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Merging Bridge into master #246
Commits on Sep 19, 2019
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Commits on Dec 9, 2019
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Merge pull request #81 from GEOS-ESM/hotfix/REAME-typo
Hotfix/reame typo
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Commits on Dec 10, 2019
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Merge branch 'develop' into hotfix/par_and_zenith
Justin Perket committedDec 10, 2019 Configuration menu - View commit details
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Merge pull request #53 from GEOS-ESM/hotfix/par_and_zenith
PARdffs bug fix
Justin Perket committedDec 10, 2019 Configuration menu - View commit details
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changed Z0_FORM=4, prep to use INLv3
Justin Perket committedDec 10, 2019 Configuration menu - View commit details
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- rewrite README.GEOSldas_history, change name to md
- Update and rename GEOSldas.HISTORY.md to HISTORY.md - Update and rename README.GEOSldas_metforcing_and_bcs to README.metforcing_and_bcs.md - Updates refs to README files
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Commits on Dec 11, 2019
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Merge pull request #87 from GEOS-ESM/feature/jperket/updateDocs
revamp docs - rewrite README.GEOSldas_history, change name to md - Update and rename GEOSldas.HISTORY.md to HISTORY.md - Update and rename README.GEOSldas_metforcing_and_bcs to README.metforcing_and_bcs.md - Updates refs to README files
Justin Perket committedDec 11, 2019 Configuration menu - View commit details
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Justin Perket committed
Dec 11, 2019 Configuration menu - View commit details
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Merge pull request #84 from GEOS-ESM/feature/jperket/INv3+Z0form4
Use Icarus-NLv3 boundary conditions (not actually a code change), and change Z0_FORM to 4 (back to veg height lookup values, with simple tree SAI)
Justin Perket committedDec 11, 2019 Configuration menu - View commit details
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Commits on Dec 18, 2019
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get_GEOS forcing bug fix for stream boundaries (#90)
* implemented bug fix for get_GEOS() at stream boundaries (per jkolassa+reichle LDASsa fix, 17 Dec 2019)
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Commits on Dec 20, 2019
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Merge pull request #92 from GEOS-ESM/rreichle/tmp_update_to_develop_2…
…0191220 doc update in prep for v17.9.0-beta.0
Justin Perket committedDec 20, 2019 Configuration menu - View commit details
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Commits on Jan 17, 2020
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no check for cat_progns after perturbations (#98)
Comment out call to check_cat_progns (wrapper for check_catch_progn) in prep for SMAP L4_SM Version 5. Call was inserted for compatibility of GEOSldas with LDASsa tag used for SMAP L4_SM Version 4 product (Tv4034). Earlier testing without the call (Tv4033) did not result in crashes of catchment() and yielded slightly drier soil moisture in deserts. Co-authored-by: Rolf Reichle <54944691+gmao-rreichle@users.noreply.github.com>
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Commits on Feb 7, 2020
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Fixes #105. Use a MAPL v1.1 tag for develop
MAPL master now points to MAPL v2.0, so we need to repoint `develop` to a v1 tag until all is ready.
