[ecco-support] Getting ECCO_v4_r3 running

Emma Boland emmomp at bas.ac.uk
Tue Aug 1 06:32:45 EDT 2017 

Hi Ou,

It is definitely a problem with data.seaice, as if I replace it with the r2 data.seaice it starts running. I've tried deleting whitespace, replacing the / with & for the namelist terminator, I've added a blank SEAICE_PARM03 namelist... Nothing seems to work. I guess there is something funny with the format somewhere in the file but I can't see what.

I'm pretty sure /tmp/F011.QAAa36052 is just a temporary, local, copy of data.seaice generated at runtime.

Here is STDERR.0000:

(PID.TID 0000.0001) ** WARNING ** S.Edge of facet #  1 disconnected (facet_link=  0.00)
(PID.TID 0000.0001) ** WARNING ** S.Edge of facet #  2 disconnected (facet_link=  0.00)
(PID.TID 0000.0001) ** WARNING ** E.Edge of facet #  4 disconnected (facet_link=  0.00)
(PID.TID 0000.0001) ** WARNING ** E.Edge of facet #  5 disconnected (facet_link=  0.00)
(PID.TID 0000.0001) ** WARNING ** INI_PARMS: Ignores diffKrT (or Kp,Kz) setting in file "data" with ALLOW_3D_DIFFKR
(PID.TID 0000.0001) ** WARNING ** INI_PARMS: Ignores diffKrS (or Kp,Kz) setting in file "data" and uses diffKrFile

The end of STDOUT.0000:

(PID.TID 0000.0001)  SEAICE_READPARMS: opening data.seaice
(PID.TID 0000.0001)  OPEN_COPY_DATA_FILE: opening file data.seaice
(PID.TID 0000.0001) // =======================================================
(PID.TID 0000.0001) // Parameter file "data.seaice"
(PID.TID 0000.0001) // =======================================================
(PID.TID 0000.0001) ># SEAICE parameters
(PID.TID 0000.0001) > &SEAICE_PARM01
(PID.TID 0000.0001) >      SEAICEpresH0=2.,
(PID.TID 0000.0001) >      SEAICEpresPow0=1,
(PID.TID 0000.0001) >      SEAICEpresPow1=1,
(PID.TID 0000.0001) >      SEAICE_strength = 2.25e4,
(PID.TID 0000.0001) >      SEAICE_area_max = 0.97,
(PID.TID 0000.0001) >      SEAICE_no_slip = .TRUE.,
(PID.TID 0000.0001) >      SEAICE_drag=0.001,
(PID.TID 0000.0001) >      OCEAN_drag=0.001,
(PID.TID 0000.0001) >      SEAICEuseTILT=.FALSE.,
(PID.TID 0000.0001) >      SEAICE_multDim=1,
(PID.TID 0000.0001) >      SEAICErestoreUnderIce=.TRUE.,
(PID.TID 0000.0001) >      SEAICE_salt0=4.,
(PID.TID 0000.0001) >      LSR_ERROR          = 2.e-4,
(PID.TID 0000.0001) >      SEAICEuseDYNAMICS  = .TRUE.,
(PID.TID 0000.0001) >      MIN_ATEMP          = -40.,
(PID.TID 0000.0001) >      MIN_TICE           = -40.,
(PID.TID 0000.0001) >      SEAICEadvScheme    = 30,
(PID.TID 0000.0001) >      SEAICEuseFluxForm = .TRUE.,
(PID.TID 0000.0001) >      SEAICEadvSnow      = .TRUE.,
(PID.TID 0000.0001) >      SEAICEdiffKhHeff   = 400.,
(PID.TID 0000.0001) >      SEAICEdiffKhArea   = 400.,
(PID.TID 0000.0001) >      SEAICEdiffKhSnow   = 400.,
(PID.TID 0000.0001) >      SEAICEuseFlooding  = .TRUE.,
(PID.TID 0000.0001) >      SEAICE_mcPheePiston= 3.858024691358025E-05,
(PID.TID 0000.0001) >      SEAICE_frazilFrac  = 1.,
(PID.TID 0000.0001) >      SEAICE_mcPheeTaper = 0.,
(PID.TID 0000.0001) >      SEAICE_areaLossFormula=2,
(PID.TID 0000.0001) >      SEAICEheatConsFix  = .TRUE.,
(PID.TID 0000.0001) >      SEAICE_tempFrz0    = -1.96,
(PID.TID 0000.0001) >      SEAICE_dTempFrz_dS = 0.,
(PID.TID 0000.0001) >      SEAICEuseMetricTerms = .TRUE.,
(PID.TID 0000.0001) >      SEAICE_clipVelocities = .TRUE.,
(PID.TID 0000.0001) >#take 33% out of (1-albedo)
(PID.TID 0000.0001) >      SEAICE_dryIceAlb   = 0.84,
(PID.TID 0000.0001) >      SEAICE_wetIceAlb   = 0.78,
(PID.TID 0000.0001) >      SEAICE_drySnowAlb  = 0.90,
(PID.TID 0000.0001) >      SEAICE_wetSnowAlb  = 0.8 ,
(PID.TID 0000.0001) >#default albedos
(PID.TID 0000.0001) >      SEAICE_dryIceAlb_south   = 0.75,
(PID.TID 0000.0001) >      SEAICE_wetIceAlb_south   = 0.66,
(PID.TID 0000.0001) >      SEAICE_drySnowAlb_south  = 0.84,
(PID.TID 0000.0001) >      SEAICE_wetSnowAlb_south  = 0.7,
(PID.TID 0000.0001) > /
(PID.TID 0000.0001) >#
(PID.TID 0000.0001) > &SEAICE_PARM02
(PID.TID 0000.0001) > /
(PID.TID 0000.0001) >#
(PID.TID 0000.0001) > &SEAICE_PARM03
(PID.TID 0000.0001) > /
(PID.TID 0000.0001)

