[Swift-user] MODIS demo

Wed May 9 19:00:58 CDT 2012

Ah yes, imagemagick.  No I do not.  I shall do that.  Good idea.  Thank
you, Jonathan.

I predict that half of the jobs will work once I do that.  I seem to
remember something of the sort from about a month ago.

Thank you!

Heather

On Wed, May 9, 2012 at 6:58 PM, Jonathan Monette <jonmon at mcs.anl.gov> wrote:

> Do you have imagemagick installed on your personal computer and in you
> PATH?
>
>
> On May 9, 2012, at 18:56, Heather Stoller <heather.stoller at gmail.com>
> wrote:
>
> Hi David,
>
> Thank you - this is on my local machine.  An ls from home gives:
>
> hstoller at ubuntu:~$ ls
> Desktop  Documents  Downloads  modis  Music  Pictures  Public  swift-0.93
> swiftwork  Templates  Videos
>
> --Heather
>
> On Wed, May 9, 2012 at 4:54 PM, David Kelly <davidk at ci.uchicago.edu>wrote:
>
>> Thanks - which machine are you testing this on?
>>
>> ----- Original Message -----
>> > From: "Heather Stoller" <heather.stoller at gmail.com>
>> > To: "David Kelly" <davidk at ci.uchicago.edu>
>> > Cc: "Jonathan Monette" <jonmon at mcs.anl.gov>, swift-user at ci.uchicago.edu
>> > Sent: Wednesday, May 9, 2012 6:46:24 PM
>> > Subject: Re: [Swift-user] MODIS demo
>> > Hi David,
>> >
>> > Here are the contents of my tc.local file. Jonathan, I have duly
>> > checked that lazy.errors = false. Thank you both!
>> >
>> > # site transformation path obsolete fields for compatibility
>> >
>> > localhost echo /bin/echo null null null
>> > localhost cat /bin/cat null null null
>> > localhost ls /bin/ls null null null
>> > localhost grep /bin/grep null null null
>> > localhost sort /bin/sort null null null
>> > localhost paste /bin/paste null null null
>> > localhost pwd /bin/pwd null null null
>> >
>> > # For cluster usage
>> >
>> > #pbs getlanduse /home/hstoller/swift/demo/modis/bin/getlanduse.sh null
>> > null null
>> > #pbs analyzelanduse
>> > /home/hstoller/swift/demo/modis/bin/analyzelanduse.sh null null null
>> > #pbs colormodis /home/hstoller/swift/demo/modis/bin/colormodis.sh null
>> > null null
>> > #pbs assemble /home/hstoller/swift/demo/modis/bin/assemble.sh null
>> > null null
>> >
>> > # For localhost testing
>> >
>> > localhost getlanduse /home/hstoller/modis/bin/getlanduse.sh null null
>> > null
>> > localhost analyzelanduse /home/hstoller/modis/bin/analyzelanduse2.sh
>> > null null null
>> > localhost colormodis /home/hstoller/modis/bin/colormodis.sh null null
>> > null
>> > localhost assemble /home/hstoller/modis/bin/assemble2.sh null null
>> > null
>> > localhost markmap /home/hstoller/modis/bin/markmap.sh null null null
>> >
>> >
>> >
>> > On Wed, May 9, 2012 at 3:56 PM, David Kelly < davidk at ci.uchicago.edu >
>> > wrote:
>> >
>> >
>> > Heather,
>> >
>> > Can you please paste the contents of your tc.local file?
>> >
>> > Thanks,
>> >
>> > David
>> >
>> > ----- Original Message -----
>> > > From: "Heather Stoller" < heather.stoller at gmail.com >
>> > > To: swift-user at ci.uchicago.edu
>> >
>> >
>> > > Cc: "David Kelly" < davidk at ci.uchicago.edu >, "Jonathan Monette" <
>> > > jonmon at mcs.anl.gov >
>> > > Sent: Wednesday, May 9, 2012 5:30:40 PM
>> > > Subject: Re: [Swift-user] MODIS demo
>> > > Hello Swift Group, coming back to MODIS:
>> > >
>> > > I followed Jonathan's advice to set retries to 0 and looked at the
>> > > wrapper section in the files in the *.d directory as per David's
>> > > advice and now get an error right away, as follows:
>> > > hstoller at ubuntu:~/modis$ ./demo.local urban 4
>> > > runid=modis-2012.0509.1527-urban-4-10
>> > > Swift 0.93 swift-r5483 cog-r3339
>> > >
>> > > RunID: 20120509-1527-bsxjpz4g
>> > > (input): found 0 files
>> > > Progress: time: Wed, 09 May 2012 15:27:53 -0700
>> > > Progress: time: Wed, 09 May 2012 15:27:54 -0700 Submitting:7
>> > > Submitted:1
>> > > Progress: time: Wed, 09 May 2012 15:27:55 -0700 Active:7 Checking
>> > > status:1
>> > > Progress: time: Wed, 09 May 2012 15:27:56 -0700 Stage in:1 Checking
>> > > status:3 Stage out:1 Finished successfully:4
>> > > Execution failed:
>> > > Progress: time: Wed, 09 May 2012 15:27:57 -0700 Checking status:1
>> > > Failed:4 Finished successfully:4
>> > > File not found:
>> > >
>> /home/hstoller/swiftwork/modis-20120509-1527-bsxjpz4g/shared/landuse/h15v05.color.png
>> > > Progress: time: Wed, 09 May 2012 15:28:00 -0700 Initializing:1
>> > > Failed:4 Finished successfully:5
>> > >
>> > > I think my question is, where should that shared/landuse directory