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Merge pull request #106 from GEOS-ESM/mathomp4-patch-1
Fixes #105. Use a MAPL v1.1 tag for develop
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Commits on Feb 10, 2020
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Commits on Feb 11, 2020
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Merge pull request #107 from GEOS-ESM/hotfix/rreichle-getGEOS-add-f52…
…5-forcing Added FP-5.25 transition (30 Jan 2020) to "cross-stream" dates
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Commits on Feb 14, 2020
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* bring MAPL-2.0 and related Components to GEOSldas * MAPL-2.0 changes also impacts HISTORY.rc * MAPL-2.0 facilitates speed-up in reading tile data * remove dycore and FMS * add assimilation for cubed-sphere grid * add reading forcing from matching cubed-sphere grid when running on cubed-sphere tiles * update LDAS_Forcing.F90 for f525_fp stream boundary * add export for incr in Assim GridComp * conform gcc-9.1 (avoid non-logicals in "if" statements) * bug fix in select-update_type 9 (abs(deltaT)>0.) * functionality to create regional (non-global) nc4 vegdyn restart * bug fix for local mwRTM and time dimension restart * remove compression of landpert restart files * replace copy ("cp") with link ("ln") for catparam and mwrtm diagnostic output files * additional functionality for CATCHMENT_OFFLINE to add extra variables into catch restart files (as needed by GCM) * added perl lib in preparation for SLES12 Co-authored-by: Weiyuan Jiang and Rolf Reichle
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Commits on Feb 16, 2020
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Merge branch 'develop' of github.com:GEOS-ESM/GEOSldas into feature/i…
…ncr_names avoid conlict
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Merge pull request #117 from GEOS-ESM/feature/incr_names
Feature/incr names
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Commits on Feb 18, 2020
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Commits on Feb 19, 2020
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Merge pull request #118 from GEOS-ESM/bugfix/hist_rc
comply with MAPL2-0
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Merge pull request #119 from GEOS-ESM/bugfix/hist_rc
continue bug fix
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Commits on Feb 21, 2020
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Merge pull request #121 from GEOS-ESM/gmao-rreichle-patch-1
Use v2.0.1 tag of ESMA_env (g5_modules that works for SLES11 and SLES12)
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Commits on Feb 25, 2020
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add catch_progn_incr to HISTORY collection (#124)
- added "catch_progn_incr" HISTORY collection - clean up of GEOSldas_HIST.rc
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Commits on Feb 26, 2020
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add SLES 12 support and compress land pert restart (#127)
* in post-processing, gzip landpert restart files (except final time) * update to ESMA_env v2.0.2: can be used with SLES11 and SLES12 * move mk_LDASsaRestarts.F90 to LDAS_app/mk_GEOSldasRestarts.F90 and cleaned up in preparation for re-tiling changes * process observations (for innovations output) *without* perturbations turned on * fixed output log file name and location
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Merge pull request #131 from GEOS-ESM/develop
add SLES 12 support and compress land pert restart (#127)
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Merge pull request #132 from GEOS-ESM/bugfix/out_incr_history
Bugfix/out incr history
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Commits on Feb 27, 2020
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Merge pull request #135 from GEOS-ESM/gmao-rreichle-patch-1
Update CHANGELOG.md (catching up with release of v17.0.9-beta.2)
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Merge pull request #140 from GEOS-ESM/bugfix/run_eror_forGNU
bug fix. run error for GNU
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Commits on Feb 28, 2020
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* Improved efficiency of creating monthly files
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Commits on Mar 2, 2020
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Commits on Mar 13, 2020
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Re-tiling clean-up and additional RESTART options (#149)
Re-tiling clean-up and additional RESTART options: * Added RESTART=2: Re-tiling from GEOSldas (or LDASsa) restart in DIFFERENT tile space and/or with DIFFERENT bcs or snow parameter (WEMIN) * Added RESTART=M, F, G for re-tiling MERRA2, FP, and general GCM catch[cn] restart * NOTE: New RESTART options have not been fully science-tested. * Clean-up: - Use new module functionality from GCM Grid Comp mk_restart/getids.F90 - Clean-up: Removed obsolete lines with hard-coded values for SURFLAY
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Commits on Mar 17, 2020
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move log file back to scratch then copy to where it should be (#150)
- bug fix: move log file after each job - link to original cat_param and mwrtm param files
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Commits on Mar 18, 2020
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reorder the output according to the original tile order (#152)
bug fix: corrected Observations%tilenum output into ObsFcstAna file
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Merge pull request #153 from GEOS-ESM/gmao-rreichle-patch-1
documentation update for v17.9.0-beta.3
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Commits on Mar 20, 2020
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bug fix: wrong indent in python script (ldas_setup)
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Commits on Mar 26, 2020
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Revised GEOSldas README.md (#161)
Reorganized and cleaned up README.md
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Commits on Apr 3, 2020
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added FP f525_p5_fp transition (7 Apr 2020) to "cross-stream" dates (#…
…165) added FP f525_p5_fp transition (7 Apr 2020) to "cross-stream" dates
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Feature/parallel pre post processing (#166)
* pre- and post- processing parallelizing
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Commits on Apr 6, 2020
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New Surface parameter resource file (#160)
* GEOSldas modifications necessitated by GCM GridComp addition of Surface GridComp parameter resource file. * GCM GridComp modifications also include unverified, non-zero diff changes in CatchCN.