And my error log file just says the error I originally posted again and again.

Thanks,

Emma


Hi Emma,

It is not obvious from your description what caused the crash. Can you post your STDERR.0000 and the end part of STDOUT.0000, as well as your log file. Also, what is the temporary file /tmp/F011.QAAa36052? Is it just a copy of data.seaice?

Ou Wang

From: <ecco-support-bounces at mit.edu<mailto:ecco-support-bounces at mit.edu><mailto:ecco-support-bouncesatmit.edu>> on behalf of Emma Boland <emmomp at bas.ac.uk<mailto:emmomp at bas.ac.uk><mailto:emmompatbas.ac.uk>>
Reply-To: "ECCO support list, wider membership" <ecco-support at mit.edu<mailto:ecco-support at mit.edu><mailto:ecco-supportatmit.edu>>
Date: Wednesday, July 26, 2017 at 5:36 AM
To: "ecco-support at mit.edu<mailto:ecco-support at mit.edu><mailto:ecco-supportatmit.edu>" <ecco-support at mit.edu<mailto:ecco-support at mit.edu><mailto:ecco-supportatmit.edu>>
Subject: [ecco-support] Getting ECCO_v4_r3 running


Hi Guys,

I'm attempting to get r3 running on the ARCHER machine in the UK. All I've altered are SIZE.h and data.exch2. It's crashing during reading of the namelists - STDOUT implies this is reading data.seaice. I'm getting errors of the sort:

lib-4001 : UNRECOVERABLE library error
  A READ operation tried to read past the end-of-file.

Encountered during a namelist READ from unit 11
Fortran unit 11 is connected to a sequential formatted text file:
  "/tmp/F011.QAAa36052"

Looking at data.seaice I can't see anything obviously wrong. Is this something anyone else has come across? And just because STDOUT ends after reading data.seaice, is this a guarantee that this is the true cause of the crash (i.e. is the buffer necessarily up to date when it crashes)?

Thanks,

Emma

--

Dr Emma Boland

Physical Oceanographer
Polar Oceans Group
British Antarctic Survey

Phone: 01223 221276
Web: www.antarctica.ac.uk/about_bas/contact/staff/profile/eboland<http://www.antarctica.ac.uk/about_bas/contact/staff/profile/eboland><https://www.bas.ac.uk/profile/emmomp/><https://www.bas.ac.uk/profile/emmomp/>

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--

Dr Emma Boland

Physical Oceanographer
Polar Oceans Group
British Antarctic Survey

Phone: 01223 221276
Web: www.antarctica.ac.uk/about_bas/contact/staff/profile/eboland<https://www.bas.ac.uk/profile/emmomp/>

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