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Update CIME to ESMCI cime5.8.7 #3092

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f8e753f
Merge branch 'jgfouca/cam/cmakify' (PR #2922)
jgfouca May 29, 2019
5a7b543
Progress
jgfouca May 28, 2019
af7399f
Adds cmake 3.11.4 module to Compy's machine files
singhbalwinder May 30, 2019
f4416ac
Merge branch 'worleyph/cime/compy_perf_arch'
bibiraju May 30, 2019
9575a8a
Fix cmake building of atm on anlworkstation
jgfouca May 30, 2019
a7d1096
Implement a more-advanced way of sharing builds within test suites
jgfouca May 30, 2019
3bf427c
Swtich build group output to debug
jgfouca May 30, 2019
f1790b9
Merge branch 'jgfouca/cime/create_test_share_upgrade' into master (PR…
jgfouca May 30, 2019
c1c4245
start over with tests
oksanaguba May 29, 2019
88b5cce
move Externals.cfg to ../Externals_cime.cfg (UFSCOMP)
jedwards4b May 31, 2019
4f20a4b
Merge pull request #3124 from ESMCI/mvertens/usermodsdoc
jedwards4b May 31, 2019
fb19ae5
Cleanup whitespace / indentation
billsacks May 31, 2019
c9b6606
make test optional
jedwards4b May 31, 2019
c19271c
Move MAP xml variables into shared config_component.xml
billsacks May 31, 2019
56cca5c
fix indentation
jedwards4b May 31, 2019
9a2b690
revert change
jedwards4b May 31, 2019
6493b34
Merge pull request #3126 from jedwards4b/nuopc-cmeps
jedwards4b May 31, 2019
ea9b84a
moving thetasl test to shared execs set
oksanaguba May 31, 2019
d469e3d
Added files for ne30pg2 to run out of the box
whannah1 May 31, 2019
83063d6
Run_sub_or_cmd is not thread safe
jgfouca May 31, 2019
e218c9b
Use idmap_ignore for optional mapping files
billsacks May 31, 2019
8614f1c
Sandiatoss3 needs newer cmake
jgfouca Jun 3, 2019
7b9ca71
Changed how cubed_sphere_map is set
whannah1 Jun 3, 2019
5c43a15
Merge pull request #3123 from ESMCI/jgfouca/branch-for-acme-split-201…
jgfouca Jun 3, 2019
b629685
Added test_release as a supported test category
Jun 4, 2019
d86457d
Merge pull request #3128 from gold2718/add_test_release
jedwards4b Jun 4, 2019
2bae7d8
fix build issues for nuopc, add dir to .gitignore
jedwards4b Jun 4, 2019
978613b
Various clean up and bug fix
whannah1 Jun 4, 2019
92767b7
updates for nuopc on stampede
jedwards4b Jun 4, 2019
1f86eda
Merge branch 'jgfouca/clm/cmakify' (PR #2954)
jgfouca Jun 4, 2019
59a7b56
rework nuopc build
jedwards4b Jun 4, 2019
626d122
fix nuopc K_TestCimeCase
jedwards4b Jun 4, 2019
de8d905
fix py3 issue
jedwards4b Jun 4, 2019
637c8f4
Add logic to control activation of glcshelf_c2_ice
matthewhoffman Jun 5, 2019
0c6efeb
update cori modules
jedwards4b Jun 5, 2019
4d2bbfd
py3 and centos7-linux update
jedwards4b Jun 5, 2019
d40e715
Merge pull request #3132 from jedwards4b/cori_update
fischer-ncar Jun 5, 2019
6704570
Merge pull request #3133 from jedwards4b/centos7-update
fischer-ncar Jun 5, 2019
2c7a1f0
move batch_jobs to workflow_jobs
jedwards4b May 20, 2019
a213a90
add interface to env_workflow.xml and config_workflow.xml
jedwards4b May 20, 2019
256d032
fix pylint issues, inheritence
jedwards4b May 29, 2019
cf4d627
seperate workflow from batch config
jedwards4b May 29, 2019
cdfff10
add workflow for e3sm
jedwards4b May 29, 2019
d136cbe
add workflow to e3sm config_files.xml
jedwards4b May 29, 2019
c478d6d
revert this split
jedwards4b May 29, 2019
444959a
fix prereq logic
jedwards4b May 30, 2019
40d2a42
fix pylint issues
jedwards4b May 30, 2019
19559a0
fix py3 pylint issue
jedwards4b May 30, 2019
570bba8
fix py3 pylint issue
jedwards4b May 30, 2019
89fad14
Merge pull request #3085 from ESMCI/azamat/threading/dont-set-threads…
jgfouca Jun 5, 2019
0c7b60d
do not move mediator build
jedwards4b Jun 5, 2019
50f2adc
Moved PES specification for FV physgrid runs
whannah1 Jun 5, 2019
88abfe6
allow multiple workflow options to create_newcase
jedwards4b Jun 5, 2019
19d3648
Update for cime5.6.18
fischer-ncar Jun 5, 2019
1b211e3
Merge branch 'master' of https://github.com/ESMCI/cime
Jun 5, 2019
daf05e9
Merge pull request #3129 from jedwards4b/nuopc_build_fixes
mvertens Jun 5, 2019
a8bf363
Merge branch 'master' of https://github.com/ESMCI/cime
Jun 5, 2019
caa0dcf
fixes for nuopc scripts_regressions_tests to work
Jun 5, 2019
6e707bc
fix in a py2 compatible way
jedwards4b Jun 5, 2019
40615b7
Merge pull request #3134 from jedwards4b/encodefixagain
fischer-ncar Jun 6, 2019
4c705f9
Update compiler and MPI modules on Summit
sarats Jun 6, 2019
714c9ad
Add NetCDF paths to config_compilers for Summit
sarats Jun 6, 2019
5d44b2c
Summit: Remove Romio workaround for OOM errors
sarats Jun 6, 2019
1510f24
