[R-sig-Geo] [R-sig-hpc] Out-of-control SOCK/PSOCK cluster

[Jonathan Greenberg]

Hi Truc:

If I'm understanding the code, you need to get the PID from a cluster
call BEFORE it gets out of control, correct?  Is there a way to get
the PIDs from the cluster object running on the master process
directly (e.g. a parallel PSOCK cluster)?  I see it prints the PID (I
suppose I can parse the text), but is there a "cleaner" way to get the
PIDs from this object?

--j

On Tue, Feb 25, 2014 at 3:02 PM, Truc Nguyen Trung
<Truc.Trung at igs.uib.no> wrote:
> Hi again !
> Sorry I should explain a little more clearly about your problem.
> 1 Try to download package called "Haplin"
> 2. library(Haplin)
>     write   haplinSlide
> By reading line by line you will see how we do it
>
> ################################################
> if (.para == "parallel") {
>             w <- makeCluster(spec = cpus, outfile = slaveOutfile)
>             .plat <- .Platform$OS.type
>             if (.plat == "windows")
>                 .cmds <- "taskkill /pid "
>             if (.plat == "unix")
>                 .cmds <- "kill "
>             .pids <- sapply(w, function(x) {
>                 parallel:::sendCall(x, eval, list(quote(Sys.getpid())))
>                 parallel:::recvResult(x)
>             })
>             .cmds <- paste(.cmds, .pids, sep = "")
>             on.exit({
>                 if (!missing(slaveOutfile)) sink(file = slaveOutfile,
>                   append = T)
>                 sapply(.cmds, system)
>                 for (.w in w) {
>                   try(parallel:::postNode(.w, "DONE"), silent = T)
>                   try(parallel:::closeNode(.w), silent = T)
>                 }
>                 if (!missing(slaveOutfile)) sink()
>             })
>         }
> #####################################################
> We have developed a Haplin GUI which you can see the sock PID .....
> I hope this can help you.
> Truc
> ________________________________________
> From: jgrn307 at gmail.com [jgrn307 at gmail.com] on behalf of Jonathan Greenberg [jgrn at illinois.edu]
> Sent: Tuesday, February 25, 2014 7:17 PM
> To: Truc Nguyen Trung
> Subject: Re: [R-sig-hpc] Out-of-control SOCK/PSOCK cluster
>
> Truc:
>
> Did you send this to the wrong person?  I'm not sure what that
> software has to do with killing parallel workers.
>
> --j
>
> On Tue, Feb 25, 2014 at 12:09 PM, Truc Nguyen Trung
> <Truc.Trung at igs.uib.no> wrote:
>> Please take a look at http://haplin.fhi.no.
>> I think it may help ....
>> Truc
>> ________________________________________
>> From: r-sig-hpc-bounces at r-project.org [r-sig-hpc-bounces at r-project.org] on behalf of Jonathan Greenberg [jgrn at illinois.edu]
>> Sent: Tuesday, February 25, 2014 7:00 PM
>> To: r-sig-hpc at r-project.org
>> Subject: [R-sig-hpc] Out-of-control SOCK/PSOCK cluster
>>
>> R-sig-hpc'ers:
>>
>> I was curious if there are any "safe" ways to kill an out-of-control
>> SOCK/PSOCK workers on Windows/Macs.  Thus far, on a Windows box I've
>> been having to force-quit them from the task manager or by running a
>> command line "Taskkill".  On Mac, I use a kill -9 or the Activity
>> Monitor.  I'd like to write an R script to do this, but right now all
>> I can do is kill ALL R workers via name matching, which may kill
>> non-cluster R instances.  Is there a way to get the PIDs or is there
>> an existing function to safely kill a cluster, specifically one
>> created via the parallel package?  Cheers!
>>
>> --j
>>
>>
>> --
>> Jonathan A. Greenberg, PhD
>> Assistant Professor
>> Global Environmental Analysis and Remote Sensing (GEARS) Laboratory
>> Department of Geography and Geographic Information Science
>> University of Illinois at Urbana-Champaign
>> 259 Computing Applications Building, MC-150
>> 605 East Springfield Avenue
>> Champaign, IL  61820-6371
>> Phone: 217-300-1924
>> http://www.geog.illinois.edu/~jgrn/
>> AIM: jgrn307, MSN: jgrn307 at hotmail.com, Gchat: jgrn307, Skype: jgrn3007
>>
>> _______________________________________________
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>
>
>
> --
> Jonathan A. Greenberg, PhD
> Assistant Professor
> Global Environmental Analysis and Remote Sensing (GEARS) Laboratory
> Department of Geography and Geographic Information Science
> University of Illinois at Urbana-Champaign
> 259 Computing Applications Building, MC-150
> 605 East Springfield Avenue
> Champaign, IL  61820-6371
> Phone: 217-300-1924
> http://www.geog.illinois.edu/~jgrn/
> AIM: jgrn307, MSN: jgrn307 at hotmail.com, Gchat: jgrn307, Skype: jgrn3007



-- 
Jonathan A. Greenberg, PhD
Assistant Professor
Global Environmental Analysis and Remote Sensing (GEARS) Laboratory
Department of Geography and Geographic Information Science
University of Illinois at Urbana-Champaign
259 Computing Applications Building, MC-150
605 East Springfield Avenue
Champaign, IL  61820-6371
Phone: 217-300-1924
http://www.geog.illinois.edu/~jgrn/
AIM: jgrn307, MSN: jgrn307 at hotmail.com, Gchat: jgrn307, Skype: jgrn3007