Opened 4 years ago

Closed 4 years ago

#1663 closed help (fixed)

NEMO base repository extract failed

Reported by: dilshadshawki Owned by: annette
Component: NEMO/CICE Keywords: NEMO, coupled, xcm
Cc: Platform: MONSooN
UM Version: 8.2

Description

Hello helpdesk,

After making the changes in the UMUI to run a job on Cray for version 8.2, I get an error message in the Submission of job xkhqg:

MAIN_SCR: Calling Extract …
Extracting UMATMOS base repository…
UMATMOS base repository extract is OK
Extracting JULES base repository…
JULES base repository extract is OK
Extracting NEMO base repository…
NEMO base repository extract failed
See extract output file /home/dilshadshawki/FCM_extracts/xkhqg/baserepos/NEMO/ext.out
MAIN_SCR: Extract failed
MAIN_SCR stopped with return code 1
Job submission failed

After checking the file ext.out in the puma directory, /home/dilshadshawki/FCM_extracts/xkhqg/baserepos/NEMO/ext.out as shown above, I have the following warning and [FAIL] message:

svn: warning: W170000: URL 'svn://puma/NEMOCICE_svn/NEMO/trunk/NEMOGCM/EXTERNAL/src' non-existent in rHevision 2138

svn: E200009: Could not display info for all targets because some targets don't exist
# Time taken: 0 s⇒ svn info -r 2138 svn://puma/NEMOCICE_svn/NEMO/trunk/NEMOGCM/EXTERNAL/src@2138
[FAIL] svn info -r 2138 svn://puma/NEMOCICE_svn/NEMO/trunk/NEMOGCM/EXTERNAL/src@2138 failed (1) at /home/fcm/fcm-2015.05.0/bi
ext.out lines 16-61/62 99%

It seems that it can't find the required file or directory in order to complete the extraction.

Your help would be very much appreciated.

Many thanks,
Dilshad

Change History (7)

comment:1 Changed 4 years ago by annette

  • Component changed from UM Model to NEMO/CICE
  • Keywords coupled, xcm added; umui removed
  • Owner changed from um_support to annette
  • Platform changed from PUMA to MONSooN
  • Status changed from new to assigned

Hi Dilshad,

The instructions refer to changes for the Atmosphere model only, and you need to make some extra changes to the coupled model. We have been testing a coupled 8.2 UKCA job xlsdg which you can look at for reference, but please don't try to run as it won't work.

Try making the following changes:

Input/Output Control and Resources → Time Convention and SCRIPT Environment Variables

  • Change OASIS_BLDS to /projects/umadmin/ksival/oasis/oasis3_3

Sub-Model Choices and Coupling → OASIS Coupling Switches and Options

  • Change "Local of OASIS3 build" to $OASIS_BLDS/20110919_para_MxSeg1500/prism/crayxc40_cce

FCM Configuration → FCM Options for NEMO

  • Change "NEMO compiler flags file" to ~karthee/NEMO/7.9/nemo7.9_xc30_cce.cfg

FCM Configuration → FCM Options for CICE

  • Change "CICE machine compile flags file" to ~karthee/CICE/vn4.1m1/cice_xc30_cce.cfg

Compilation and run options → UM User Override Files

  • Deselect the %netcdf_lib_path and %netcdf_inc_path variables by putting an "N" in the "Include Y/N" column.
  • Add the following line to the table:
    %gcom_path /projects/umadmin/ksival/gcom/cce/gcom4.7/xc40_cce_mpp Y

You should probably also switch off a coupled of IBM-specific hand-edits.

Input/Output Control and Resources → User hand edit files

  • Switch off ~jwalton/jobfiles/xipve/handedits/omp_num_threads2.ed and ~jwalton/jobfiles/xipve/handedits/p7_netcdf_360.ed

Can you let me know how you get on? Then we can update the instructions on the Wiki page.

Best regards,
Annette

comment:2 Changed 4 years ago by dilshadshawki

Hi Annette,

I made all of the above changes and I double checked them with the xlsdg job, and they both match. But I still get exactly the same error as before.

Any other thoughts?

Many thanks,
Dill

comment:3 Changed 4 years ago by annette

Dill,

Go to FCM Configuration → FCM Options for Atmosphere and Reconfiguration. Under "Container file name and location (UM_CONTAINER)" change @vn8.2_cfg to 20056.

I took a copy of your job and tested this, and the extract completed successfully.

Annette

comment:4 Changed 4 years ago by dilshadshawki

Hi Annette,

The extract did complete successfulyl for both NEMO and CICE, but then it runs into problems when extracting UMSCRIPTS

Extracting NEMO base repository…
NEMO base repository extract is OK
Extracting CICE base repository…
CICE base repository extract is OK
created umscripts sub-directory.
Extracting UMSCRIPTS including any branches…
UMSCRIPTS extract failed
See extract output file /home/dilshadshawki/FCM_extracts/xkhqg/umscripts/ext.out
MAIN_SCR: Extract failed
MAIN_SCR stopped with return code 1
Job submission failed

In the ext.out file:

ERROR: UM/script/archiving/qsserver: merge - cannot resolve conflicts:

source[0]=svn://puma/UM_svn/UM/trunk/src/script/archiving/qsserver@9536
source[1]=svn://puma/UM_svn/UM/branches/dev/jeff/VN8.2_hector_monsoon_archiving/src/script/archiving/qsserver@9669
source[2]=svn://puma/UM_svn/UM/branches/dev/ros/vn8.2_MetoCray_arch/src/script/archiving/qsserver@20068
cache0=/home/dilshadshawki/FCM_extracts/xkhqg/baserepos/UMATMOS/.cache/.ext/UM/script/archiving/base9536/qsserver
cache1=/home/dilshadshawki/FCM_extracts/xkhqg/umscripts/.cache/.ext/UM/script/archiving/branch5
9669/qsserver
cache2=/home/dilshadshawki/FCM_extracts/xkhqg/umscripts/.cache/.ext/UM/script/archiving/branch720068/qsserver

#!/bin/ksh'

There seems to be an issue related to archiving in ext.out file, perhaps there is something else that I am missing? I remember there was a section on the Wiki which mentioned making changes to the archiving:
http://collab.metoffice.gov.uk/twiki/bin/view/Support/CrayUMInstall

It states:
UM 8.2
Make the changes below to pick up script changes and the standard archiving scripts.
Window: FCM Configuration → FCM Options for Atmos & Reconfiguration
Include the following branch: fcm:um-br/dev/ros/vn8.2_MetoCray_arch/src

I have double checked that I have done it in my job and compared it with the xldsg job and they are different. Perhaps this is where the issue lies?

Thanks,
Dill

Version 0, edited 4 years ago by dilshadshawki (next)

comment:5 Changed 4 years ago by annette

Hi Dill,

You need to switch off the old archiving branch, which appears twice in your list under "User Modifications" and "Central Script Modifications".

fcm:um_br/dev/jeff/VN8.2_hector_monsoon_archiving/src

I will add this to the instructions on the porting page.

Hopefully this will work now!

Annette

comment:6 Changed 4 years ago by dilshadshawki

Hi Annette,

Many thanks for all your help. The job worked and now I have a different error, when compiling. I will create a new ticket for this.

Dill

comment:7 Changed 4 years ago by ros

  • Resolution set to fixed
  • Status changed from assigned to closed

Continued in #1667

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