Changes between Version 44 and Version 45 of user/flavoni/libIGCM/setupsimupage
- Timestamp:
- 2013-03-11T12:34:09+01:00 (11 years ago)
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user/flavoni/libIGCM/setupsimupage
v44 v45 1 == !'''Set up a simulation!''' == [[BR]] 1 == Set up a simulation == 2 2 3 3 4 [[PageOutline]] 4 5 5 ''' First of all see official documentation'''6 ''' First of all see official documentation''' 6 7 7 8 http://forge.ipsl.jussieu.fr/igcmg/wiki/platform/documentation 8 9 9 10 === Important files === 10 Important files to set up a simulation are: [[BR]] ORCA2_LIM/IGCM00/config.card [[BR]] ORCA2_LIM/IGCM00/PARAM/iodef.xml [[BR]]ORCA2_LIM/IGCM00/COMP/opa9.card [[BR]]11 Important files to set up a simulation are: [[BR]] ORCA2_LIM/IGCM00/config.card [[BR]] ORCA2_LIM/IGCM00/PARAM/iodef.xml [[BR]] ORCA2_LIM/IGCM00/COMP/opa9.card [[BR]] 11 12 12 13 === config.card === … … 16 17 In ORCA2_LIM/IGCM00/'''config.card''' file [[BR]] 17 18 18 you have to put a ''' !JobName ''' maximum of 8 characters [[BR]] in !LongNameyou can put a comment that can remember to you all properties of the Job.[[BR]]19 you have to put a ''' !JobName ''' maximum of 8 characters [[BR]] in !LongName you can put a comment that can remember to you all properties of the Job.[[BR]] 19 20 20 you have to set duration of your experience and setting ''' !PeriodLength '''parameter, so you manage write output frequency of restart files.21 you have to set duration of your experience and setting ''' !PeriodLength ''' parameter, so you manage write output frequency of restart files. 21 22 22 ( for example : if you have and experience of 10 years and a !PeriodLength of 1 year, you will have 10 restart files )23 ( for example : if you have and experience of 10 years and a !PeriodLength of 1 year, you will have 10 restart files ) 23 24 24 #-- Début et fin de Job [[BR]] #-- "YYYY-MM-DD" [[BR]] DateBegin =2001-01-01 [[BR]] DateEnd =2010-12-31 [[BR]] #============================ [[BR]] #-- 1Y, 1M, 5D, 1D [[BR]] PeriodLength=1Y [[BR]]25 #-- Début et fin de Job [[BR]] #-- "YYYY-MM-DD" [[BR]] DateBegin =2001-01-01 [[BR]] DateEnd =2010-12-31 [[BR]] #============================ [[BR]] #-- 1Y, 1M, 5D, 1D [[BR]] PeriodLength =1Y [[BR]] 25 26 26 ''' Note : '''If you want to use restart data from another simulation ( already run not in this moment ) you have to manage "Restarts" part of config.card27 ''' Note : ''' If you want to use restart data from another simulation ( already run not in this moment ) you have to manage "Restarts" part of config.card 27 28 28 29 ==== How to continue a simulation ==== 29 see french version : 30 see french version : [http://forge.ipsl.jussieu.fr/igcmg/wiki/platform/documentation/simulation#Commentprolongerourelancerunesimulation here] 30 31 31 32 If you have finished a previous simulation and now you want to continue it you have to change : 32 33 33 in ORCA2_LIM/IGCM00/config.card you have to set : [[BR]] new ''' DateEnd '''[[BR]]34 in ORCA2_LIM/IGCM00/config.card you have to set : [[BR]] new ''' DateEnd ''' [[BR]] 34 35 35 in ORCA2_LIM/IGCM00/run.card[[BR]] ''' PeriodDateEnd ''' [[BR]] ''' PeriodState = OnQueue'''36 in ORCA2_LIM/IGCM00/run.card[[BR]] ''' PeriodDateEnd ''' [[BR]] ''' PeriodState = OnQueue ''' 36 37 37 38 ==== How to manage calendar type ==== 38 in ORCA2_LIM/IGCM00/config.card you have to set !CalendarType like 360d or leap or noleap39 in