Re: snapshot file problem

From: Weiguang Cui <cuiweiguang_at_gmail.com>
Date: Thu, 30 Sep 2021 14:57:50 +0100

Hi Volker,

Sorry, it is my bad, h5ls can open it. I may be in a different folder.
But the snapshot file is definitely smaller than it should be. I guess it
only saved part of the simulation particle data:
   ATTRIBUTE "NumPart_Total" {
      DATATYPE H5T_STD_U64LE
      DATASPACE SIMPLE { ( 6 ) / ( 6 ) }
      DATA {
      (0): 0, 61756984, 0, 0, 0, 0
      }
   }
Which should be 2048^3. Is it because I asked to
SUBFIND_STORE_LOCAL_DENSITY?
I thought that would only add additional fields to the snapshot.

Best,
Weiguang

-------------------------------------------
https://weiguangcui.github.io/


On Thu, Sep 30, 2021 at 2:10 PM Volker Springel <
vspringel_at_mpa-garching.mpg.de> wrote:

>
> Hi Weiguang,
>
> > On 30. Sep 2021, at 14:23, Weiguang Cui <cuiweiguang_at_gmail.com> wrote:
> >
> > Dear all,
> >
> > I recently encountered a problem of snapshot saving with this option on
> > SUBFIND_STORE_LOCAL_DENSITY in the Config.sh file
> >
> > The snapshot seems broken:
> > h5ls snapdir_037/snap_m200n2048-prevmostboundonly_037.0
> > snapdir_037/snap_m200n2048-prevmostboundonly_037.0: unable to open file
> >
>
> Are you sure the file isn't there? Try
>
> h5ls snapdir_037/snap_m200n2048-prevmostboundonly_037.0.hdf5
>
> Best,
> Volker
>
>
>
> > While the log file for this saving part seems fine:
> >
> > SUBFIND: Subgroup catalogues saved. took = 8.55254 sec
> > SUBFIND: Finished with SUBFIND. (total time=1354.58 sec)
> > SUBFIND: Total number of subhalos with at least 32 particles: 8194200
> > SUBFIND: Largest subhalo has 19083775 particles/cells.
> > SUBFIND: Total number of particles/cells in subhalos: 4322986506
> > FOF: preparing output order of particles took 101.057 sec
> > MERGERTREE: writing descendant information file:
> './/groups_038/subhalo_desc_038.0' (file 1 of 32)
> > MERGERTREE: writing descendant information block 0 (DescSubhaloNr)...
> > MERGERTREE: writing descendant information block 1
> (FirstDescSubhaloNr)...
> > MERGERTREE: writing descendant information block 2 (NextProgSubhaloNr)...
> > MERGERTREE: writing descendant information block 3 (SubhaloNr)...
> > MERGERTREE: writing progenitor information file:
> './/groups_039/subhalo_prog_039.0' (file 1 of 32)
> > MERGERTREE: writing progenitor information block 0 (ProgSubhaloNr)...
> > MERGERTREE: writing progenitor information block 1
> (FirstProgSubhaloNr)...
> > MERGERTREE: writing progenitor information block 2 (NextDescSubhaloNr)...
> > MERGERTREE: writing progenitor information block 3 (SubhaloNr)...
> > MERGERTREE: Was able to identify descendants for 8105748 out of 8266010
> subhalos, i.e. for a fraction of 0.980612
> > MERGERTREE: We have found secondary descendants for 10600 halos out of
> 8194200 subhalos, i.e. for a fraction of 0.0012936
> >
> > SNAPSHOT: writing snapshot file #39 _at_ time 1 ...
> > SNAPSHOT: writing snapshot file:
> './/snapdir_039/snap_m200n2048-prevmostboundonly_039.0' (file 1 of 32)
> > SNAPSHOT: writing snapshot block 0 (Coordinates)...
> > SNAPSHOT: writing snapshot block 1 (Velocities)...
> > SNAPSHOT: writing snapshot block 2 (ParticleIDs)...
> > SNAPSHOT: writing snapshot block 7 (SubfindDensity)...
> > SNAPSHOT: writing snapshot block 8 (SubfindHsml)...
> > SNAPSHOT: writing snapshot block 9 (SubfindVelDisp)...
> > SNAPSHOT: done with writing snapshot. Took 20.3367 sec, total size
> 2591.43 MB, corresponds to effective I/O rate of 127.426 MB/sec
> >
> > SNAPSHOT: There is no valid time for a further snapshot file.
> >
> > Final time=1 reached. Simulation ends.
> > RESTART: Writing restart files.
> > RESTART: Backing up restart files...
> > RESTART: done renaming pre-existing restart files to bak files.
> > RESTART: Writing restart files group #1 out of 7...
> > RESTART: Writing restart files group #2 out of 7...
> > RESTART: Writing restart files group #3 out of 7..
> > RESTART: Writing restart files group #4 out of 7...
> > RESTART: Writing restart files group #5 out of 7...
> > RESTART: Writing restart files group #6 out of 7...
> > RESTART: Writing restart files group #7 out of 7...
> > RESTART: done. load/save took 201.084 sec, total size 1.34741e+06 MB,
> corresponds to effective I/O rate of 6700.74 MB/sec
> > endrun called, calling MPI_Finalize()
> > bye!
> >
> > Please let me know if this has only happened to me.
> >
> > Best,
> > Weiguang
> >
> > -------------------------------------------
> > https://weiguangcui.github.io/
> >
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>
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Received on 2021-09-30 15:59:41

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