#1953 closed Task (fixed)
HPC-06(2017WP) XIOS restart read functionality
| Reported by: | andmirek | Owned by: | andmirek |
|---|---|---|---|
| Priority: | high | Milestone: | 2018 release-4.0 |
| Component: | OCE | Version: | trunk |
| Severity: | minor | Keywords: | OPA XIOS read/write v4.0 |
| Cc: |
Description
Context
Add xios restart read functionality
Analysis
XIOS offers read functionality, which can be used to read restart file (only single file restart). The development was first implemented in version 3.6 to test performance of the interface in the MetOffice? GO6 configuration. See ticket https://forge.ipsl.jussieu.fr/nemo/ticket/1881
Commit History (28)
| Changeset | Author | Time | ChangeLog |
|---|---|---|---|
| 9984 | andmirek | 2018-07-20T15:46:02+02:00 | #1953 fix issues with domain definition for restart read with XIOS |
| 9536 | andmirek | 2018-05-01T13:37:48+02:00 | #1953 and #1962 stop immediately if XIOS restart read/write functionality is used without key_iomput |
| 9535 | andmirek | 2018-05-01T13:22:33+02:00 | #1953 and #1962 disable XIOS related calls when key_iomput is not set |
| 9405 | andmirek | 2018-03-15T17:29:06+01:00 | |
| 9367 | mathiot | 2018-02-28T17:23:20+01:00 | Add restart read/write via XIOS capability (#1953 and #1962 and twiki: 2017WP/Met_Office-1_Mirek_XIOSread). WARNING: need to upgrade XIOS to r1296 to compile |
| 8990 | andmirek | 2017-12-12T15:56:38+01:00 | |
| 8858 | andmirek | 2017-11-30T15:50:38+01:00 | |
| 8857 | andmirek | 2017-11-30T15:24:15+01:00 | #1953 and #1962 handle together setting XIOS restart read and write flags |
| 8836 | andmirek | 2017-11-28T15:45:20+01:00 | |
| 8821 | andmirek | 2017-11-27T14:46:12+01:00 | |
| 8816 | andmirek | 2017-11-27T12:01:56+01:00 | |
| 8812 | andmirek | 2017-11-24T17:34:50+01:00 | |
| 8802 | andmirek | 2017-11-23T17:48:06+01:00 | |
| 8801 | andmirek | 2017-11-23T16:52:17+01:00 | |
| 8800 | andmirek | 2017-11-23T16:48:37+01:00 | |
| 8799 | andmirek | 2017-11-23T16:45:20+01:00 | |
| 8793 | andmirek | 2017-11-23T13:02:23+01:00 | #1953 and #1962 change lxios_read to lrxios to be consistent with write branch |
| 8792 | andmirek | 2017-11-23T12:29:39+01:00 | |
| 8786 | andmirek | 2017-11-22T14:39:57+01:00 | |
| 8785 | andmirek | 2017-11-22T13:34:53+01:00 | #1953 and #1962 change in subroutine name and way temperature first level is read |
| 8774 | andmirek | 2017-11-21T17:54:04+01:00 | |
| 8770 | andmirek | 2017-11-21T17:21:22+01:00 | #1953 and #1962 merged (and some modifications) with write branch |
| 8759 | andmirek | 2017-11-21T09:57:42+01:00 | |
| 8668 | andmirek | 2017-10-30T12:44:29+01:00 | #1953 change variable names to follow NEMO coding convention |
| 8614 | andmirek | 2017-10-11T13:34:46+02:00 | #1953 typo and AGRIF related print |
| 8613 | andmirek | 2017-10-11T13:17:14+02:00 | #1953 upadte namelist_ref with variable enabling reading using XIOS |
| 8612 | andmirek | 2017-10-11T13:03:17+02:00 | #1953 read single file restart with XIOS |
| 8602 | andmirek | 2017-10-09T12:11:30+02:00 | ticket #1953 - XIOS restart read fuctionality |
Change History (24)
comment:1 Changed 7 years ago by andmirek
- Owner set to andmirek
- Status changed from new to assigned
comment:2 Changed 7 years ago by andmirek
comment:3 Changed 7 years ago by andmirek
Now at version 8621. Commit 8620 was made by mistake. It was related to a different ticket. Revisions 8621 and 8614 are identical.
comment:4 Changed 7 years ago by andmirek
To enable XIOS restart read functionality ln_xios_read must be set to .TRUE in namelist namrun. XIOS read functionality works only for a single file restart. The check is made to make sure the restart file is in single file before corresponding flag is set.
