Re: time-step of integer size 1 not allowed

From: Tiago Castro <tiagobscastro_at_gmail.com>
Date: Mon, 26 Jul 2021 08:36:04 +0200

Dear Julianne,

   The problem seems to be caused by the time-stepping not being sufficient
for the required configuration. Have you tried to activate the
*ENLARGE_DYNAMIC_RANGE_IN_TIME
*directive?

Kind regards,

Em dom., 25 de jul. de 2021 às 23:08, Goddard, Julianne K. <
Julianne.Goddard_at_uky.edu> escreveu:

> Hello all,
>
> I am running a cosmological zoom simulation with a 50Mpc periodic box
> including gas and dark matter from z=99 with about 70 million total
> particles. I have included the details of the latest version of this run
> from the log at the end of this email. I have tried several different
> configurations and settings within the code and with the cluster I am
> running on (number of nodes/processors), however I keep encountering the
> same error at some redshift between z=30 and z=9 depending on the
> configuration:
>
> "Code termination on task=1, function
> timebins_get_bin_and_do_validity_checks(), file
> src/time_integration/timestep.cc, line 508: time-step of integer size 1 not
> allowed"
>
> I have not been able to identify the source of this error, any guidance or
> help would be greatly appreciated.
>
> Thank you,
>
> Julianne
>
> Code was compiled with the following compiler and flags:
> mpicxx -std=c++11 -ggdb -O3 -march=native -Wall -Wno-format-security
> -I/home/jkgo232/hdf5/include
> -I/opt/ohpc/pub/libs/intel/ccs/gsl/2.5/include
> -I/home/jkgo232/fftw3/include -Igalaxy_zoom4/build -Isrc
>
>
> Code was compiled with the following settings:
> ADAPTIVE_HYDRO_SOFTENING
> ASMTH=1.25
> COOLING
> DOUBLEPRECISION=1
> DOUBLEPRECISION_FFTW
> EVALPOTENTIAL
> FMM
> FOF
> GADGET2_HEADER
> HIERARCHICAL_GRAVITY
> NSOFTCLASSES=6
> NTYPES=6
> OUTPUT_COOLHEAT
> OUTPUT_ENTROPY
> OUTPUT_POTENTIAL
> OUTPUT_PRESSURE
> PERIODIC
> PMGRID=128
> PRESSURE_ENTROPY_SPH
> SELFGRAVITY
> STARFORMATION
> SUBFIND
> TREEPM_NOTIMESPLIT
> TREE_NUM_BEFORE_NODESPLIT=8
> WENDLAND_BIAS_CORRECTION
> WENDLAND_C4_KERNEL
>
>
> Running on 46 MPI tasks.
>
>
> BEGRUN: Size of particle structure 144 [bytes]
> BEGRUN: Size of sph particle structure 288 [bytes]
> BEGRUN: Size of gravity tree node 104 [bytes]
> BEGRUN: Size of neighbour tree node 192 [bytes]
> BEGRUN: Size of subfind auxiliary data 104 [bytes]
>
>
>
> -------------------------------------------------------------------------------------------------------------------------
> AvailMem: Largest = 183846.24 Mb (on task= 0), Smallest =
> 183846.24 Mb (on task= 0), Average = 183846.24 Mb
> Total Mem: Largest = 191839.78 Mb (on task= 0), Smallest =
> 191839.78 Mb (on task= 0), Average = 191839.78 Mb
> Committed_AS: Largest = 7993.54 Mb (on task= 0), Smallest =
> 7993.54 Mb (on task= 0), Average = 7993.54 Mb
> SwapFree: Largest = 22792.30 Mb (on task= 0), Smallest =
> 22792.30 Mb (on task= 0), Average = 22792.30 Mb
> AllocMem: Largest = 7993.54 Mb (on task= 0), Smallest =
> 7993.54 Mb (on task= 0), Average = 7993.54 Mb
> avail /dev/shm: Largest = 95871.05 Mb (on task= 0), Smallest =
> 95871.05 Mb (on task= 0), Average = 95871.05 Mb
>
> -------------------------------------------------------------------------------------------------------------------------
> Task=0 has the maximum commited memory and is host: cascadeb002
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> Obtaining parameters from file 'param.txt':
>
> InitCondFile
> ./ICs/ics_zoom_gadget_12.dat
> OutputDir ./gz2
> SnapshotFileBase snapshot
> OutputListFilename output_list1.txt
> ICFormat 1
> SnapFormat 3
> TimeLimitCPU 1.2096e+06
> CpuTimeBetRestartFile 86400
> MaxMemSize 2000
> TimeBegin 0.01
> TimeMax 1
> ComovingIntegrationOn 1
> Omega0 0.308
> OmegaLambda 0.692