Summit: mpirun wrapper moved to cli115
sarats Jun 6, 2019
6cf0885
backout case_run change, fix cori-knl build
jedwards4b Jun 6, 2019
52b581d
Update CIME to ESMCI cime5.8.2-3 (PR #2967)
jgfouca Jun 6, 2019
3812456
Update anvils cmake version
jgfouca Jun 6, 2019
046e63b
Merge branch 'jgfouca/cime/update_anvil_cmake' into master (PR #2977)
jgfouca Jun 6, 2019
b0990c7
fix case_run and cori-knl
jedwards4b Jun 6, 2019
1adcdeb
Merge pull request #3136 from jedwards4b/cori_and_case_run
fischer-ncar Jun 6, 2019
27dcebe
fix nuopc build, update for stamepede esmf lib
jedwards4b Jun 6, 2019
f2247cb
Update for cime5.6.19
fischer-ncar Jun 6, 2019
28d58b1
update esmf nuopc build on cheyenne
jedwards4b Jun 6, 2019
69de0cb
change hires settings to lowres
oksanaguba Jun 6, 2019
f383ae6
Merge pull request #3137 from jedwards4b/build_fix
jedwards4b Jun 6, 2019
2b9dc42
moving tests to integration
oksanaguba Jun 6, 2019
773e629
avoid divide by 0 when timing file is bad
jedwards4b Jun 7, 2019
9f39361
Add logic to control activation of glcshelf_c2_ice (#3131)
billsacks Jun 7, 2019
958190c
Merge pull request #3138 from jedwards4b/timing_0_fix
fischer-ncar Jun 7, 2019
b51b397
Update for cime5.8.3
fischer-ncar Jun 7, 2019
df69046
changes to have TG compset work correctly
Jun 10, 2019
02563fd
Merge branch 'oksanaguba/eam/tests-ftypes2' (PR #2955)
jgfouca Jun 10, 2019
6ed296e
Merge esmci_remote_for_split/master
jgfouca Jun 10, 2019
b0a787b
Remove duped code
jgfouca Jun 10, 2019
1878414
Revert "Merge pull request #3085 from ESMCI/azamat/threading/dont-set…
jgfouca Jun 10, 2019
7789ed4
Update Compy config
Jun 10, 2019
3c196ff
Summit: add basic CXX options to config_compilers.
sarats Jun 11, 2019
47aea3b
Summit: backup config for home dir based builds
sarats Jun 11, 2019
180ae0d
Fix pylint error
jgfouca Jun 11, 2019
5ef0c73
change test to allow for nuopc
jedwards4b Jun 11, 2019
b0a7b75
Merge pull request #3141 from jedwards4b/nuopc_nodefail_fix
jgfouca Jun 11, 2019
54cb3fb
Cmake macro no longer relies on environment
jgfouca Jun 11, 2019
1f8d04a
Better fix for cmake macros
jgfouca Jun 11, 2019
7b4bdd3
Summit: upgrade PGI to 19.4
sarats Jun 11, 2019
40361f0
Typo fix
jgfouca Jun 11, 2019
ae6ee47
Another fix
jgfouca Jun 11, 2019
7366718
Fix some occurances of FFLAGS_NOOPT that now need FFLAGS
jgfouca Jun 11, 2019
c5179c3
Update sandia wcid project
jgfouca Jun 11, 2019
c88acfb
Summit: Add CXX libs for PGI build
sarats Jun 12, 2019
22b6a44
Summit: comment out CXX libs
sarats Jun 12, 2019
45e0345
move so that var is defined
jedwards4b Jun 12, 2019
a3d36d3
Merge pull request #3139 from ESMCI/jgfouca/branch-for-acme-split-201…
jgfouca Jun 12, 2019
fc598a7
Merge pull request #3143 from jedwards4b/incflagfix
jedwards4b Jun 12, 2019
f53ed9c
Add presaero file fo rSSP1-2.6
ekluzek Jun 12, 2019
fb783d1
Merge branch 'sarats/machinefiles/summit-june5' (PR #2973)
minxu74 Jun 12, 2019
fc70da1
Merge pull request #3125 from jedwards4b/add_workflow_xml
fischer-ncar Jun 13, 2019
1c22a99
require ids in namelist definition files to be lower case
jedwards4b Jun 13, 2019
99d6925
Build groups need to be hashable for cesm
jgfouca Jun 13, 2019
4567384
Merge pull request #3146 from ESMCI/jgfouca/fix_test_sched_cesm
jgfouca Jun 13, 2019
338daf4
if CIME_DRIVER=nuopc add pylint check for nuopc files
jedwards4b Jun 13, 2019
3c28a33
Merge pull request #3145 from jedwards4b/downcase_namelist_definition
jedwards4b Jun 13, 2019
1a36bcd
mods for Theia slurm job scheduler
uturuncoglu Jun 13, 2019
973b767
remove comment
jedwards4b Jun 13, 2019
38b5153
Merge pull request #3147 from jedwards4b/nuopc_code_checker
jedwards4b Jun 13, 2019
6259432
fix for Theia
uturuncoglu Jun 13, 2019
e424058
Add Intel-MPI library as default mpi-lib
Jun 13, 2019
7a2c735
Update provenance.py to reflect changes in config_batch.xml
worleyph Jun 14, 2019
41c0649
Squashed 'src/externals/pio2/' changes from 0f241db..6f0afaa
jedwards4b Jun 14, 2019
2e0bc58
update pio2 to pio2.4.4
jedwards4b Jun 14, 2019
6f1273b
fix more conflicts
jedwards4b Jun 14, 2019
439881d
Makefile cleanup for mpi-serial build
jedwards4b Jun 14, 2019
b85c408
reset default pio_version to 1
jedwards4b Jun 14, 2019
a170130
Merge pull request #3148 from jedwards4b/pio2_update
jgfouca Jun 14, 2019
5c379f8
fix linker error
jedwards4b Jun 17, 2019
a6965d3
Update pelayouts for intel-mpi
amametjanov Jun 18, 2019
8f0e3d3
Merge pull request #3150 from ESMCI/theia_to_slurm
jedwards4b Jun 18, 2019
5dea317
Added new test SMS_Ln5.ne30pg2_ne30pg2.FC5AV1C-L
whannah1 Jun 18, 2019
d86a1c7
Removed pg2 test