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Commits on Apr 8, 2020
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README.md update for SLES12 (#167)
* added SLES12 info for multi-step builds
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Commits on Apr 10, 2020
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bug fix for pertseed restart from an existing run (#169)
bug fix: corrected obspertseed file name when restarting from existing run
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Commits on Apr 11, 2020
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Commits on Apr 13, 2020
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bug fix: removed indent that broke subdaily2daily (#171)
The block dealing with the concatenation of subdaily2daily files was inadvertently indented. This fix removes the indent and adds a comment with a warning ("do not indent this block").
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Commits on Apr 14, 2020
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Commits on Apr 15, 2020
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Commits on Apr 16, 2020
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Commits on Apr 22, 2020
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checkpoint files are geneareted by GEOSldas (#182)
* checkpoint files are generated by GEOSldas ( not MAPL) when on cubed-sphere tile space * create year/month directories for ldas_ObsFcstAna from within GEOSldas executable * change system() calls to Fortran2008 standard Execute_command_line()
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subdaily2daily concatenation; SLES12 sbatch fix
- Added sbatch submission for pre-processing of restarts to comply with SLES12 requirements. - Subdaily-to-daily nc4 file concatenation now processes before the month is complete.
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Commits on Apr 23, 2020
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* keep up with MAPL 2.1.1 * update env and cmake
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Resurrecting SMAP L1C Tb fore-minus-aft check
As of the 22 Apr 2020 SMAP DAART telecon, the Project declined to address the antenna-scan-angle (ASA) errors in L1 ops. Any ASA errors will be reported after the data have been published and potentially used in L4 ops.
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Syncing develop into BRIDGE_FROM_DEVELOP_TO_MASTER (#188)
* fix gnu debug (#178) * checkpoint files are geneareted by GEOSldas (#182) * checkpoint files are generated by GEOSldas ( not MAPL) when on cubed-sphere tile space * create year/month directories for ldas_ObsFcstAna from within GEOSldas executable * change system() calls to Fortran2008 standard Execute_command_line() * subdaily2daily concatenation; SLES12 sbatch fix - Added sbatch submission for pre-processing of restarts to comply with SLES12 requirements. - Subdaily-to-daily nc4 file concatenation now processes before the month is complete. * pass in optional account through ldas_setup (#184) * updating to MAPL 2.1.1 (updated ESMA_env and cmake) * Resurrecting SMAP L1C Tb fore-minus-aft check
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Updating Externals.cfg for the develop branch
so we can merge develop into this feature branch
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syncing BRIDGE_FROM_DEVELOP_TO_MASTER into develop
no changes to merge here, just keeping branches synced
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removing white space that was inadvertently...
added during resolving of conflict
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Syncing master into Bridge_from_develop_to_master
no changes to merge, just syncing
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Sync Bridge_from_develop_to_master into develop
nothing to merge except removing a comment line in Externals.cfg
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Commits on Apr 24, 2020
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new ESMA_env tag (v2.1.1+intel19.1.0)
Pointing GEOSldas "develop" to ESMA_env v2.1.1+intel19.1.0 will make it run under SLES11 (using Intel-18) and SLES12 (using Intel-19), but the results won't be zero-diff across operating systems.
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Commits on Apr 29, 2020
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cleanup of obsolete LDASsa code (#199)
Cleanup, removed obsolete LDASsa code, incl. for binary output, spin-up, zenith angle, and time interpolation.