> OmegaBaryon 0.0481
> HubbleParam 0.678
> BoxSize 50000
> Hubble 0.1
> OutputListOn 1
> TimeBetSnapshot 1.05
> TimeOfFirstSnapshot 0.01
> TimeBetStatistics 1.05
> InitCondFile
> ./ICs/ics_zoom_gadget_12.dat
> OutputDir ./gz2
> SnapshotFileBase snapshot
> OutputListFilename output_list1.txt
> ICFormat 1
> SnapFormat 3
> TimeLimitCPU 1.2096e+06
> CpuTimeBetRestartFile 86400
> MaxMemSize 2000
> TimeBegin 0.01
> TimeMax 1
> ComovingIntegrationOn 1
> Omega0 0.308
> OmegaLambda 0.692
> OmegaBaryon 0.0481
> HubbleParam 0.678
> BoxSize 50000
> Hubble 0.1
> OutputListOn 1
> TimeBetSnapshot 1.05
> TimeOfFirstSnapshot 0.01
> TimeBetStatistics 1.05
> NumFilesPerSnapshot 1
> MaxFilesWithConcurrentIO 1
> ErrTolIntAccuracy 0.012
> CourantFac 0.2
> MaxSizeTimestep 0.01
> MinSizeTimestep 1e-12
> TypeOfOpeningCriterion 1
> ErrTolTheta 0.4
> ErrTolThetaMax 1
> ErrTolForceAcc 0.02
> TopNodeFactor 3
> ActivePartFracForNewDomainDecomp 0.01
> ActivePartFracForPMinsteadOfEwald 0.1
> DesNumNgb 32
> MaxNumNgbDeviation 2
> UnitLength_in_cm 3.08568e+21
> UnitMass_in_g 1.989e+43
> UnitVelocity_in_cm_per_s 100000
> GravityConstantInternal 0
> GasSoftFactor 1.5
> MinimumComovingHydroSoftening 0.05
> AdaptiveHydroSofteningSpacing 1.05
> SofteningComovingClass0 0.05
> SofteningComovingClass1 0.08
> SofteningComovingClass2 0.08
> SofteningComovingClass3 0.08
> SofteningComovingClass4 0.05
> SofteningComovingClass5 1.2
> SofteningMaxPhysClass0 0.05
> SofteningMaxPhysClass1 0.08
>
> SofteningMaxPhysClass2 0.08
> SofteningMaxPhysClass3 0.08
> SofteningMaxPhysClass4 0.05
> SofteningMaxPhysClass5 1.2
> SofteningClassOfPartType0 0
> SofteningClassOfPartType1 1
> SofteningClassOfPartType2 2
> SofteningClassOfPartType3 3
> SofteningClassOfPartType4 4
> SofteningClassOfPartType5 5
> ArtBulkViscConst 1
> MinEgySpec 0.1
> InitGasTemp 275.5
> MaxSfrTimescale 4
> FactorSN 0.1
> FactorEVP 3000
> TempSupernova 3e+08
> TempClouds 1000
> CritOverDensity 57.7
> CritPhysDensity 4
> TreecoolFile TREECOOL
> DesLinkNgb 32
>
> MALLOC: Allocation of shared memory took 0.00267887 sec
>
> found 89 times in output-list.
> BEGRUN: Hubble (internal units) = 0.1
> BEGRUN: h = 0.678
> BEGRUN: G (internal units) = 43018.7
> BEGRUN: UnitMass_in_g = 1.989e+43
> BEGRUN: UnitLenth_in_cm = 3.08568e+21
> BEGRUN: UnitTime_in_s = 3.08568e+16
> BEGRUN: UnitVelocity_in_cm_per_s = 100000
> BEGRUN: UnitDensity_in_cgs = 6.76991e-22
> BEGRUN: UnitEnergy_in_cgs = 1.989e+53
>
> COOLING: read ionization table with 171 entries in file `TREECOOL'.
> COOLING: using 170 ionization table entries from file `TREECOOL'.
> EWALD: initialize Ewald correction...
>
> EWALD: reading Ewald tables from file
> `ewald_table_1-1-1_64-64-64_precision8-order3.dat'
> EWALD: Initialization of periodic boundaries finished.
>
> READIC: filenr=0, './ICs/ics_zoom_gadget_12.dat' contains:
> READIC: Type 0 (gas): 26556504 (tot= 26556504) masstab=
> 2.42811e-06
> READIC: Type 1: 26556504 (tot= 26556504) masstab=
> 1.31199e-05
> READIC: Type 2: 0 (tot= 0) masstab= 0
> READIC: Type 3: 0 (tot= 0) masstab= 0
> READIC: Type 4: 0 (tot= 0) masstab= 0
> READIC: Type 5: 18115397 (tot= 18115397) masstab= 0
>
> READIC: Reading file `./ICs/ics_zoom_gadget_12.dat' on task=0 and
> distribute it to 0 to 45.
> READIC: reading block 0 (Coordinates)...
> READIC: reading block 1 (Velocities)...
> READIC: reading block 2 (ParticleIDs)...
> READIC: reading block 3 (Masses)...
> READIC: reading block 4 (InternalEnergy)...
> READIC: reading done. Took 11.3321 sec, total size 2072.41 MB, corresponds
> to effective I/O rate of 182.88 MB/sec
>
> READIC: Total number of particles : 71228405
>
> INIT: Testing ID uniqueness...
> INIT: success. took=0.236911 sec
>
>
>
>
>
Received on 2021-07-26 08:36:54

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