Create tab-delimited file of outputs - Perl


 
Thread Tools Search this Thread
Top Forums Shell Programming and Scripting Create tab-delimited file of outputs - Perl
# 1  
Old 04-06-2010
Create tab-delimited file of outputs - Perl

Title is very broad, but here's an outline of what I have done so far:

- I have multiple subdirectories containing multiple *.fna files of DNA sequences
- I've been able to traverse these subdirectories and create a tab-delimited text file (i.e. the association file) that shows the contents of each folder, as such:

Organism A 1.fna
Organism B 2.fna 3.fna 4.fna
Organism C 5.fna 6.fna

Here is what I would like to accomplish:
- I would like to loop through every file, perform a task to its contents, and write this data into a different tab-delimited file. I would like to utilize the association file to locate each of the files to perform a task, but I have no clue to how to get started.

Any help is appreciated in advance! Thank you!!!
# 2  
Old 04-06-2010
Open the association file and split each line into an array using 'tab' as the delimiter. Starting with array element @_[2] on each line, open the referenced file and do work, then write the output to a second file.
Login or Register to Ask a Question

Previous Thread | Next Thread

10 More Discussions You Might Find Interesting

1. 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

2. 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

3. 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

4. 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

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. 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

7. Shell Programming and Scripting

create outputs from other command outputs

hi friends, The code: i=1 while do filename=`/usr/bin/ls -l| awk '{ print $9}'` echo $filename>>summary.csv #Gives the name of the file stored at column 9 count=`wc -l $filename | awk '{print $1}'` echo $count>>summary.csv #Gives just the count of lines of file "filename" i=`expr... (1 Reply)
Discussion started by: rajsharma
1 Replies

8. 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

9. UNIX for Dummies Questions & Answers

Trim String in 3rd Column in Tab Delimited File...SED/PERL/AWK?

Hey Everybody, I am having much trouble figuring this out, as I am not really a programmer..:mad: Datafile.txt Column0 Column1 Column2 ABC DEF xxxGHI I am running using WGET on a cronjob to grab a datafile, but I need to cut the first three characters from... (6 Replies)
Discussion started by: rickdini
6 Replies

10. 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
Login or Register to Ask a Question