ORCA2_LIM/IGCM00/config.card you have to set !CalendarType like 360d or leap or noleap 39 40 40 # for ''' 360d''' :[[BR]] you have to be careful at[[BR]] DateEnd =2010-12-3''' 0''' [[BR]]because every month has 30 days[[BR]]41 # for ''' 360d''' :[[BR]] you have to be careful at[[BR]] DateEnd =2010-12-3''' 0''' [[BR]] because every month has 30 days[[BR]] 41 42 42 If you put for example DateEnd =2005-12-31, you will have another run, of duration like your !PeriodLength43 If you put for example DateEnd =2005-12-31, you will have another run, of duration like your !PeriodLength 43 44 44 # for ''' noleap''' : [[BR]] ''' How to manage rdt ( i.e. timestep )''' [[BR]] in ORCA2_LIM/IGCM00/COMP/opa9.driver you have to change parameter : ORCA_NPDT_JOUR=15 [[BR]]( 15 corresponds to 86400s/5760s; it does mean that in one day you have 15 iterations; and it does mean that timestep is 5760)45 # for ''' noleap''' : [[BR]] ''' How to manage rdt ( i.e. timestep )''' [[BR]] in ORCA2_LIM/IGCM00/COMP/opa9.driver you have to change parameter : ORCA_NPDT_JOUR=15 [[BR]] ( 15 corresponds to 86400s/5760s; it does mean that in one day you have 15 iterations; and it does mean that timestep is 5760) 45 46 46 47 ==== How to manage monoprocessor or multiprocessor run ==== 47 From nemo ''' version 3_3'''set up and compile a mono-processor run :48 From nemo ''' version 3_3''' set up and compile a mono-processor run : 48 49 49 50 ./makenemo -m SX8_BRODIE -n ORCA2_LIM 50 51 51 for multiprocessor run see : [[BR]] [https://forge.ipsl.jussieu.fr/nemo/wiki/libIGCM_nemo_v_3_3/parallelpage_3_3 parallelpage for nemo version 3_3][[BR]]52 for multiprocessor run see : [[BR]] [https://forge.ipsl.jussieu.fr/nemo/wiki/libIGCM_nemo_v_3_3/parallelpage_3_3 parallelpage for nemo version 3_3] [[BR]] 52 53 53 ( To understand more on mono or multi proc run with nemo till version 3_2_2 see also : [[BR]] [https://forge.ipsl.jussieu.fr/nemo/wiki/libIGCM/parallelpage parallelpage till nemo version 3_2_2]) [[BR]]54 ( To understand more on mono or multi proc run with nemo till version 3_2_2 see also : [[BR]] [https://forge.ipsl.jussieu.fr/nemo/wiki/libIGCM/parallelpage parallelpage till nemo version 3_2_2] ) [[BR]] 54 55 55 #-- PBS Class (required ONLY on brodie mono/multi) [[BR]] JobClass =mono [[BR]] #JobClass =multi [[BR]] #============================ [[BR]] #-- Total Number of Processors [[BR]] #JobNumProcTot =4 (put same number of processors choosen at compiling time, in this example is 4) [[BR]] JobNumProcTot =1 [[BR]] #============================ [[BR]] #-- Run Options : [[BR]] #JobRunOptions ='"-np "${BATCH_NUM_PROC_TOT}"' [[BR]] JobRunOptions ='' [[BR]] #============================ [[BR]]''56 #-- PBS Class (required ONLY on brodie mono/multi) [[BR]] JobClass =mono [[BR]] #JobClass =multi [[BR]] #============================ [[BR]] #-- Total Number of Processors [[BR]] #JobNumProcTot =4 (put same number of processors choosen at compiling time, in this example is 4) [[BR]] JobNumProcTot =1 [[BR]] #============================ [[BR]] #-- Run Options : [[BR]] #JobRunOptions ='"-np "${BATCH_NUM_PROC_TOT}"' [[BR]] JobRunOptions ='' [[BR]] #============================ [[BR]] '' 56 57 57 58 ==== How to set Init & Boundary condition's directory ==== 58 59 By default R_BC is commented, it does mean that INIT & Boundary files are in common account of IPSL, at IDRIS or CCRT : 59 60 60 #R_BC=/u/rech/psl/rpsl035/IGCM/BC [[BR]] #R_BC=/dmnfs/cont003/p86ipsl/IGCM/BC [[BR]]61 #R_BC=/u/rech/psl/rpsl035/IGCM/BC [[BR]] #R_BC=/dmnfs/cont003/p86ipsl/IGCM/BC [[BR]] 61 62 62 If you want to have you own directory you have to create a directory in wich you have to create OCE/ORCA2_LIM2 directory in which you have to put tar file : http://www.nemo-ocean.eu/Using-NEMO/Configurations/ORCA2_LIM [[BR]]with all initial files for nemo, and where you have to add your forcing files. [[BR]]63 If you want to have you own directory you have to create a directory in wich you have to create OCE/ORCA2_LIM2 directory in which you have to put tar file : http://www.nemo-ocean.eu/Using-NEMO/Configurations/ORCA2_LIM [[BR]] with all initial files for nemo, and where you have to add your forcing files. [[BR]] 63 64 64 65 ==== How to restart from another run ==== … … 67 68 If you want to restart from restart file of experience core260i (corersponding at the Job_core260i) of the year 2007 you have to put: 68 69 69 #================ [[BR]] #D-- Restarts - [[BR]] [Restarts] [[BR]] #D- If you want a GENERAL RULE FOR RESTARTS, put this flag to 'y' [[BR]] OverRule =y [[BR]] #D- Last day of the experience used as restart [[BR]] RestartDate =2007-12-31 [[BR]] #D- Define restart simulation name [[BR]] RestartJobName =core260i [[BR]] #D- Path Server Group Login [[BR]] RestartPath=${ARCHIVE}/IGCM_OUT/ORCA2_LIM2 [[BR]]70 #================ [[BR]] #D-- Restarts - [[BR]] [Restarts] [[BR]] #D- If you want a GENERAL RULE FOR RESTARTS, put this flag to 'y' [[BR]] OverRule =y [[BR]] #D- Last day of the experience used as restart [[BR]] RestartDate =2007-12-31 [[BR]] #D- Define restart simulation name [[BR]] RestartJobName =core260i [[BR]] #D- Path Server Group Login [[BR]] RestartPath =${ARCHIVE}/IGCM_OUT/ORCA2_LIM2 [[BR]] 70 71 71 72 ==== How to have post treatement ==== … … 73 74 74 75 ==== How to manage write output frequency ==== 75 in ORCA2_LIM/IGCM00/config.card you have to set !WriteFrequency of your experience76 in ORCA2_LIM/IGCM00/config.card you have to set !WriteFrequency of your experience 76 77 77 78 You can have multiple frequencies, you need to have a blank between every frequency, for example : [[BR]] 78 79 79 ''' ocean''' output files every 1 year and 1 month : [[BR]] #=================== [[BR]] #D-- OCE - [[BR]] [OCE] [[BR]] WriteFrequency="1Y 1M"80 ''' ocean''' output files every 1 year and 1 month : [[BR]] #=================== [[BR]] #D-- OCE - [[BR]] [OCE] [[BR]] WriteFrequency ="1Y 1M" 80 81 81 and ''' ice''' output files every 1 month : [[BR]] #=================== [[BR]] #D-- ICE - [[BR]] [ICE] [[BR]] WriteFrequency="1M"82 and ''' ice''' output files every 1 month : [[BR]] #=================== [[BR]] #D-- ICE - [[BR]] [ICE] [[BR]] WriteFrequency ="1M" 82 83 83 These settings have to be coherents also with path in ORCA2_LIM/IGCM00/COMP/''' opa9.card''' in part : [[BR]] [OutputFiles ] [[BR]] List= (${PREFIX_WF''' 1''' }_grid_T.nc, ${R_OUT_OCE_WF''' 1''' }/${PREFIX}_${WF''' 1'''}_grid_T.nc, NONE),\ [[BR]]84 (${PREFIX_WF''' 1''' }_grid_U.nc, ${R_OUT_OCE_WF''' 1''' }/${PREFIX}_${WF''' 1''' }_grid_U.nc, NONE),\ [[BR]] (${PREFIX_WF''' 1''' }_grid_V.nc, ${R_OUT_OCE_WF''' 1''' }/${PREFIX}_${WF''' 1''' }_grid_V.nc, NONE),\ [[BR]] (${PREFIX_WF''' 2''' }_grid_T.nc, ${R_OUT_OCE_WF''' 2''' }/${PREFIX}_${WF''' 2''' }_grid_T.nc, NONE),\ [[BR]] (${PREFIX_WF''' 2''' }_grid_U.nc, ${R_OUT_OCE_WF''' 2''' }/${PREFIX}_${WF''' 