whannah1 Jun 18, 2019
1e9b773
Use intel erf function implementation (continue)
Oct 27, 2018
750d06a
Use intel erf function implementation (continue)
Oct 31, 2018
9e3ab25
Remove CPRINTEL from shr_spfn_mod.F90
rljacob Jun 18, 2019
1809d3e
Add -DHAVE_ERF_INTRINSICS to theta intel
rljacob Jun 18, 2019
b2c4f92
Merge branch 'azamat/compy/add-lowres-pes' (PR #2987)
bibiraju Jun 19, 2019
8de822d
Added ne30pg2 test to e3sm_atm_extra_coverage
whannah1 Jun 20, 2019
cc42fc5
changes for athena port version 2
Feb 19, 2019
40268f3
changes for ar
jedwards4b Feb 19, 2019
227b1f3
cleanup
jedwards4b Feb 19, 2019
ba90244
allow ar and arflags
jedwards4b Feb 19, 2019
35d387a
allow ar and arflags again
jedwards4b Feb 19, 2019
a45da6b
changes at scripts_regression_tests.py for athena port
daniele-peano Feb 19, 2019
c530249
add nemo ocean model
daniele-peano Jun 20, 2019
b734d15
Merge branch 'jackreeveseyre/cime/alternate_surface_flux' (PR #2972)
singhbalwinder Jun 20, 2019
3eb771d
Update for cime5.8.4
fischer-ncar Jun 24, 2019
26b4ec5
Merge remote-tracking branch 'esmci/maint-5.6' into presaerossp2126
ekluzek Jun 24, 2019
d3390cb
Merge branch 'shz0116/cam/erf' (PR #2586)
rljacob Jun 25, 2019
c95bb41
Also point to the SSP1-2.6 datafile
ekluzek Jun 25, 2019
f27b6b7
Update CIME to ESMCI cime5.8.3 (PR #3010)
jgfouca Jun 25, 2019
181fb16
Merge commit 'c95bb4130' into presaerossp2126
ekluzek Jun 25, 2019
6f90876
Add support for ne4pg2 w/ topography for testing
whannah1 Jun 25, 2019
933c501
Added ne4pg2 test to e3sm_atm_developer
whannah1 Jun 25, 2019
fdc2330
further correction for NEMO resubmit and st_archive
daniele-peano Jun 25, 2019
b6488e9
cleanup from extra comment lines
daniele-peano Jun 25, 2019
ed6a2df
cleanup
daniele-peano Jun 25, 2019
c3172b9
Modified pecount for pg2 test
whannah1 Jun 25, 2019
e444173
Added new default ATM_NCPL for ne4pg2
whannah1 Jun 25, 2019
4bdc200
add short term archive for unified restart case
daniele-peano Jun 25, 2019
9582b14
Merge esmci_remote_for_split/master
jgfouca Jun 26, 2019
2e84202
Merge pull request #3152 from ekluzek/presaerossp2126
jedwards4b Jun 26, 2019
c7c742d
fix pylint issues
jedwards4b Jun 26, 2019
53527bc
Merge pull request #3154 from ESMCI/jgfouca/branch-for-acme-split-201…
jgfouca Jun 26, 2019
bbfb958
move CPP NEMO option from config_compilers.xml to nemo/buildlib
daniele-peano Jun 26, 2019
6807212
update mkDepends to account for NEMO case
daniele-peano Jun 26, 2019
735053c
Merge pull request #3153 from ESMCI/peano/nemo
jedwards4b Jun 27, 2019
27a929a
explicitly declare rootpe to be zero for pts_mode
Jun 27, 2019
aa8ecf6
CICE_CPPDEFS was not being set correctly in some cases.
jgfouca Jun 27, 2019
42cf8cd
replace tab characters with spaces
sarich Jun 27, 2019
9b788ef
remove duplicate -lfms flag
alperaltuntas Jun 28, 2019
7a4d6b4
Merge branch E3SM-Project/ndk/machinefiles/cori-impib (PR #2939)
ndkeen Jun 28, 2019
9add3dd
Merge branch 'bogensch/cime/SCM_SE_test' (PR #3024)
sarich Jun 28, 2019
569df25
Merge branch 'jgfouca/cice/fix_cice_nml' into master (PR #3025)
jgfouca Jun 28, 2019
8e2dbfb
revert case_submit changes
alperaltuntas Jun 28, 2019
0a0e655
relax eps_ogrid
alperaltuntas Jun 28, 2019
c7981c7
switch back to PIO_VERSION 2
alperaltuntas Jun 28, 2019
2dd3487
remove Eulerian SCM developer test
Jun 28, 2019
1f0df57
remove nuopc driver
alperaltuntas Jun 28, 2019
e705272
make user_nl case insensitive without downcasing
jedwards4b Jul 1, 2019
a3239bd
cleanup code
jedwards4b Jul 1, 2019
d9b9b8e
Enable archiving of performance data for NERSC allocation m3411
Jul 1, 2019
7909ceb
add citation to original
jedwards4b Jul 1, 2019
603fcc6
Merge pull request #3157 from jedwards4b/caseinsensitive_usernl
jedwards4b Jul 1, 2019
065dad3
changes needed for mom6 validationn
Jun 17, 2019
efa9fe0
new updates for commit
Jun 24, 2019
daa8cc6
changes to get grids consistent with master
Jun 24, 2019
9923c43
fix workflow_changes branch history
jedwards4b Jul 2, 2019
ee69aed
redo to fix git history
jedwards4b Jul 2, 2019
aa3910f
Enable archiving of performance data for NERSC allocation m3412
Jul 2, 2019
235c9ac
removed history alarm to be on at every timestep
Jul 5, 2019
27fce86
put correct wallclock format for cheyenne
jedwards4b Jul 8, 2019
09c0a96
Merge pull request #3159 from jedwards4b/aleph_port
jedwards4b Jul 9, 2019
35b78be
Merge pull request #3160 from jedwards4b/workflow_changes
jedwards4b Jul 9, 2019
ba17f31
Merge pull request #3164 from jedwards4b/maint-5.6_cheyenne_wallclock…
jedwards4b Jul 9, 2019
015178e
Merge branch 'whannah/atm/new_physgrid_rebase' (PR #2933)
