MP0000000UID||ji TTTT|YYYYYYY|jargon-journal|MP0000000UID||j2... (8 Replies)
Discussion started by: rayarnab
8 Replies

8. UNIX for Dummies Questions & Answers

Need to convert a pipe delimited text file to tab delimited

Hi, I have a rquirement in unix as below . I have a text file with me seperated by | symbol and i need to generate a excel file through unix commands/script so that each value will go to each column. ex: Input Text file: 1|A|apple 2|B|bottle excel file to be generated as output as... (9 Replies)
Discussion started by: raja kakitapall
9 Replies

9. Shell Programming and Scripting

Tab Delimited file in loop

Hi, I have requirement to create tab delimited file with values coming from variables. File will contain only two columns separated by tab. Header will be added once. Values will be keep adding upon the script run. If values already exists then values will be replaced. I have done so... (1 Reply)
Discussion started by: sukhdip
1 Replies

10. UNIX for Beginners Questions & Answers

Replace a column in tab delimited file with column in other tab delimited file,based on match

Hello Everyone.. I want to replace the retail col from FileI with cstp1 col from FileP if the strpno matches in both files FileP.txt ... (2 Replies)
Discussion started by: YogeshG
2 Replies
FITCIRCLE(l)															      FITCIRCLE(l)

NAME
fitcircle - find mean position and pole of best-fit great [or small] circle to points on a sphere. SYNOPSIS
fitcircle [ xyfile ] -Lnorm [ -H[nrec] ] [ -S ] [ -V ] [ -: ] [ -bi[s][n] ] DESCRIPTION
fitcircle reads lon,lat [or lat,lon] values from the first two columns on standard input [or xyfile]. These are converted to cartesian three-vectors on the unit sphere. Then two locations are found: the mean of the input positions, and the pole to the great circle which best fits the input positions. The user may choose one or both of two possible solutions to this problem. The first is called -L1 and the second is called -L2. When the data are closely grouped along a great circle both solutions are similar. If the data have large dispersion, the pole to the great circle will be less well determined than the mean. Compare both solutions as a qualitative check. The -L1 solution is so called because it approximates the minimization of the sum of absolute values of cosines of angular distances. This solution finds the mean position as the Fisher average of the data, and the pole position as the Fisher average of the cross-products between the mean and the data. Averaging cross-products gives weight to points in proportion to their distance from the mean, analogous to the "leverage" of distant points in linear regression in the plane. The -L2 solution is so called because it approximates the minimization of the sum of squares of cosines of angular distances. It creates a 3 by 3 matrix of sums of squares of components of the data vectors. The eigenvectors of this matrix give the mean and pole locations. This method may be more subject to roundoff errors when there are thousands of data. The pole is given by the eigenvector corresponding to the smallest eigenvalue; it is the least-well represented factor in the data and is not easily estimated by either method. -L Specify the desired norm as 1 or 2, or use -L or -L3 to see both solutions. OPTIONS
xyfile ASCII [or binary, see -b] file containing lon,lat [lat,lon] values in the first 2 columns. If no file is specified, fitcircle will read from standard input. -H Input file(s) has Header record(s). Number of header records can be changed by editing your .gmtdefaults file. If used, GMT default is 1 header record. -S Attempt to fit a small circle instead of a great circle. The pole will be constrained to lie on the great circle connecting the pole of the best-fit great circle and the mean location of the data. -V Selects verbose mode, which will send progress reports to stderr [Default runs "silently"]. -: Toggles between (longitude,latitude) and (latitude,longitude) input/output. [Default is (longitude,latitude)]. Applies to geo- graphic coordinates only. -bi Selects binary input. Append s for single precision [Default is double]. Append n for the number of columns in the binary file(s). [Default is 2 input columns]. EXAMPLES
Suppose you have lon,lat,grav data along a twisty ship track in the file ship.xyg. You want to project this data onto a great circle and resample it in distance, in order to filter it or check its spectrum. Try: fitcircle ship.xyg -L2 project ship.xyg -Cox/oy -Tpx/py -S -pz | sample1d -S-100 -I1 > output.pg Here, ox/oy is the lon/lat of the mean from fitcircle, and px/py is the lon/lat of the pole. The file output.pg has distance, gravity data sampled every 1 km along the great circle which best fits ship.xyg SEE ALSO
gmt(1gmt), project(1gmt), sample1d(1gmt) 1 Jan 2004 FITCIRCLE(l)
All times are GMT -4. The time now is 09:46 PM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy