Perl is a high-level, general-purpose, interpreted, dynamic programming language. It was originally developed by Larry Wall as a general-purpose Unix scripting language to make report processing easier, over a period with support from open source community, it has evolved and matured to be used for ...

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0
votes
1answer
158 views

Issue with installing CPAN XML::RSS

I'am running debian on my server and want to install the CPAN module XML::RSS. But I get this error: http://pastebin.com/5syPaQfe (Pastebin because it's really long) I'am trying to install ...
2
votes
1answer
2k views

Email picture attachments as inline along with the email body

I'm right now working with a script for emailing attachment (.png pics). Since I'm using mutt command with -a option, the email is sent as a mail attachment. I want these .png pictures to be mailed ...
2
votes
4answers
978 views

Replace all but a set of characters in a file with newline

how to delete all characters in file except numbers and "." , each word (numbers/dot) should be in new line in file see example2 the solution can be with sed or awk or ksh syntax remark - ...
0
votes
3answers
72 views

Fixing header and print

I have header starting with '>' and I want fix the header by keeping first word and removing other shown as in output.txt and print it input.txt >AGAJ01065549.1 ...
0
votes
3answers
891 views

Split and print

I have tab-demlimted text file with 50,000lines. I want to split the first column and print as shown in output.txt Input.txt rt|371443144|mb|MN556661.1| 2200443 A rt|371443344|mb|MN556645.1| ...
5
votes
2answers
2k views

Replacing missing value blank space with zero

I have input.txt tab-delimited text file around 30K lines, I would like to check each row (s1..s30K lines) for missing value (i.e blank space) and fill the missing value with zero value.See out.txt ...
2
votes
2answers
2k views

Fetch values from plist file on Linux

I have bash script which was written for OS X and now ported to Linux. I don't have access to the Linux box. The bash script would read values from plist files using the defaults read and PlistBuddy ...
0
votes
1answer
998 views

/bin/sh: ./check-dependencies.pl: not found — but check-dependencies.pl exists!

I'm trying to build Moses, but when I run make I get the following output: minakshi@minakshi-Vostro-3500:~/Desktop/working-dir/moses/scripts$ make release # Compile the parts make all make[1]: ...
6
votes
4answers
9k views

invalid SSL_version specified at /usr/share/perl5/IO/Socket/SSL.pm line 332

Since I upgraded my PC from (k)ubuntu 12.04 to 12.10 I receive this error message when trying to send an email using sendemail. Installing an older version of IO::Socket::SSL is not an option. I ...
1
vote
1answer
215 views

Combining files with 4 columns each, into 4 files for each column [closed]

So I have a bunch of text files which look like this: T1 r1 a b c d r2 d e f g ... T2 r1 h i j k r2 l m n o ... And I want to make FOUR different text files in the following ...
1
vote
5answers
215 views

frequency of occurence

I have a tab-delimited text file, that is around 3K lines long. I want to calculate frequency of data appearing in it, in 10,000 ranges. Input.txt Price 500 1500 10001 15000 17000 ...
2
votes
4answers
196 views

Output some sections of a text file [closed]

I have input like the following: >gi|481443199|gb|MH447771.1| 49 0 0 0 1 50 0 0 1 0 >gi|987078004|gb|RTYJ01067061.1| 412 0 0 1 ...
1
vote
1answer
148 views

problem occur during installation of moses scripts [duplicate]

Possible Duplicate: /bin/sh: ./check-dependencies.pl: not found — but check-dependencies.pl exists! I obtain an error when I compile moses-script, which reads as follows: ...
3
votes
3answers
1k views

Average rows with same first column

Given a file with two columns: Id ht 510 69 510 67 510 65 5l0 62 510 59 601 29 601 26 601 21 601 20 I need a way to coalesce all rows with the same ID into one that has an average height. In this ...
3
votes
2answers
215 views

Bash error message on a mac using Perl

I'm trying to run basic functions on Perl (Mac) but I get the same error message all the time. I managed to run programs like the simple 'hello, world' example. They work fine: $ perl -w hello.pl ...
2
votes
3answers
4k views

Extracting column from comma separated text

I have a long comma-separated delimited file with 20K lines. Here's a sample: "","id","number1","number2","number3","number4","number5","number6","number7" ...
0
votes
1answer
94 views

How to get rows between lines?

