Go Premium for a chance to win a PS4. Enter to Win


$variable passing

Posted on 2009-05-10
Medium Priority
Last Modified: 2012-05-06
Sorry, it's probably a simple, straight forward question, but one i haven't found the answer to yet.

I'm basically trying to pass six variables created from one script "ORFfinder.pl", to another program "proteindigest.pl". I'd assume it'd be a similar method to passing a variable to a subroutine? if it is at all possible?

Thanks in advance.
Question by:StephenMcGowan
  • 3
  • 3
LVL 48

Expert Comment

ID: 24350166
How are you calling proteindigest.pl?

LVL 85

Expert Comment

ID: 24350189
Do you get to write proteindigest.pl?
If not, how does it currently like to receive variables?

Author Comment

ID: 24350212
Hi ozo,

Yeah basically what i'm doing is from the programme i wrote before with the longest dna sequences ($longorf1, $longorf2 etc etc), i'm now trying to pass these to a script "proteindigest.pl" which will then call a sub-routine and convert them from dna to protein sequence before doing some more stuff to the sequences.

If i can't transfer the variables from one script to another i should be ok with creating a sub-routine to carry out the same function. Just not sure if script.pl -> script.pl is possible or not?
Concerto's Cloud Advisory Services

Want to avoid the missteps to gaining all the benefits of the cloud? Learn more about the different assessment options from our Cloud Advisory team.

LVL 85

Accepted Solution

ozo earned 200 total points
ID: 24350228
if proteindigest.pl starts with

then you can call
system 'proteindigest.pl', $var1,$var2,$var3,$var4,$var5,$var6;

Author Comment

ID: 24350294
ok, so at the very end of ORFfinder.pl i've put:

system 'proteindigest.pl', $longorf1,$longorf2,$longorf3,$longorf4,$longorf5,$longorf6;

and for proteindigest.pl:

# Initialise variables


but receive the error message:

Can't exec "proteindigest.pl": No such file or directory at ORFfinder.pl line 77.

is there a way of telling it to automatically look in the same directory, if both scripts are in the same directory?
LVL 85

Expert Comment

ID: 24350311
if proteindigest.pl is in the current working directory.
how was ORFfinder.pl invoked?

Author Comment

ID: 24350333
Thanks ozo,

It's worked a charm.. I had it as ./'proteindigest.pl'; with ./ outside the quotations.

Featured Post

Free Tool: IP Lookup

Get more info about an IP address or domain name, such as organization, abuse contacts and geolocation.

One of a set of tools we are providing to everyone as a way of saying thank you for being a part of the community.

Question has a verified solution.

If you are experiencing a similar issue, please ask a related question

There are many situations when we need to display the data in sorted order. For example: Student details by name or by rank or by total marks etc. If you are working on data driven based projects then you will use sorting techniques very frequently.…
In the distant past (last year) I hacked together a little toy that would allow a couple of Manager types to query, preview, and extract data from a number of MongoDB instances, to their tool of choice: Excel (http://dilbert.com/strips/comic/2007-08…
Explain concepts important to validation of email addresses with regular expressions. Applies to most languages/tools that uses regular expressions. Consider email address RFCs: Look at HTML5 form input element (with type=email) regex pattern: T…
Six Sigma Control Plans

876 members asked questions and received personalized solutions in the past 7 days.

Join the community of 500,000 technology professionals and ask your questions.

Join & Ask a Question