hello all
im trying to use in sun Solaris the information received from the top command
now i several machines that dont have install the top program so when im running the script im geting error
saying after im running this code :
set MemoryInfo = `top | grep Memory`
if (... (2 Replies)
i installed x windows redhat linux 9.0 in my pc.
but the problem is when i run cc command for c programme .....bash:cc: command not found printed ...........i set the path for bash ............with the help of PATH=$PATH....................still it is not working .........please guide me. (4 Replies)
Hi guys,
I do apologise if this question has been asked before. I am currently running Solaris 10 on a x86 architecture. Now, the problem I am having relates to the issuing of commands, for example if I am trying to find out the ipaddress of the machine I would issue the command 'ipconfig -a |... (2 Replies)
I'm using Terminal in MAC OS X, and new to this.
I don't know what happened to the path. I always get "command not found".
For example, this is some of what I get:
-bash: ls: command not found
-bash: touch: command not found
What should I do to return the terminal to normal?
... (0 Replies)
I have installed Solaris recently. I was doing "for file in *.c; ...." at the command prompt, it says for: command not found. I tried changing shells, but still wouldn't work.
Any ideas? (7 Replies)
I created a script that I need to run from time to time, but get this error message. To get it working again I run this command from time to time:
export PATH="$PATH:~/scripts"
I put all my automated scripts in the /scripts directory and would like to run my scripts from any directory... (5 Replies)
Use and complete the template provided. The entire template must be completed. If you don't, your post may be deleted!
1. The problem statement, all variables and given/known data:
Trying to run script but everytime I do I get teh following error message
line 4:
I have attempted... (5 Replies)
I am running the export command within a view to use that value inside my build script. But while executing it it is saying "export command not found"
My code is as follows:
--------------------------
#!/bin/sh
user="test"
DIR="/bldtmp/"$user
VIEW="test.view1"
echo "TMPDIR before export... (4 Replies)
Hi Experts,
I am very much new to linux scripting, I am currently working on reducing my manual work and hence writing a script to automate few task.
I am running below command to snmpwalk the router..
snmpwalk -v 3 -u WANDL_SU -a MD5 -A vfipmpls -x DES -X VfIpMpLs -l authPriv... (19 Replies)
Hi all,
ar command not found on Solaris 10 version.
We can execute under ./ar command /usr/ccs/bin directory.
However, we want to execute ar command anywhere.
We add to /usr/ccs/bin entry under /etc/profile file shown as below.
umask 002
trap 2 3
... (2 Replies)
Discussion started by: ziosnim
2 Replies
LEARN ABOUT DEBIAN
compstruct
compstruct(1) Biosquid Manual compstruct(1)NAME
compstruct - calculate accuracy of RNA secondary structure predictions
SYNOPSIS
compstruct [options] trusted_file test_file
DESCRIPTION
compstruct evaluates the accuracy of RNA secondary structure predictions, at the on a per-base-pair basis. The trusted_file contains one
or more sequences with trusted (known) RNA secondary structure annotation. The test_file contains the same sequences, in the same order,
with predicted RNA secondary structure annotation. compstruct reads the structures and compares them, and calculates both the sensitivity
(the number of true base pairs that are correctly predicted) and the specificity (positive predictive value, the number of predicted base
pairs that are true). Results are reported for each individual sequence, and in summary for all sequences together.
Both files must contain secondary structure annotation in WUSS notation. Only SELEX and Stockholm formats support structure markup at
present.
The default definition of a correctly predicted base pair is that a true pair (i,j) must exactly match a predicted pair (i,j).
Mathews, Zuker, Turner and colleagues (see: Mathews et al., JMB 288:911-940, 1999) use a more relaxed definition. Mathews defines "correct"
as follows: a true pair (i,j) is correctly predicted if any of the following pairs are predicted: (i,j), (i+1,j), (i-1,j), (i,j+1), or
(i,j-1). This rule allows for "slipped helices" off by one base. The -m option activates this rule for both sensitivity and for speci-
ficity. For specificity, the rule is reversed: predicted pair (i,j) is considered to be true if the true structure contains one of the five
pairs (i,j), (i+1,j), (i-1,j), (i,j+1), or (i,j-1).
OPTIONS -h Print brief help; includes version number and summary of all options, including expert options.
-m Use the Mathews relaxed accuracy rule (see above), instead of requiring exact prediction of base pairs.
-p Count pseudoknotted base pairs towards the accuracy, in either trusted or predicted structures. By default, pseudoknots are ignored.
Normally, only the trusted_file would have pseudoknot annotation, since most RNA secondary structure prediction programs do not pre-
dict pseudoknots. Using the -p option allows you to penalize the prediction program for not predicting known pseudoknots. In a case
where both the trusted_file and the test_file have pseudoknot annotation, the -p option lets you count pseudoknots in evaluating
the prediction accuracy. Beware, however, the case where you use a pseudoknot-capable prediction program to generate the test_file,
but the trusted_file does not have pseudoknot annotation; in this case, -p will penalize any predicted pseudoknots when it calcu-
lates specificity, even if they're right, because they don't appear in the trusted annotation; this is probably not what you'd want
to do.
EXPERT OPTIONS --informat <s>
Specify that the two sequence files are in format <s>. In this case, both files must be in the same format. The default is to
autodetect the file formats, in which case they could be different (one SELEX, one Stockholm).
--quiet
Don't print any verbose header information.
SEE ALSO afetch(1), alistat(1), compalign(1), revcomp(1), seqsplit(1), seqstat(1), sfetch(1), shuffle(1), sindex(1), sreformat(1), stranslate(1),
weight(1).
AUTHOR
Biosquid and its documentation are Copyright (C) 1992-2003 HHMI/Washington University School of Medicine Freely distributed under the GNU
General Public License (GPL) See COPYING in the source code distribution for more details, or contact me.
Sean Eddy
HHMI/Department of Genetics
Washington University School of Medicine
4444 Forest Park Blvd., Box 8510
St Louis, MO 63108 USA
Phone: 1-314-362-7666
FAX : 1-314-362-2157
Email: eddy@genetics.wustl.edu
Biosquid 1.9g January 2003 compstruct(1)