Changes between Version 9 and Version 10 of Doc/CheckDebug

Timestamp:

09/22/14 14:57:48 (10 years ago)

Author:

ncarenton

Comment:

--

Doc/CheckDebug

@@ -274 +274 @@
 }}}
 
-## Start or restart post processing jobs ##
-Please look at the next paragraph.
-
-# Start or restart post processing jobs #
-
-You can run post processing jobs once the main job is finished (for example if the post processing job was deactivated in [#Lespost-traitementsdansconfig.card config.card] or if you encountered a [#Debug bug]).
-
-On TGCC, the machine used for post processing is the same as the computing machine. On IDRIS, the machine to be used for post-processing is adapp (since July 2013) with same file system available : $WORKDIR, $HOME, ... . You can : 
-  1. work directly in the experiment directory (which looks like `PATH_MODIPSL/config/IPSLCM5A/ST11/`). Possible option but not recommended. 
-  1. work in a dedicated directory located in the experiment directory (e.g. `PATH_MODIPSL/config/IPSLCM5A/ST11/POST_REDO`). Best choice. 
-  1. work in a dedicated directory which is independent of the experiment directory (e.g. `$WORKDIR/POST_REDO`).
-
-For the last two options you must first:
-  * If your post processing directory is a subdirectory located in the experiment directory, copy (or make a link `ln -s`) the files and directories `config.card` `POST`, `COMP` and run.card if you want to post process only part of the simulation
-  * If your post processing directory is an independant directory :
-    * create a dedicated directory (for all simulations) ;
-    * transfer libIGCM and run ins_job (for all simulations) ;
-    * create a directory for the simulation to analyze (i.e. for each simulation) :
-{{{
-#!sh
-cd $PATH_MODIPSL/config/IPSLCM5A/ST11
-mkdir -p POST_REDO
-cd POST_REDO/
-cp -pr ../COMP  . 
-cp -pr ../POST  .
-cp -pr ../config.card  .
-cp -pr ../run.card .
-}}}
-
-
-[[NoteBox(warn, Before submitting a post processing job at TGCC (`rebuild_fromWorkdir.job`\, `pack_debug.job`\, `pack_output.job`\, `pack_restart.job`\, `monitoring.job`\, `create_ts.job`\, `create_se.job`) you must make sure that the submission group in present in the job header (#MSUB -A genxxxx). If it isn't\, add it., 600px)]]
-## Restart REBUILD ##
-
- * Copy the `rebuild_fromWorkdir.job` file to the experiment directory or to the dedicated directory;
-
- * Edit it:
-{{{
-#!sh
-StandAlone=true
-
-libIGCM=                    # Points to the libIGCM directory of the experiment 
-
-PeriodDateBegin=            # beginning date of the last serie to be "rebuilded" 
-
-NbRebuildDir=               # Number of directories in the series to be "rebuilded" 
-                            # until the PeriodDateBegin 
-
-
-REBUILD_DIR=                # Path for the backup of files waiting to be reconstructed 
-                            # (looking like $SCRATCHDIR/IGCM_OUT/.../JobName/REBUILD or $SCRATCHDIR/TagName/JobName/REBUILD  for version older than libIGCM_v2.0
-                            # if RebuildFromArchive=NONE) 
-
-MASTER=${MASTER:=curie|ada} # Select the computing machine : MASTER=curie for example
-}}}
-
-
- * Submit the job:
-{{{
-#!sh
-ccc_msub rebuild_fromWorkdir.job                # TGCC
-
-llsubmit rebuild_fromWorkdir.job                # IDRIS
-}}}
-
-
-[[NoteBox(note, The rebuild job submits `pack_output.job` automatically., 600px)]]
-## Restart Pack_output ##
-
- The pack_output (e.g. in case it was not submitted by the rebuild job):
-
-  * Copy the `libIGCM/pack_output.job` file to the experiment directory or to the dedicated directory;
-  * Edit it : 
-{{{
-#!sh
-libIGCM=${libIGCM:=::modipsl::/libIGCM}         # path of the libIGCM library
-
-MASTER=${MASTER:=curie|ada}                     # machine on which you work
-
-DateBegin=${DateBegin:=20000101}                # start date of the period to be packed
-  
-DateEnd=${DateEnd:=20691231}                    # end date of the period to be packed
-  
-PeriodPack=${PeriodPack:=10Y}                   # pack frequency
-}}}
-  * Submit the job:
-{{{
-#!sh
-ccc_msub pack_output.job                        # TGCC
-
-llsubmit pack_output.job                        # IDRIS
-}}}
-
-[[NoteBox(note, `create_ts.job` and `create_se.job` are submitted automatically., 600px)]]
