11-23-2010
so why don't you use the perl script directly in your own shell script?
10 More Discussions You Might Find Interesting
1. Shell Programming and Scripting
I am trying to write an awk program to reformat a data table and convert the date to julian time. I have all the individual steps working, but I am having some issues joing them into one program. Can anyone help me out? Here is my code so far:
# This is an awk program to convert the dates from... (4 Replies)
Discussion started by: climbak
4 Replies
2. Shell Programming and Scripting
I am new to Perl. I need to reformat a data file as the last part of a script I am working on. I am stuck on this.
Here is the current format:
CUSTOMER Filename 09/04/07-08:49
CUSTOMER Filename 09/04/07-08:52
CUSTOMER Filename 09/04/07-08:52
CUSTOMER2 Filename 09/04/07-08:49
CUSTOMER2... (3 Replies)
Discussion started by: flood
3 Replies
3. Shell Programming and Scripting
Can anyone help me with a shell script that can do the following:
I have a data in fasta format (first line is the header, followed by a sequence of characters).
>ALLLY
GGCCCCTCGAGCCTCGAACCGGAACCTCCAAATCCGAGACGCTCTGCTTATGAGGACCTC
GAAATATGCCGGCCAGTGAAAAAATCTTGTGGCTTTGAGGGCTTTTGGTTGGCCAGGGGC... (5 Replies)
Discussion started by: manishabh
5 Replies
4. Shell Programming and Scripting
input file:
hsa-miR-4726-5p
Score
hsa-miR-483-5p
Score
hsa-miR-125b-2*
Score
hsa-miR-4492
hsa-miR-4508
hsa-miR-4486
Score
Desired output file:
hsa-miR-4726-5p Score hsa-miR-483-5p Score hsa-miR-125b-2* Score hsa-miR-4492 hsa-miR-4508 hsa-miR-4486 Score ... (6 Replies)
Discussion started by: perl_beginner
6 Replies
5. Shell Programming and Scripting
Input file:
58227131
50087390
57339526
40578034
65348841
55614853
64363217
44178559
Desired output file:
58227131 50087390
57339526 40578034
65348841 55614853
64363217 44178559
Command that I try: (4 Replies)
Discussion started by: perl_beginner
4 Replies
6. Shell Programming and Scripting
I am helping my wife set up a real estate site and I am starting to integrate MLS listings. We are using a HostGator level 5 VPS running CentOS and have full root and SSH access to the VPS.
Thus far I have automated the daily FTP download of listings from our MLS server using a little sh script.... (4 Replies)
Discussion started by: Chicago_Realtor
4 Replies
7. Shell Programming and Scripting
Input file:
dependent general_process
dependent general_process
regulation general_process
- -
template component
food component
binding data_rearrangement
binding data_rearrangement
specific_activity data_rearrangement
- ... (7 Replies)
Discussion started by: cpp_beginner
7 Replies
8. Shell Programming and Scripting
Input file:
bv|111259484|pir||T49736_real_data
bv|159484|pir||T9736_data_figure
bv|113584|prf|T4736|truth
bv|113584|pir||T4736_truth
Desired output:
bv|111259484|pir|T49736|real_data
bv|159484|pir|T9736|data_figure
bv|113584|prf|T4736|truth
bv|113584|pir|T4736|truth
Once the... (8 Replies)
Discussion started by: perl_beginner
8 Replies
9. Shell Programming and Scripting
Input file
4CL1 O24145 CoA1
4CL1 P31684 CoA1
4CL1 Q54P77 CoA_1
73 O36421 Unknown
4CL3 Q9S777 coumarate
4CL3 Q54P79 coumarate
4CL3 QP7932 coumarate
Desired output result
4CL1 O24145#P31684 CoA1
4CL1 Q54P77 CoA_1
73 O36421 Unknown
4CL3 Q9S777#Q54P79#QP7932 coumarate
I... (5 Replies)
Discussion started by: perl_beginner
5 Replies
10. Shell Programming and Scripting
The below awk improved bu @MadeInGermany, works great as long as the input file has data in it in the below format:
input
chrX 25031028 25031925 chrX:25031028-25031925 ARX 631 18
chrX 25031028 25031925 chrX:25031028-25031925 ARX 632 14... (3 Replies)
Discussion started by: cmccabe
3 Replies
SCRIPT(1) BSD General Commands Manual SCRIPT(1)
NAME
script -- make typescript of terminal session
SYNOPSIS
script [-akq] [-t time] [file [command ...]]
DESCRIPTION
The script utility makes a typescript of everything printed on your terminal. It is useful for students who need a hardcopy record of an
interactive session as proof of an assignment, as the typescript file can be printed out later with lpr(1).
If the argument file is given, script saves all dialogue in file. If no file name is given, the typescript is saved in the file typescript.
If the argument command is given, script will run the specified command with an optional argument vector instead of an interactive shell.
The following options are available:
-a Append the output to file or typescript, retaining the prior contents.
-k Log keys sent to program as well as output.
-q Run in quiet mode, omit the start and stop status messages.
-t time
Specify time interval between flushing script output file. A value of 0 causes script to flush for every character I/O event. The
default interval is 30 seconds.
The script ends when the forked shell (or command) exits (a control-D to exit the Bourne shell (sh(1)), and exit, logout or control-D (if
ignoreeof is not set) for the C-shell, csh(1)).
Certain interactive commands, such as vi(1), create garbage in the typescript file. The script utility works best with commands that do not
manipulate the screen. The results are meant to emulate a hardcopy terminal, not an addressable one.
ENVIRONMENT
The following environment variable is utilized by script:
SHELL If the variable SHELL exists, the shell forked by script will be that shell. If SHELL is not set, the Bourne shell is assumed. (Most
shells set this variable automatically).
SEE ALSO
csh(1) (for the history mechanism).
HISTORY
The script command appeared in 3.0BSD.
BUGS
The script utility places everything in the log file, including linefeeds and backspaces. This is not what the naive user expects.
It is not possible to specify a command without also naming the script file because of argument parsing compatibility issues.
When running in -k mode, echo cancelling is far from ideal. The slave terminal mode is checked for ECHO mode to check when to avoid manual
echo logging. This does not work when in a raw mode where the program being run is doing manual echo.
BSD
January 22, 2004 BSD