singhbalwinder Jul 9, 2019
802bf0d
fix error in job_id
jedwards4b Jul 9, 2019
a47ac4b
SE grid updates
fischer-ncar Jul 9, 2019
2c6f471
Merge branch E3SM-Project/worleyph/machinefiles/add_m3411 (PR #3037)
ndkeen Jul 9, 2019
f71063f
Removed P96 from pg2 test
whannah1 Jul 9, 2019
a8bcd25
tweak so HOMME test case only builds needed executables
mt5555 Jul 10, 2019
df7ee7d
Removed pg1 and pg2 entries from config_pesall
whannah1 Jul 10, 2019
910960c
Merge pull request #3166 from ESMCI/mvertens/mom6_validation
jedwards4b Jul 10, 2019
0463588
Merge pull request #3165 from ESMCI/fischer/SE_grids
jedwards4b Jul 11, 2019
8eefe6b
creates a workflow for cylc
jedwards4b Jul 11, 2019
2d49367
dont check env_batch if external workflow
jedwards4b Jul 11, 2019
1d51f08
Merge branch 'whannah/atm/update_pg2_test' (PR #3052)
rljacob Jul 11, 2019
2939d68
add gnu-5.3.0 to anvil-intel environment
sarich Jul 11, 2019
097facf
more workflow
jedwards4b Jul 12, 2019
a436307
Add support to run SE CONUS grid with mt12 mask
fischer-ncar Jul 12, 2019
48db07a
getting closer
jedwards4b Jul 12, 2019
792204b
pylint cleanup
jedwards4b Jul 12, 2019
ba5ce7f
Merge pull request #3167 from ESMCI/fischer/SE_conusmt12
jedwards4b Jul 12, 2019
bfe78cb
create an ensemble of clones
jedwards4b Jul 12, 2019
3844d10
works without option
jedwards4b Jul 12, 2019
a2a48c4
Merge pull request #3168 from jedwards4b/jedwards/workflow_development
jedwards4b Jul 15, 2019
f706b32
more help
jedwards4b Jul 15, 2019
12ca870
Merge pull request #3169 from jedwards4b/ensemble_clone
jedwards4b Jul 15, 2019
db013a6
workflow for ensemble
jedwards4b Jul 16, 2019
6369c4b
Add ESMF modules for cheyenne
fischer-ncar Jul 16, 2019
07f0945
Merge pull request #3172 from ESMCI/fischer/fix_esmfmodules
fischer-ncar Jul 16, 2019
86f09f3
Update for cime5.8.6
fischer-ncar Jul 16, 2019
a98aef1
add support for ensembles
jedwards4b Jul 16, 2019
a3af502
Merge branch 'maint-5.6' into jedwards/more_workflow
jedwards4b Jul 16, 2019
84bc0b5
fix pylint issue
jedwards4b Jul 16, 2019
efc7e8a
Merge branch 'jedwards/more_workflow' of github.com:jedwards4b/cime i…
jedwards4b Jul 16, 2019
c5bd856
Merge pull request #3173 from jedwards4b/jedwards/more_workflow
jedwards4b Jul 16, 2019
c9a9d52
merge of maint-5.6 to master, lots of conflicts
jedwards4b Jul 17, 2019
43459d3
Update CIME to ESMCI cime5.8.6 (#3073)
jgfouca Jul 17, 2019
51c8b94
Make create_dirs more robust when multiple threads are running
jgfouca Jul 17, 2019
36901fe
resolve conflicts
jedwards4b Jul 17, 2019
7a5d603
Merge pull request #3174 from jedwards4b/maint-5.6-merge
jedwards4b Jul 17, 2019
cf10e65
Merge tag 'cime5.8.6' into nuopc-cmeps-os
alperaltuntas Jul 18, 2019
764ef08
Merge pull request #3156 from ESMCI/nuopc-cmeps-os
jedwards4b Jul 18, 2019
fa65b5a
Fixes for ne120 and se CONUS grid masks
fischer-ncar Jul 18, 2019
cbce290
Fixes for ne120 gx1v7 masks
fischer-ncar Jul 18, 2019
a8b0389
Remove a file that was accidently added.
fischer-ncar Jul 19, 2019
60df9fe
Tar old test results
jgfouca Jul 19, 2019
6efe217
Merge pull request #3177 from ESMCI/fischer/SE_gx1v7MaskFix
jedwards4b Jul 19, 2019
e3a233c
Merge branch 'sarich/anvil-intel-add-gnu-53' PR #3076
sarich Jul 19, 2019
def917e
all stubs is not supported in nuopc
jedwards4b Jul 19, 2019
ed4d7b8
revert whitespace change
jedwards4b Jul 19, 2019
9eda5dd
Update for cime5.8.7
fischer-ncar Jul 19, 2019
bdcf33d
fix an issue with shr_assert_mod in mkDepends
jedwards4b Jul 19, 2019
d7f56ac
Merge pull request #3178 from jedwards4b/nuopc_interface_fix
jedwards4b Jul 19, 2019
8109c23
Merge esmci_remote_for_split/master
jgfouca Jul 22, 2019
0bcb41b
Fixes for broken stuff on master
jgfouca Jul 22, 2019
b6d24ea
Merge pull request #3181 from ESMCI/jgfouca/branch-for-acme-split-201…
jgfouca Jul 22, 2019
10e98ae
Fix some test fails
jgfouca Jul 22, 2019
86f60df
Merge pull request #3183 from ESMCI/jgfouca/fix_test_fails
jgfouca Jul 23, 2019
b10f265
Point to new mapping files for r05 <-> f10 mapping
billsacks Jul 25, 2019
f274483
Merge pull request #3186 from billsacks/fix_r05_f10_maps
fischer-ncar Jul 26, 2019
f1a4a59
Merge pull request #3187 from ESMCI/mvertens/nuopc-cism-changes
fischer-ncar Jul 26, 2019
8f66647
Merge commit 'f1a4a59cdc304214271c72ff767462436da510d4' into jgfouca/…
jgfouca Jul 29, 2019
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67 changes: 67 additions & 0 deletions cime/ChangeLog
Original file line number Diff line number Diff line change
@@ -1,5 +1,72 @@
======================================================================