I have a perl oneliner: echo -e 'sla\ndfjAAAAk\nsaljdfla\nsjdfBBBBsadf\njasdf' | perl -E 'my $_ = do { local $/; <> }; say join qq!\n!, m!\QAAAA\E\K(.*?)(?=\QBBBB\E)!gs' k saljdfla sjdf it ...
10
votes
4answers
1k views

Why is Perl installed by default with most Linux distributions?

Just curious. The title says it all: Why is Perl installed by default with most Linux distributions?
1
vote
3answers
1k views

Debian Wheezy and perl modules installed into /root not system

I have small problem cause everytime i issue cpan YAML or try to install any perl module it install's it inito /root/perl5 and with this any other user cannot use modules that I've installed as a ...
4
votes
6answers
358 views

What is the easiest way to check if column A and B values goes both ways with AWK? [closed]

What is the easiest way to check if column A and B values goes both ways? Output to check: Mike John John Mike Pamela Barbara Barbara Pamela Mike Paul Roger Paul Desired output Mike <-> ...
1
vote
2answers
605 views

What scripting language or platform to use for web page downloads and screen interaction? [duplicate]

Possible Duplicate: Does anybody here have experience in automating some tasks in web applications using curl? Here is what I need to do? Wondering what platform is most suited - easy to ...
2
votes
3answers
116 views

Need to parse a double entry table with two pairs

I have this two-entry table resulting from a program output: Variable1 : Value1 Variable2 : Value2 Variable3 : Value3 Variable4 : Value4 Variable5 : Value5 Variable6 : Value6 ...
4
votes
2answers
241 views

Trying to do arithmetic in Perl rename tool (Debian)

Supposed I have five mp3 files: 01-trackfoo.mp3 02-trackbar.mp3 03-trackbaz.mp3 04-trackabc.mp3 05-trackxyz.mp3 Now I give a quick listen to the files (just mplayer on console will do the trick) ...
0
votes
2answers
204 views

Getting data from matching list

list.txt GETID_17049_knownids_1/2_Confidence_0.625_Length_2532 GETID_9248_knownids_6/10_Confidence_0.439_Length_2474 GETID_11084_knownids_3/3_Confidence_0.600_Length_1451 ...
1
vote
4answers
4k views

sed/awk/perl - delete spaces between two strings/words + solaris 10

please advice how to delete the spaces between "=" to the value/string ( after the "=" character) , should be implemented by awk or sed or perl command and command must to fit for solaris OS , ( ...
4
votes
2answers
139 views

Column mismatch and substituting

input.txt (tab-delimted) TTTTOTTT00000000008 RTTTT899 5.00E-28 TTTTOTTT00000000046 RTTTWRR 3.00E-31 TTTTOTTT00000000051 2.00E-11 TTTTOTTT00000000051 7.00E-12 TTTTOTTT00000000054 ...
2
votes
2answers
310 views

Get row data for non-matching column values

I want to read the file (1600 rows) and get rows only the columns have different values (sno1, sno2, sno3 & sno4-should be not be equal value) and it should be above 50%.The example of output ...
3
votes
2answers
326 views

Print row contain maximum and minimum value

I need to read the file (contains 16K rows)and print the entire row if any of columns and all columns contains max value (100) and all columns contain min value (0).The ouput example is given ...
0
votes
1answer
169 views

Bugzilla email_in.pl script will take 111 hours to complete - how can I change that?

I have an old Bug tracking system, with about 20k bugs. We have installed a new bugzilla system, and part of the initiation will be to import all the bugs from the old system to the new. I am able to ...
3
votes
1answer
2k views

Where are the command-line options to perl documented?

On StackExchange I came across a command that looked like this: perl -pe ... Curious what the -pe options meant, I did man perl. This is the synopsis of that man page: perl [ -sTtuUWX ] [ ...
2
votes
1answer
220 views

Why does this simple Perl client not work?

I am fairly new to IPC with sockets and expect this issue is a simple one to resolve. I'm trying to understand why I cannot get this example script from perldoc perlipc to run on my Ubuntu setup: ...
0
votes
1answer
113 views

How do I get bcvi installed and working (with Cygwin and Perl 5.8.8)?