2''' }_grid_U.nc, NONE),\ [[BR]] (${PREFIX_WF''' 2''' }_grid_V.nc, ${R_OUT_OCE_WF''' 2''' }/${PREFIX}_${WF''' 2'''}_grid_V.nc, NONE),\ [[BR]]84 These settings have to be coherents also with path in ORCA2_LIM/IGCM00/COMP/''' opa9.card''' in part : [[BR]] OutputFiles [[BR]] List= (${PREFIX_WF''' 1''' }_grid_T.nc, ${R_OUT_OCE_WF''' 1''' }/${PREFIX}_${WF''' 1''' }_grid_T.nc, NONE),\ [[BR]] 85 (${PREFIX_WF''' 1''' }_grid_U.nc, ${R_OUT_OCE_WF''' 1''' }/${PREFIX}_${WF''' 1''' }_grid_U.nc, NONE),\ [[BR]] (${PREFIX_WF''' 1''' }_grid_V.nc, ${R_OUT_OCE_WF''' 1''' }/${PREFIX}_${WF''' 1''' }_grid_V.nc, NONE),\ [[BR]] (${PREFIX_WF''' 2''' }_grid_T.nc, ${R_OUT_OCE_WF''' 2''' }/${PREFIX}_${WF''' 2''' }_grid_T.nc, NONE),\ [[BR]] (${PREFIX_WF''' 2''' }_grid_U.nc, ${R_OUT_OCE_WF''' 2''' }/${PREFIX}_${WF''' 2''' }_grid_U.nc, NONE),\ [[BR]] (${PREFIX_WF''' 2''' }_grid_V.nc, ${R_OUT_OCE_WF''' 2''' }/${PREFIX}_${WF''' 2''' }_grid_V.nc, NONE),\ [[BR]] 85 86 86 87 You have to put number of frequencies that you put in part [OCE] of config.card (in this case you have 2 frequencies : 1Y 1M) 87 88 88 The same for ice : ORCA2_LIM/IGCM00/COMP/''' lim2.card'''(in this example you have only WF1)89 The same for ice : ORCA2_LIM/IGCM00/COMP/''' lim2.card''' (in this example you have only WF1) 89 90 90 ''' VERY IMPORTANT NOTE :''' these settings are to be coherents with the ones in iodef.xml see doc : ????? (to add link to seb?) [[BR]]In iodef.xml you can choose variables that you want to have in output at every frequency91 ''' VERY IMPORTANT NOTE :''' these settings are to be coherents with the ones in iodef.xml see doc : ????? (to add link to seb?) [[BR]] In iodef.xml you can choose variables that you want to have in output at every frequency 91 92 92 93 === How to manage Interannual or Climatological Runs === … … 94 95 You have to set 95 96 96 # Interannual_Run ''' y''' if you want to do interannual runs or ''' n'''if you want to do climatological runs97 # Interannual_Run ''' y''' if you want to do interannual runs or ''' n''' if you want to do climatological runs 97 98 98 # In [Interannual] section you have to fill List_jobsbc of file names like they appear in namelist. [[BR]] ( for example if you want to do interannual run using clio bulk core you can put : [[BR]]99 # In [Interannual] section you have to fill List_jobsbc of file names like they appear in namelist. [[BR]] ( for example if you want to do interannual run using clio bulk core you can put : [[BR]] 99 100 List_jobsbc=(flx, taux_1m, tauy_1m) 100 101 ) … … 102 103 === How to manage Interannual or Climatological Runs === 103 104 ==== in ORCA2_LIM/IGCM00/PARAM/'''namelist''' ==== 104 You have to set in "namsbc" part if you want to do climatological run and if you want to do an interpolation : [[BR]] ''' time interpol.''' (logical) and ''' clim'''(T/F)105 You have to set in "namsbc" part if you want to do climatological run and if you want to do an interpolation : [[BR]] ''' time interpol.''' (logical) and ''' clim''' (T/F) 105 106 106 107 see : [https://forge.ipsl.jussieu.fr/nemo/wiki/libIGCM/change_BC change_BC] 107 108 108 109 === How to have mail of end of Job, on ccrt's machines === 109 on mercure: in Job_Name: #PBS -M name@mail [[BR]] on platine: In Job_Name: #BSUB -u name@mail110 on mercure: in Job_Name: #PBS -M name@mail [[BR]] on platine: In Job_Name: #BSUB -u name@mail 110 111 111 112 Simona Flavoni last update: [[Timestamp]]