Originator: Chris Fischer
Date: 7-19-209
Tag: cime5.8.7
Answer Changes: Climate changing for CAM ne120, ne120pg3, ne0CONUS grids
Tests: scripts_regression_tests
Dependencies:

Brief Summary:
- Fix SE to gx1v7 domain and mapping files.
- Updates and fixes for MOM6 in cime.
- Maint 5.6 merge.

User interface changes:

PR summary: git log --oneline --first-parent [previous_tag]..master
6efe21745 Merge pull request #3177 from ESMCI/fischer/SE_gx1v7MaskFix
764ef08a0 Merge pull request #3156 from ESMCI/nuopc-cmeps-os
7a5d60356 Merge pull request #3174 from jedwards4b/maint-5.6-merge

Modified files: git diff --name-status [previous_tag]
M config/cesm/config_files.xml
M config/cesm/config_grids.xml
M config/cesm/config_grids_mct.xml
M config/cesm/machines/config_batch.xml
M config/cesm/machines/config_compilers.xml
M config/cesm/machines/config_machines.xml
A config/cesm/machines/config_workflow.xml
A config/cesm/machines/cylc_suite.rc.template
M config/config_headers.xml
M config/e3sm/config_files.xml
M config/e3sm/machines/config_batch.xml
A config/e3sm/machines/config_workflow.xml
M config/xml_schemas/config_batch.xsd
A config/xml_schemas/config_workflow.xsd
M scripts/Tools/Makefile
M scripts/Tools/archive_metadata
A scripts/Tools/generate_cylc_workflow.py
M scripts/Tools/mkDepends
M scripts/Tools/preview_run
M scripts/create_clone
M scripts/create_newcase
M scripts/lib/CIME/Servers/wget.py
M scripts/lib/CIME/XML/batch.py
M scripts/lib/CIME/XML/env_base.py
M scripts/lib/CIME/XML/env_batch.py
M scripts/lib/CIME/XML/env_mach_specific.py
A scripts/lib/CIME/XML/env_workflow.py
M scripts/lib/CIME/XML/generic_xml.py
A scripts/lib/CIME/XML/workflow.py
M scripts/lib/CIME/aprun.py
M scripts/lib/CIME/case/case.py
M scripts/lib/CIME/case/case_clone.py
M scripts/lib/CIME/case/case_run.py
M scripts/lib/CIME/case/case_setup.py
M scripts/lib/CIME/case/case_st_archive.py
M scripts/lib/CIME/case/case_submit.py
M scripts/lib/CIME/get_timing.py
M scripts/tests/scripts_regression_tests.py
M src/build_scripts/buildlib.csm_share
M src/components/data_comps/datm/cime_config/namelist_definition_datm.xml
M src/components/data_comps/dice/nuopc/dice_comp_mod.F90
M src/drivers/mct/cime_config/config_component.xml
M src/drivers/mct/cime_config/config_component_cesm.xml
M src/share/util/shr_file_mod.F90

======================================================================

Originator: Chris Fischer
Date: 7-16-2019
Tag: cime5.8.6
Expand Down
18 changes: 18 additions & 0 deletions cime/config/cesm/config_files.xml
Original file line number Diff line number Diff line change
Expand Up @@ -51,6 +51,15 @@
<schema>$CIMEROOT/config/xml_schemas/config_batch.xsd</schema>
</entry>

<entry id="WORKFLOW_SPEC_FILE">
<type>char</type>
<default_value>$CIMEROOT/config/$MODEL/machines/config_workflow.xml</default_value>
<group>case_last</group>
<file>env_case.xml</file>
<desc>file containing workflow (for documentation only - DO NOT EDIT)</desc>
<schema>$CIMEROOT/config/xml_schemas/config_workflow.xsd</schema>
</entry>

<entry id="INPUTDATA_SPEC_FILE">
<type>char</type>
<default_value>$CIMEROOT/config/$MODEL/config_inputdata.xml</default_value>
Expand Down Expand Up @@ -126,6 +135,7 @@
<values>
<value component="pop" >$SRCROOT/components/pop/</value>
<value component="mom" >$SRCROOT/components/mom/</value>
<value component="nemo" >$SRCROOT/components/nemo/</value>
<value component="docn" >$CIMEROOT/src/components/data_comps/docn</value>
<value component="socn" >$CIMEROOT/src/components/stub_comps/socn</value>
<value component="xocn" >$CIMEROOT/src/components/xcpl_comps/xocn</value>
Expand Down Expand Up @@ -251,6 +261,7 @@
<value component="cice" >$COMP_ROOT_DIR_ICE/cime_config/config_compsets.xml</value>
<value component="pop" >$COMP_ROOT_DIR_OCN/cime_config/config_compsets.xml</value>
<value component="mom" >$COMP_ROOT_DIR_OCN/cime_config/config_compsets.xml</value>
<value component="nemo" >$COMP_ROOT_DIR_OCN/cime_config/config_compsets.xml</value>
</values>
<group>case_last</group>
<file>env_case.xml</file>
Expand All @@ -271,6 +282,7 @@
<value component="cice" >$COMP_ROOT_DIR_ICE/cime_config/config_pes.xml</value>
<value component="pop" >$COMP_ROOT_DIR_OCN/cime_config/config_pes.xml</value>
<value component="mom" >$COMP_ROOT_DIR_OCN/cime_config/config_pes.xml</value>
<value component="nemo" >$COMP_ROOT_DIR_OCN/cime_config/config_pes.xml</value>
</values>
<group>case_last</group>
<file>env_case.xml</file>
Expand All @@ -297,6 +309,7 @@
<value component="cice" >$COMP_ROOT_DIR_ICE/cime_config/config_archive.xml</value>
<value component="pop" >$COMP_ROOT_DIR_OCN/cime_config/config_archive.xml</value>
<value component="mom" >$COMP_ROOT_DIR_OCN/cime_config/config_archive.xml</value>
<value component="nemo" >$COMP_ROOT_DIR_OCN/cime_config/config_archive.xml</value>
<value component="rtm" >$COMP_ROOT_DIR_ROF/cime_config/config_archive.xml</value>
<value component="mosart" >$COMP_ROOT_DIR_ROF/cime_config/config_archive.xml</value>
</values>
Expand All @@ -314,6 +327,7 @@
<value component="cam">$COMP_ROOT_DIR_ATM/cime_config/SystemTests</value>
<value component="pop">$COMP_ROOT_DIR_OCN/cime_config/SystemTests</value>
<value component="mom">$COMP_ROOT_DIR_OCN/cime_config/SystemTests</value>
<value component="nemo">$COMP_ROOT_DIR_OCN/cime_config/SystemTests</value>
<value component="cice">$COMP_ROOT_DIR_ICE/cime_config/SystemTests</value>
<value component="cism">$COMP_ROOT_DIR_GLC/cime_config/SystemTests</value>
<value component="rtm">$COMP_ROOT_DIR_ROF/cime_config/SystemTests</value>
Expand All @@ -336,6 +350,7 @@
<value component="cice" >$COMP_ROOT_DIR_ICE/cime_config/testdefs/testlist_cice.xml</value>
<value component="pop" >$COMP_ROOT_DIR_OCN/cime_config/testdefs/testlist_pop.xml</value>
<value component="mom" >$COMP_ROOT_DIR_OCN/cime_config/testdefs/testlist_mom.xml</value>
<value component="nemo" >$COMP_ROOT_DIR_OCN/cime_config/testdefs/testlist_nemo.xml</value>
<value component="rtm" >$COMP_ROOT_DIR_ROF/cime_config/testdefs/testlist_rtm.xml</value>
<value component="mosart" >$COMP_ROOT_DIR_ROF/cime_config/testdefs/testlist_mosart.xml</value>
</values>
Expand All @@ -359,6 +374,7 @@
<value component="mosart" >$COMP_ROOT_DIR_ROF/cime_config/testdefs/testmods_dirs</value>
<value component="pop" >$COMP_ROOT_DIR_OCN/cime_config/testdefs/testmods_dirs</value>
<value component="mom" >$COMP_ROOT_DIR_OCN/cime_config/testdefs/testmods_dirs</value>
<value component="nemo" >$COMP_ROOT_DIR_OCN/cime_config/testdefs/testmods_dirs</value>
</values>
<group>case_last</group>
<file>env_case.xml</file>
Expand All @@ -379,6 +395,7 @@
<value component="mosart" >$COMP_ROOT_DIR_ROF/cime_config/usermods_dirs</value>
<value component="pop" >$COMP_ROOT_DIR_OCN/cime_config/usermods_dirs</value>
<value component="mom" >$COMP_ROOT_DIR_OCN/cime_config/usermods_dirs</value>
<value component="nemo" >$COMP_ROOT_DIR_OCN/cime_config/usermods_dirs</value>
</values>
<group>case_last</group>
<file>env_case.xml</file>
Expand Down Expand Up @@ -406,6 +423,7 @@
<value component="clm" >$COMP_ROOT_DIR_LND/bld/namelist_files/namelist_definition_ctsm.xml</value>
<value component="pop" >$COMP_ROOT_DIR_OCN/bld/namelist_files/namelist_definition_pop.xml</value>
<value component="mom" >$COMP_ROOT_DIR_OCN/bld/namelist_files/namelist_definition_mom.xml</value>
<value component="nemo" >$COMP_ROOT_DIR_OCN/bld/namelist_files/namelist_definition_nemo.xml</value>
-->
</values>
<group>case_last</group>
Expand Down
76 changes: 72 additions & 4 deletions cime/config/cesm/config_grids.xml
Original file line number Diff line number Diff line change
Expand Up @@ -246,6 +246,20 @@
<mask>tx1v1</mask>
</model_grid>