For AGRIF configuration setting for AGRIF is ignored and NEMO value is used.
comment:5 Changed 7 years ago by clevy
- Type changed from Enhancement to Task
comment:6 Changed 7 years ago by andmirek
Results from tests performed to evaluate XIOS read functionality for Met Office GO6 configuration, for 2 model resolutions: eORCA25 and eORCA12. NEMO 3.6 was used for tests. Runs were for 1 day.
NEMO - default NEMO functionality for reading single file restart
XIOS - XIOS read interface for reading single file restart
NEMO-MUL - default nemo functionality for reading multiple files restart (for ORCA25 only)
Results: eORCA12:
| Execution time [s] | Execution time [s] |
|---|---|---|
CPU (decomposition) | XIOS (36 servers) | NEMO |
1602 (50x50) | 1156 | 1119 |
2262 (60x60) | 1186 | 1066 |
3027 (70x70) | Failure in the solver | 1062 |
Results eORCA25:
| Execution time [s] | Execution time [s] | Execution time [s] |
|---|---|---|---|
CPU (decomposition) | XIOS (6/12 servers) | NEMO | NEMO-MUL |
120 (10x12) | 710/601 | 560 | 510 |
440 (20x24) | 251/276 | 246 | 164 |
1440 (40x36) | 280/215 | 173 | 97 |
comment:7 Changed 7 years ago by andmirek
- Severity major deleted
One comment about reading. The restart file must have, in addition to the data, also metadata. For NEMO it is nav_lon, nav_lat, nav_lev. This is XIOS requirements and restart read with XIOS will fail when this data is not present. AMM12 SETTE is an example where restart doesn't have metadata and an attempt to read the restart with XIOS fails. Note that restart files produced by NEMO have nav_lon, nav_lat, z dimension has been changed to nav_lev in this branch.
comment:8 Changed 7 years ago by andmirek
- workplan_status set to unknown
For some reason XIOS restart read functionality doesn't work for SAS configuration. XIOS reports inconsistency in the size of the data requested and the size of the array. Reason is unknown. Based on the definitions all dimensions should be consistent. I have disabled SAS and XIOS read in commit 8821 for combined branch XIOS read/write dev_r8600_xios_read_write_v2.
comment:9 Changed 7 years ago by nemo
- Keywords read/write added; read removed
comment:10 Changed 7 years ago by andmirek
In 8990:
comment:11 Changed 7 years ago by mathiot
- Milestone changed from 2017 WP to 2018 release-4.0
comment:12 Changed 7 years ago by nicolasmartin
- Summary changed from XIOS restart read functionality to Met_Office-1(2017WP) XIOS restart read functionality
Modification of summary for standardisation
comment:13 Changed 7 years ago by clevy
- Summary changed from Met_Office-1(2017WP) XIOS restart read functionality to HPC-6(2017WP) XIOS restart read functionality
comment:14 Changed 7 years ago by clevy
- Summary changed from HPC-6(2017WP) XIOS restart read functionality to HPC-06(2017WP) XIOS restart read functionality
comment:15 Changed 7 years ago by mathiot
In 9367:
comment:16 Changed 7 years ago by mathiot
- Resolution set to fixed
- Status changed from assigned to closed
comment:17 Changed 7 years ago by andmirek
In 9405:
comment:18 Changed 7 years ago by andmirek
In 9535:
comment:19 Changed 7 years ago by andmirek
In 9536:
comment:20 Changed 6 years ago by andmirek
In the trunk. Currently tested in MO GO8 (eORCA25) configuration.
comment:21 Changed 6 years ago by andmirek
- wp_comment set to In the trunk. Currently tested in MO GO8 (eORCA25) configuration.
comment:22 Changed 6 years ago by andmirek
In 9984:
comment:23 Changed 6 years ago by andmirek
Issues with domain definition for restart read resolved in revision 9984. For restart read/write with XIOS revision 1563 of XIOS is needed.
comment:24 Changed 3 years ago by nemo
- Keywords OPA v4.0 added
branch dev_r8600_xios_read created in branches/2017 https://forge.ipsl.jussieu.fr/nemo/browser/branches/2017/dev_r8600_xios_read. SETTE tests were run for configuration 15. Reading with XIOS works for core variables (unit numror) including AGRIF. For restart solver.stat are identical for run restarted using XIOS and run using default NEMO read functionality (rev 8613).