-
-## Restart Pack_restart or Pack_debug ##
-
-   * Copy the libIGCM/pack_debug.job and libIGCM/pack_restart.job files to the experiment directory or to the dedicated directory;
-   * Edit them : 
-{{{
-#!sh
-libIGCM=${libIGCM:=::modipsl::/libIGCM}         # path of the libIGCM library
-
-MASTER=${MASTER:=curie|ada}                     # machine on which you work
-
-DateBegin=${DateBegin:=20000101}                # start date of the period to be packed
-  
-DateEnd=${DateEnd:=20691231}                    # end date of the period to be packed
-  
-PeriodPack=${PeriodPack:=10Y}                   # pack frequency
-}}}
-   * Submit the two jobs: 
-{{{
-#!sh
-ccc_msub pack_debug.job ; ccc_msub pack_restart.job      # TGCC
-
-llsubmit pack_debug.job ; llsubmit pack_restart.job      # IDRIS
-}}}
-
-
-
-## Restart the Time series ##
-
-[[NoteBox(tip, In case you haven't done it yet\, retrieve `config.card` `COMP` `POST` and eventually `run.card` (post process only part of the simulation) in the `POST_REDO/` directory., 600px)]]
-
-There are two ways:
-
-### !TimeSeries_checker.job - Recommended method ###
-
-   * Copy the `libIGCM/TimeSeries_Checker.job` file to the experiment directory or to the dedicated directory;
-   * Edit it:
-{{{
-#!sh
-libIGCM=${libIGCM:=...MYEXP/modipsl/libIGCM}    # Path of the libIGCM library
-
-SpaceName=${SpaceName:=DEVT}                 
-
-ExperimentName=${ExperimentName:=pdControl}
-
-JobName=${JobName:=MYEXP}
-
-CARD_DIR=${CARD_DIR:=${CURRENT_DIR}}            # Path of the experiment directory 
-                                                # (including CURRENT_DIR if you copied 
-                                                # TimeSeries_Checker.job properly) 
-
-export BRIDGE_MSUB_PROJECT=gen2211              # number of your genci project
-
-}}}
-   * Run the !TimeSeries_Checker.job in interactive mode. It will call the missing create_ts jobs :
-{{{
-#!sh
-./TimeSeries_Checker.job
-}}}
-     or alternatively, in ksh :
-{{{
-#!sh
-./TimeSeries_Checker.job 2>&1 | tee TSC_OUT     # Create log file
-
-grep Batch TSC_OUT                              # find all the submitted jobs
-}}}
-
-
-### Restart create_ts.job ###
-
-   * Copy the `libIGCM/create_ts.job` file to the experiment directory or to the dedicated directory;
-   * Edit it:
-{{{
-#!sh
-StandAlone=true
-
-libIGCM=                                        # Path of the libIGCM library
-
-PeriodDateEnd                                   # end date of the time series to be created
-
-CompletedFlag                                   # end date of the existing time series 
-
-TsTask=2D                                       # select 2D or 3D
-
-RebuildFrequency=true
-}}}
-   * Run the job: 
-{{{
-#!sh
-ccc_msub create_ts.job                          # TGCC
-
-llsubmit create_ts.job                          # IDRIS
-}}}
-
-[[NoteBox(note, If your time series (TS) are 2D and 3D you must run the create_ts jobs twice and change the !TsTask variable accordingly., 600px)]]
-
-## Restarting the seasonal mean calculations ##
-
-[[NoteBox(tip, Transfer `config.card`\, `COMP`\, `POST`\, and `run.card` (post process part of the simulation only) in the `POST_REDO/` directory if you have not done so yet., 600px)]]
-
-There are two methods: 
-
-### SE_Checker.job (recommended method) ###
-
- * Copy the `libIGCM/SE_Checker.job` file to the experiment directory or to the dedicated directory;
- * Edit it ;
- * Run `SE_checker.job` in interactive mode. This will call the create_se jobs: 
-{{{
-#!sh
-./SE_Checker.job
-}}} 
-   or alternatively, in ksh : 
-{{{
-#!sh
-# Create logfile:
-./SE_Checker.job 2>&1 | tee SE_OUT
-# Find all started jobs :
-grep Batch SE_OUT
-}}}
- 
-### Restart create_se.job ###
-
- * Copy the `libIGCM/create_se.job` file to the experiment directory or to the dedicated directory;
- * Edit it:
-{{{
-#!sh
-StandAlone=true
-
-libIGCM=                                        # path of the libIGCM library
-
-PeriodDateEnd=                                  # end date of the decade to be processed
-}}}
- * Submit the job: 
-{{{
-#!sh
-ccc_msub create_se.job                          # TGCC
-
-llsubmit create_se.job                          # IDRIS
-}}}
-