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fix to subdaily-to-daily nc4 concatenation fix
* also cleanup of a few lines from the previous version
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Commits on May 5, 2020
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* Update Externals.cfg to a fixed MAPL and ESMA_env
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Add forecast error covariance inflation (#203)
* added forecast error covariance inflation functionality * scalar (globally constant) inflation factor * some cleanup of obsolete LDASsa code (mostly related to LDASsa binary output)
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Commits on May 6, 2020
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fix subdaily to daily ( cut for time) (#202)
* resource parameter changes: - renamed NUM_ENSEMBLE to NUM_LDAS_ENSEMBLE in "exeinp" file to be consistent with LDAS.rc - renamed MONTHLY_OUTPUT to POSTPROC_HIST * post-processing changes: - added check for number of sub-daily nc4 files before concatenation into daily nc4 file - rudimentary protections for subdaily-to-daily concatenation and monthly-mean file - write ObsFcstAna and smapL4SMaup files into ./scratch, then move to ana/ens_avg/year/month dir in postprocessing * some cleanup
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Commits on May 7, 2020
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exclude some comments in .rc files from being copied to the *.exec in…
…put file (#213) * Some comments in .rc files do not apply in *.exec input file. Avoid copying them. * Cleanup
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Commits on May 11, 2020
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Functionality for using "seamless" FP data (with generic file names) (#…
…214) * added functionality to use "seamless" (uniform/published) file names for GEOS FP met forcing * minor cleanup
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Commits on May 14, 2020
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Commits on May 19, 2020
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* Output of ensemble-average L-band Tb via HISTORY * cleanup and bug fixes: - renamed DATAATM to METFORCE to be consistent with Grid Comp name - FIRST_ENS_ID fixes
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Commits on May 20, 2020
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- removed default SLURM constraint for haswell - minor cleanup
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Commits on May 29, 2020
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Tb HISTORY output, bug fixes, and cleanup (#231)
enhancements: * output of L-band Tb via HISTORY nodata value decision: * everything from HISTORY uses MAPL_UNDEF (1.e15) * continue to use -9999 for LDASsa-heritage output Collections ("ObsFcstAna" and "smapL4SMaup") bug fixes: *before the fix, ApplyPrognPert was executed too late and the current time step's prognostics perturbations were missed by the land analysis and by HISTORY * no-data-handling in computation of ensemble average for surface temperature components cleanup: * avoid redundant entries in LDAS.rc * setup for NUM_ENSEMBLE=1 with PERTURBATION=1 * added stop if output_smapL4SMaup==.true. and NUM_ENSEMBLE<=1 * removed obsolete LDASsa *_get_command_line() subroutines documentation: * improved help and log messages for setup and configuration * updated README.md * clarified comments in GEOS_LdasGridComp.F90
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Commits on Jun 10, 2020
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Forecast and analysis output of model diagnostics via HISTORY (#240)
added calculation of ensemble-mean Catchment model diagnostics to LandAssim GridComp for output of instantaneous forecast and analysis estimates via HISTORY (“lndfcstana” Collection)
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Commits on Jun 11, 2020
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LANDPERT restart fixes and assorted bug fixes (#244)
- Added calculation of ensemble-mean Catchment model diagnostics to LANDASSIM GridComp for output of instantaneous forecast and analysis estimates via HISTORY (“lndfcstana” Collection). - Fixed handling of LANDPERT restart files after cold-start in first job segment. - Fixed violation of zero-diff (binary identical) results when stopping/restarting at different intervals (removed extra zero-mean adjustment of LANDPERT after reading from restart file and fixed tile2grid operation for cube-sphere tile space). - Fixed LANDPERT restart file name for cube-sphere. - Added log message for all ensemble members if LANDPERT is cold-started. - Removed deflation of LANDPERT checkpoint files. - Added “.nc4” file name extension for cube-sphere LANDPERT checkpoint files. - Added log messages for initialization of OBSPERTRSEED. - Fixed typo in default OBSPERTRSEED restart file name. - Fixed time stamp of output *ensprop*inputs.nml file. - Fixed FIRST_ENS_ID for post-processing. - Added “endhour” for control of loop through job segments in lenkf.j.template to facilitate job segments that are shorter than a full day. - Added sample entries in “LDAS.rc” for output of CHECKPOINT (restart) files before GEOSldas.x exits (RECORD_FREQUENCY, RECORD_REF_TIME, RECORD_REF_DATE).
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