I'm trying to install bcvi (under Cygwin), and there are apparently no directions that apply to this setup. The directions at http://sshmenu.sourceforge.net/articles/bcvi/#installation state that ...
0
votes
2answers
402 views

Perl-Minimum & Maximum value [closed]

input file Xm_ABL1 Geneious extracted region 1 168 . + . Name=Extracted region from gi|371443098|gb|JH556762.1|;Extracted interval="3512970000000 -> 3514640000000" Xm_ABL1 Geneious ...
1
vote
2answers
489 views

Perl piping some out of script and some to the screen

How do I pipe some output to screen and some other selected output, out of the Perl script?
2
votes
5answers
2k views

Perl script, do cd on terminal

In Script to change current directory (cd, pwd) it is shown how to run a bash script that changes terminal directory. But how do i run a perl script that runs a bash script that changes terminal ...
2
votes
1answer
176 views

Perl- Adding underscore and sorting rows

As I am biologist and new to perl, I would like to get help of perl expert cat input.txt ##gff-version 2 ##source-version geneious 5.6.3 gi371443188gbJH5566721_extraction_reversed Geneious CDS ...
4
votes
2answers
699 views

Installing CPAN dists not in the Arch repos

There's a lot of CPAN distributions in the Arch repositories, but not all of them. How should I handle a situation when I need a dist that is not already in the repos? Should I use the cpan program ...
2
votes
1answer
168 views

perl-get input, check conditions

cat input1.txt ##gff-version 2 ##source-version geneious 5.6.4 Xm_ABL1 Geneious CDS 1 168 . + . Name=Xm_ABL1;created by=User;modified ...
0
votes
1answer
611 views

Extract value from different column and replace in another column

I am a biologist, I need one more help in text file editing. I would like to get the help of computer experts ##fsdfsd ##sdd-ver gen 5.5.7 Xm Gen CDS 1 148 . + . ...
2
votes
1answer
227 views

text processing-perl

I am a biologist. I would like help of computer experts to help in text file editing. Here is what the input file looks like: ##dsfsd2 ##sdf-sdf sasg 5.6.3 gi34_ex Gen CDS 161 317 . ...
3
votes
2answers
411 views

Running jobs in parallel on Ubuntu - I/O contention differences between Perl and Java

Apologies if this is off topic - it concerns the relative efficiencies of running I/O-heavy Perl/Java scripts in parallel on a Ubuntu system. I have written two simple versions of a file copy script ...
4
votes
2answers
6k views

Compare two file columns

I have long text files with space-delimited fields: cat file1.txt Id leng sal mon 25671 34343 56565 5565 44888 56565 45554 6868 23343 23423 26226 6224 77765 88688 87464 6848 66776 23343 63463 ...
3
votes
2answers
421 views

Parsing a text-file table and aggregating information

I have long text file with the following columns, space-delimited: Id Pos Ref Var Cn SF:R1 SR He Ho NC cm|371443199 22 G A R Pass:8 0 1 0 0 ...
-2
votes
3answers
686 views

how to check for disk in use on rhel

How to check if a disk is in use? If in use, How to check free, used space before I can start using it? I'm trying this in Perl and Any help is appreciated.
0
votes
1answer
136 views

knock on Scientific Linux 6.1? (perl script for knocking?)

I have an OpenWrt router where I installed knockd: knockd.conf [options] logfile = /var/log/knockd.log [openSSH] sequence = 7000,8000,9000 seq_timeout = 5 command = ...
2
votes
2answers
1k views

How to do a regex search in a UTF-16LE file while in a UTF-8 locale?

EDIT: Due to a comment Warren Young made, it made me realize that I was not clear on one quite relevant point. My search string is already in UTF-16LE order (not in Unicode Codepoint order, which is ...
2
votes
2answers
328 views

find command for the newest 500 files in a directory tree and also be POSIX compliant

I am looking for a single line shell script or unix command to find the newest 500 files in a directory. Major constraints are it should be POSIX complaint and the directory can have tons of files.
1
vote
1answer
1k views

Connect to a remote mysql server with bash php or perl

What is the best and lowest resource way to connect to a remote mysql server (server1.example.com) and execute queries like INSERT into SERVICES (user, id) ($user, $id) from server2.example.com? ...
2
votes
3answers
595 views

How can I turn ugly output into pretty, useful information?

How can I turn this ugly output into pretty, useful data? The output: /* ---------- TA#box#AbC_p ---------- */ insert_job: TA#box#AbC_p job_type: a #owner: bob permission: gx date_conditions: 1 ...
-5
votes
1answer
324 views

Linux: create list of text with multiple operators [closed]

I want to make a list like this: 7785237_770x770_de3b540dc13ed50023d17854513b40aa07e50a6a 732308_770x770_ec5c344c0114011a5306b31142ff9b001813f6d6 ...