<model_grid alias="T62_n13" not_compset="_CAM">
<grid name="atm">T62</grid>
<grid name="lnd">T62</grid>
<grid name="ocnice">tn1v3</grid>
<mask>tn1v3</mask>
</model_grid>

<model_grid alias="T62_n0253" not_compset="_CAM">
<grid name="atm">T62</grid>
<grid name="lnd">T62</grid>
<grid name="ocnice">tn0.25v3</grid>
<mask>tn0.25v3</mask>
</model_grid>

<model_grid alias="T62_t12" not_compset="_CAM">
<grid name="atm">T62</grid>
<grid name="lnd">T62</grid>
Expand Down Expand Up @@ -343,6 +357,20 @@
<mask>gx1v7</mask>
</model_grid>

<model_grid alias="f02_n13">
<grid name="atm">0.23x0.31</grid>
<grid name="lnd">0.23x0.31</grid>
<grid name="ocnice">tn1v3</grid>
<mask>tn1v3</mask>
</model_grid>

<model_grid alias="f02_n0253">
<grid name="atm">0.23x0.31</grid>
<grid name="lnd">0.23x0.31</grid>
<grid name="ocnice">tn0.25v3</grid>
<mask>tn0.25v3</mask>
</model_grid>

<model_grid alias="f02_t12">
<grid name="atm">0.23x0.31</grid>
<grid name="lnd">0.23x0.31</grid>
Expand Down Expand Up @@ -385,6 +413,20 @@
<mask>gx1v7</mask>
</model_grid>

<model_grid alias="f09_n13">
<grid name="atm">0.9x1.25</grid>
<grid name="lnd">0.9x1.25</grid>
<grid name="ocnice">tn1v3</grid>
<mask>tn1v3</mask>
</model_grid>

<model_grid alias="f09_n0253">
<grid name="atm">0.9x1.25</grid>
<grid name="lnd">0.9x1.25</grid>
<grid name="ocnice">tn0.25v3</grid>
<mask>tn0.25v3</mask>
</model_grid>

<model_grid alias="f09_g16_gl4" compset="_CISM">
<grid name="atm">0.9x1.25</grid>
<grid name="lnd">0.9x1.25</grid>
Expand Down Expand Up @@ -1163,6 +1205,10 @@
<nx>1152</nx> <ny>768</ny>
<file grid="atm|lnd" mask="gx1v6">domain.lnd.fv0.23x0.31_gx1v6.100517.nc</file>
<file grid="ocnice" mask="gx1v6">domain.ocn.0.23x0.31_gx1v6_101108.nc</file>
<file grid="atm|lnd" mask="tn1v3">domain.lnd.fv0.23x0.31_tn1v3.160414.nc</file>
<file grid="ocnice" mask="tn1v3">domain.ocn.fv0.23x0.31_tn1v3.160414.nc</file>
<file grid="atm|lnd" mask="tn0.25v3">domain.lnd.fv0.23x0.31_tn0.25v3.160721.nc</file>
<file grid="ocnice" mask="tn0.25v3">domain.ocn.fv0.23x0.31_tn0.25v3.160721.nc</file>
<desc>0.23x0.31 is FV 1/4-deg grid:</desc>
</domain>