>> > > be
>> > > getting the missing file?
>> > >
>> > > Thank you for your help!
>> > >
>> > > Sincerely,
>> > > Heather
>> > >
>> > >
>> > >
>> > >
>> > > On Fri, Apr 13, 2012 at 10:17 PM, Jonathan Monette <
>> > > jonmon at mcs.anl.gov > wrote:
>> > >
>> > >
>> > > I echo David's suggestion but would like to add another. It looks
>> > > like
>> > > soft error handling is being used which may not be the best approach
>> > > when exploring Swift. In the config file you should set the retry
>> > > count to 0 and set lazy.errors=false. This will cause Swift to fail
>> > > as
>> > > soon as the first error is encountered and will provide an error
>> > > message. This is useful for when you are exploring Swift behavior.
>> > >
>> > >
>> > >
>> > > On Apr 13, 2012, at 23:17, David Kelly < davidk at ci.uchicago.edu >
>> > > wrote:
>> > >
>> > > > Heather,
>> > > >
>> > > > You might want to check the path names in the tc.local file. Since
>> > > > about half the tasks fail, I'm guessing either colormodis or
>> > > > getlanduse is pointing to the wrong place. You can verify this by
>> > > > looking at the directory called modis-2012<timestamp>.d. In there
>> > > > is
>> > > > a list of files that end with -info. Look at the "Wrapper" section
>> > > > of these files and you should find more information about what is
>> > > > causing the failures.
>> > > >
>> > > > David
>> > > >
>> > > > ----- Original Message -----
>> > > >> From: "Heather Stoller" < heather.stoller at gmail.com >
>> > > >> To: swift-user at ci.uchicago.edu
>> > > >> Sent: Thursday, April 5, 2012 9:37:33 AM
>> > > >> Subject: [Swift-user] MODIS demo
>> > > >> Hello,
>> > > >>
>> > > >> I'm a UC student working with Mike Wilde doing some Swift stuff -
>> > > >> at
>> > > >> present, I'm trying to run the demo to see what can be seen. I
>> > > >> get:
>> > > >>
>> > > >> ^Cheather at ubuntu:~/modis$ ./demo.local urban 10
>> > > >> runid=modis-2012.0405.0704-urban-10-10
>> > > >> Swift 0.93 swift-r5483 cog-r3339
>> > > >>
>> > > >> RunID: 20120405-0704-drh1g0ob
>> > > >> (input): found 0 files
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:48 -0700
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:49 -0700 Stage in:19
>> > > >> Submitting:1
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:50 -0700 Stage in:13
>> > > >> Submitting:1 Active:6
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:53 -0700 Stage in:10
>> > > >> Submitting:2 Submitted:2 Active:6
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:54 -0700 Stage in:6
>> > > >> Submitting:1 Submitted:2 Active:9 Checking status:2
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:55 -0700 Stage in:2
>> > > >> Submitting:2 Submitted:1 Active:9 Checking status:3 Stage out:3
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:57 -0700 Submitting:1
>> > > >> Submitted:2 Active:9 Checking status:1 Stage out:7
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:58 -0700 Active:3 Checking
>> > > >> status:2 Stage out:7 Finished successfully:7 Failed but can
>> > > >> retry:1
>> > > >> Progress: time: Thu, 05 Apr 2012 07:04:59 -0700 Stage in:2
>> > > >> Submitting:2 Submitted:1 Active:3 Stage out:1 Finished
>> > > >> successfully:10
>> > > >> Failed but can retry:2
>> > > >> Progress: time: Thu, 05 Apr 2012 07:05:00 -0700 Active:10 Stage
>> > > >> out:1
>> > > >> Finished successfully:10
>> > > >> Progress: time: Thu, 05 Apr 2012 07:05:01 -0700 Active:9 Checking
>> > > >> status:2 Finished successfully:11
>> > > >> Progress: time: Thu, 05 Apr 2012 07:05:02 -0700 Submitting:1
>> > > >> Active:3
>> > > >> Checking status:3 Stage out:2 Finished successfully:11 Failed but
>> > > >> can
>> > > >> retry:2
>> > > >> Progress: time: Thu, 05 Apr 2012 07:05:03 -0700 Stage in:2
>> > > >> Active:6
>> > > >> Stage out:1 Finished successfully:11 Failed but can retry:2
>> > > >> Execution failed:
>> > > >> Progress: time: Thu, 05 Apr 2012 07:05:04 -0700 Active:7 Checking
>> > > >> status:2 Stage out:1 Failed:1 Finished successfully:11
>> > > >> Progress: time: Thu, 05 Apr 2012 07:05:05 -0700 Active:3 Checking
>> > > >> status:1 Stage out:3 Failed:4 Finished successfully:11
>> > > >> Progress: time: Thu, 05 Apr 2012 07:05:06 -0700 Failed:11
>> > > >> Finished
>> > > >> successfully:11
>> > > >>
>> > > >> lots of "failed but can retry". Does this look right?
>> > > >>
>> > > >> --
>>
>
>
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