[maker-devel] Problem with installation

[Panos Ioannidis]

Hello Daniel and Carson,

Thank you both for your comments.

Carson, I gave it a lot more than 30 seconds. I gave it about 5 minutes but
still nothing happens.

Daniel, the same is true for maker -CTL; it appears as if it's doing
something, but if you give a top you'll see that the CPU usage is ALWAYS 0%.

Three things that might be helpful:
1. Ctrl-C doesn't work for killing maker; you have to give "kill -9 <PID>"
2. when I give top I see that there are two maker processes running. Is
this normal?
3. When I press Ctrl-C, the resources in top (labeled VIRT, RES and SHR - I
guess that's memory) for one of the two maker processes go to zero, but it
doesn't go away.





On Wed, May 28, 2014 at 4:32 PM, Carson Holt <carsonhh at gmail.com> wrote:

> Perl is a scripting language rather than a compiled language, and one
> thing that happens when you first use a new module or script Is that the
> interpreter follows the dependency tree validating that everything
> executes/loads correctly.  Since you installed a number of dependencies and
> MAKER itself, the first time you launch MAKER Perl has to do this check on
> the dependency tree.  This only happens the first time, and after that Perl
> remembers it already ran the check so the dependencies and MAKER will just
> start from then on.  Normally this proccess takes less than 30 seconds;
> however, on some systems (especially clusters) there may a  heavy IO burden
> and this process can take a while.  For example does it take a moment for
> 'ls -al' to return in some directories rather than returning
> instantaneously like it is supposed to?  If it takes 3 seconds to return or
> example, then each dependency check may take up to 3 seconds.  If you just
> installed a bunch of new perl modules then there may be a hundred or more
> dependencies that may have to be validated for the first time.
>
> --Carson
>
>
>
> From: Daniel Ence <dence at genetics.utah.edu>
> Date: Wednesday, May 28, 2014 at 7:29 AM
> To: Panos Ioannidis <panos.ioannidis at gmail.com>
> Cc: "<maker-devel at yandell-lab.org>" <maker-devel at yandell-lab.org>
> Subject: Re: [maker-devel] Problem with installation
>
> Hi Panos, When you go to the src directory and type "./Build status", what
> message do you get? Also, what version of maker are you running?
>
> Thanks,
> Daniel
>
>
> Daniel Ence
> Graduate Student
> dence at genetics.utah.edu
> Eccles Institute of Human Genetics
> University of Utah
> 15 North 2030 East, Room 2100
> Salt Lake City, UT 84112-5330
>
> On May 28, 2014, at 1:28 AM, Panos Ioannidis <panos.ioannidis at gmail.com>
>  wrote:
>
> Hello Maker community,
>
> I just finished installing Maker and even though everything seems to be
> okay, when I give
>
> ./maker -h
>
> or
>
> ./maker
>
> the program apparently hangs without giving any output or warning or error.
>
> Just so you know, I have installed all dependencies (Perl libraries and
> third-party programs) and am executing from bin/, not src/bin/.
>
> Any ideas?
>
> Panos
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