Expand All @@ -1184,6 +1230,12 @@
<file grid="ocnice" mask="gx1v7">domain.ocn.fv0.9x1.25_gx1v7.151020.nc</file>
<file grid="atm|lnd" mask="tx0.66v1">domain.lnd.fv0.9x1.25_tx0.66v1.190314.nc</file>
<file grid="ocnice" mask="tx0.66v1">domain.ocn.fv0.9x1.25_tx0.66v1.190314.nc</file>
<file grid="atm|lnd" mask="tn1v3">domain.lnd.fv0.9x1.25_tn1v3.160414.nc</file>
<file grid="ocnice" mask="tn1v3">domain.ocn.fv0.9x1.25_tn1v3.160414.nc</file>
<file grid="atm|lnd" mask="tn0.25v3">domain.lnd.fv0.9x1.25_tn0.25v3.160721.nc</file>
<file grid="ocnice" mask="tn0.25v3">domain.ocn.fv0.9x1.25_tn0.25v3.160721.nc</file>
<file grid="atm|lnd" mask="null">/glade/u/home/benedict/ys/datain/domain.aqua.fv0.9x1.25.nc</file>
<file grid="ocnice" mask="null">/glade/u/home/benedict/ys/datain/domain.aqua.fv0.9x1.25.nc</file>
<mesh driver="nuopc">$DIN_LOC_ROOT/share/meshes/fv0.9x1.25_141008_polemod_ESMFmesh.nc</mesh>
<desc>0.9x1.25 is FV 1-deg grid:</desc>
</domain>
Expand Down Expand Up @@ -1259,6 +1311,8 @@
<file grid="ocnice" mask="gx1v7" >$DIN_LOC_ROOT/share/domains/domain.ocn.T62_gx1v7.151008.nc</file>
<file grid="ocnice" mask="gx3v7" >$DIN_LOC_ROOT/share/domains/domain.ocn.T62_gx3v7.130409.nc</file>
<file grid="ocnice" mask="tx0.66v1">$DIN_LOC_ROOT/share/domains/domain.ocn.T62_tx0.66v1.190425.nc</file>
<file grid="atm|lnd" mask="tn1v3">$DIN_LOC_ROOT/share/domains/domain.lnd.T62_tn1v3.160414.nc</file>
<file grid="atm|lnd" mask="tn0.25v3">$DIN_LOC_ROOT/share/domains/domain.lnd.T62_tn0.25v3.160721.nc</file>
<mesh driver="nuopc">$DIN_LOC_ROOT/share/meshes/T62_040121_ESMFmesh.nc</mesh>
<desc>T62 is Gaussian grid:</desc>
</domain>
Expand Down Expand Up @@ -1383,8 +1437,8 @@
<nx>777602</nx> <ny>1</ny>
<file grid="atm|lnd" mask="gx1v6">$DIN_LOC_ROOT/share/domains/domain.lnd.ne120np4_gx1v6.110502.nc</file>
<file grid="ocnice" mask="gx1v6">$DIN_LOC_ROOT/share/domains/domain.ocn.ne120np4_gx1v6.121113.nc</file>
<file grid="atm|lnd" mask="gx1v7">$DIN_LOC_ROOT/share/domains/domain.lnd.ne120np4_gx1v7.190502.nc</file>
<file grid="ocnice" mask="gx1v7">$DIN_LOC_ROOT/share/domains/domain.ocn.ne120np4_gx1v7.190502.nc</file>
<file grid="atm|lnd" mask="gx1v7">$DIN_LOC_ROOT/share/domains/domain.lnd.ne120np4_gx1v7.190718.nc</file>
<file grid="ocnice" mask="gx1v7">$DIN_LOC_ROOT/share/domains/domain.ocn.ne120np4_gx1v7.190718.nc</file>
<desc>ne120np4 is Spectral Elem 1/4-deg grid:</desc>
</domain>

Expand All @@ -1399,8 +1453,8 @@

<domain name="ne120np4.pg3">
<nx>777600</nx> <ny>1</ny>
<file grid="atm|lnd" mask="gx1v7">$DIN_LOC_ROOT/share/domains/domain.lnd.ne120np4.pg3_gx1v7.190503.nc</file>
<file grid="ocnice" mask="gx1v7">$DIN_LOC_ROOT/share/domains/domain.ocn.ne120np4.pg3_gx1v7.190503.nc</file>
<file grid="atm|lnd" mask="gx1v7">$DIN_LOC_ROOT/share/domains/domain.lnd.ne120np4.pg3_gx1v7.190718.nc</file>
<file grid="ocnice" mask="gx1v7">$DIN_LOC_ROOT/share/domains/domain.ocn.ne120np4.pg3_gx1v7.190718.nc</file>
<desc>ne120np4.pg3 is a Spectral Elem 0.25-deg grid with a 3x3 FVM physics grid:</desc>
<support>EXPERIMENTAL FVM physics grid</support>
</domain>
Expand Down Expand Up @@ -1542,6 +1596,20 @@
<!-- ROF domains -->
<!-- ======================================================== -->

<domain name="tn1v3">
<nx>360</nx> <ny>291</ny>
<file grid="ocnice">$DIN_LOC_ROOT/share/domains/domain.ocn.tn1v3.160414.nc</file>
<desc>tn1v3 is NEMO ORCA1 tripole grid at 1 deg (reduced eORCA):</desc>
<support>NEMO ORCA1 tripole ocean grid</support>
</domain>

<domain name="tn0.25v3">
<nx>1440</nx> <ny>1050</ny>
<file grid="ocnice">$DIN_LOC_ROOT/share/domains/domain.ocn.tn0.25v3.160721.nc</file>
<desc>tn0.25v3 is NEMO ORCA1 tripole grid at 1/4 deg (reduced eORCA):</desc>
<support>NEMO ORCA1 tripole ocean grid</support>
</domain>

<domain name="rx1">
<nx>360</nx> <ny>180</ny>
<mesh driver="nuopc">$DIN_LOC_ROOT/share/meshes/rx1_nomask_181022_ESMFmesh.nc</mesh>
Expand Down
4 changes: 2 additions & 2 deletions cime/config/cesm/config_grids_common.xml
Original file line number Diff line number Diff line change
Expand Up @@ -97,8 +97,8 @@
</gridmap>

<gridmap lnd_grid="10x15" rof_grid="r05">
<map name="LND2ROF_FMAPNAME">lnd/clm2/mappingdata/maps/10x15/map_10x15_to_0.5x0.5rtm_aave_da_110307.nc</map>
<map name="ROF2LND_FMAPNAME">lnd/clm2/mappingdata/maps/10x15/map_0.5x0.5_nomask_to_10x15_nomask_aave_da_c121019.nc</map>
<map name="LND2ROF_FMAPNAME">lnd/clm2/mappingdata/maps/10x15/map_10x15_to_0.5x0.5rtm_aave_da_c20190725.nc</map>
<map name="ROF2LND_FMAPNAME">lnd/clm2/mappingdata/maps/10x15/map_0.5x0.5_nomask_to_10x15_nomask_aave_da_c20190725.nc</map>
</gridmap>

<gridmap lnd_grid="4x5" rof_grid="r05">
Expand Down
30 changes: 15 additions & 15 deletions cime/config/cesm/config_grids_mct.xml
Original file line number Diff line number Diff line change
Expand Up @@ -175,21 +175,21 @@
<map name="OCN2ATM_SMAPNAME">cpl/gridmaps/gx1v6/map_gx1v6_to_ne120np4_aave_110428.nc</map>
</gridmap>
<gridmap atm_grid="ne120np4" ocn_grid="gx1v7">
<map name="ATM2OCN_FMAPNAME">cpl/gridmaps/ne120np4/map_ne120np4_to_gx1v7_aave_190502.nc</map>
<map name="ATM2OCN_SMAPNAME">cpl/gridmaps/ne120np4/map_ne120np4_to_gx1v7_bilin_190502.nc</map>
<map name="ATM2OCN_VMAPNAME">cpl/gridmaps/ne120np4/map_ne120np4_to_gx1v7_bilin_190502.nc</map>
<map name="OCN2ATM_FMAPNAME">cpl/gridmaps/gx1v6/map_gx1v7_to_ne120np4_aave_190502.nc</map>
<map name="OCN2ATM_SMAPNAME">cpl/gridmaps/gx1v6/map_gx1v7_to_ne120np4_aave_190502.nc</map>
<map name="ATM2OCN_FMAPNAME">cpl/gridmaps/ne120np4/map_ne120np4_to_gx1v7_aave_190718.nc</map>
<map name="ATM2OCN_SMAPNAME">cpl/gridmaps/ne120np4/map_ne120np4_to_gx1v7_bilin_190718.nc</map>
<map name="ATM2OCN_VMAPNAME">cpl/gridmaps/ne120np4/map_ne120np4_to_gx1v7_bilin_190718.nc</map>
<map name="OCN2ATM_FMAPNAME">cpl/gridmaps/gx1v7/map_gx1v7_to_ne120np4_aave_190718.nc</map>
<map name="OCN2ATM_SMAPNAME">cpl/gridmaps/gx1v7/map_gx1v7_to_ne120np4_aave_190718.nc</map>
</gridmap>
<gridmap atm_grid="ne120np4" wav_grid="ww3a">
<map name="ATM2WAV_SMAPNAME">cpl/gridmaps/ne120np4/map_ne120np4_TO_ww3a_blin.190502.nc</map>
</gridmap>
<gridmap atm_grid="ne120np4.pg3" ocn_grid="gx1v7">
<map name="ATM2OCN_FMAPNAME">cpl/gridmaps/ne120np4.pg3/map_ne120np4.pg3_TO_gx1v7_aave.190503.nc</map>
<map name="ATM2OCN_SMAPNAME">cpl/gridmaps/ne120np4.pg3/map_ne120np4.pg3_TO_gx1v7_blin.190503.nc</map>
<map name="ATM2OCN_VMAPNAME">cpl/gridmaps/ne120np4.pg3/map_ne120np4.pg3_TO_gx1v7_blin.190503.nc</map>
<map name="OCN2ATM_FMAPNAME">cpl/gridmaps/gx1v7/map_gx1v7_TO_ne120np4.pg3_aave.190503.nc</map>
<map name="OCN2ATM_SMAPNAME">cpl/gridmaps/gx1v7/map_gx1v7_TO_ne120np4.pg3_aave.190503.nc</map>
<map name="ATM2OCN_FMAPNAME">cpl/gridmaps/ne120np4.pg3/map_ne120np4.pg3_TO_gx1v7_aave.190718.nc</map>
<map name="ATM2OCN_SMAPNAME">cpl/gridmaps/ne120np4.pg3/map_ne120np4.pg3_TO_gx1v7_blin.190718.nc</map>
<map name="ATM2OCN_VMAPNAME">cpl/gridmaps/ne120np4.pg3/map_ne120np4.pg3_TO_gx1v7_blin.190718.nc</map>
<map name="OCN2ATM_FMAPNAME">cpl/gridmaps/gx1v7/map_gx1v7_TO_ne120np4.pg3_aave.190718.nc</map>
<map name="OCN2ATM_SMAPNAME">cpl/gridmaps/gx1v7/map_gx1v7_TO_ne120np4.pg3_aave.190718.nc</map>
</gridmap>
<gridmap atm_grid="ne120np4.pg3" wav_grid="ww3a">
<map name="ATM2WAV_SMAPNAME">cpl/gridmaps/ne120np4.pg3/map_ne120np4.pg3_TO_ww3a_blin.190503.nc</map>
Expand Down Expand Up @@ -236,11 +236,11 @@
</gridmap>

<gridmap atm_grid="ne0np4CONUS.ne30x8" ocn_grid="gx1v7">
<map name="ATM2OCN_FMAPNAME">cpl/gridmaps/ne0np4CONUS.ne30x8/map_ne0CONUSne30x8_TO_gx1v7_aave.190322.nc</map>
<map name="ATM2OCN_SMAPNAME">cpl/gridmaps/ne0np4CONUS.ne30x8/map_ne0CONUSne30x8_TO_gx1v7_blin.190322.nc</map>
<map name="ATM2OCN_VMAPNAME">cpl/gridmaps/ne0np4CONUS.ne30x8/map_ne0CONUSne30x8_TO_gx1v7_patc.190322.nc</map>
<map name="OCN2ATM_FMAPNAME">cpl/gridmaps/gx1v7/map_gx1v7_TO_ne0CONUSne30x8_aave.190322.nc</map>
<map name="OCN2ATM_SMAPNAME">cpl/gridmaps/gx1v7/map_gx1v7_TO_ne0CONUSne30x8_aave.190322.nc</map>
<map name="ATM2OCN_FMAPNAME">cpl/gridmaps/ne0np4CONUS.ne30x8/map_ne0CONUSne30x8_TO_gx1v7_aave.190718.nc</map>
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