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eCLM Farmyard Manure Fixes - #153

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Draft

eCLM Farmyard Manure Fixes#153
jjokella wants to merge 2228 commits into
masterfrom
eCLM_FYM_fixes_merged_with_master

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Commits on Nov 15, 2019
Commits on Nov 18, 2019
- Add soilm_ignore_data_if_missing=T to the prescribed testmod
  ekluzek
  committed
  8861b8e
Commits on Nov 19, 2019
- Apply changes to update to latest fates_next_api
  ekluzek
  committed
  d387bd7
- Mark new izimu failed fates tests
  ekluzek
  committed
  6e972f5
- Update change files
  ekluzek
  committed
  2e88c88
- Merge pull request #841 from ekluzek/relanswerchangesfor5029
  ekluzek
  authored
  c089c8a
- Merge tag 'release-clm5.0.29' into relfatesupdate
  ekluzek
  committed
  7cf99bb
- Update fates paramfile to one being pointed to on fates_next_api branch
  ekluzek
  committed
  13fb273
- Add note about expected fail
  ekluzek
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  7e8e51c
- Update change files
  ekluzek
  committed
  fb4d553
Commits on Dec 13, 2019
- Updated default fates parameter file for new api 7.4.0 format.
  rgknox
  committed
  8dce9a6
- corrected wrong fates api, we are on 8.1 not 7.4.
  rgknox
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  76d28ae
Commits on Dec 16, 2019
Commits on Dec 18, 2019
- Updated fates default filename, again, for new parameters
  rgknox
  committed
  eac0131
Commits on Jan 2, 2020
Commits on Jan 3, 2020
- Updated fates default file to newer version of api 8.1
  rgknox
  committed
  195c9b2
Commits on Jan 4, 2020
- Updated fates tag to match api 8.1.0
  rgknox
  committed
  5d57fff
- Merge pull request #870 from rgknox/fates-api-8.1.0
  rgknox
  authored
  a0803e3
Commits on Jan 6, 2020
- Merge pull request #770 from rgknox/fateshydro-uninit-transp
  glemieux
  authored
  5ad8a8d
Commits on Jan 13, 2020
- Update externals for rtm mosart and cime
  ekluzek
  committed
  f9c1c88
- Merge branch 'relfatesupdate' of github.com:ekluzek/ctsm into relfatesupdate
  ekluzek
  committed
  a356da3
- Also add a check for gridcell weights, fixing #847
  ekluzek
  committed
  a7eab48
Commits on Jan 14, 2020
Commits on Jan 16, 2020
Commits on Jan 18, 2020
- Fix the threading problem by declaring numdims as private
  ekluzek
  committed
  2887c56
Commits on Jan 20, 2020
- Update module init version, and remove version specific information from all of the module module settings
  ekluzek
  committed
  73977e5
Commits on Jan 21, 2020
- Update change files
  ekluzek
  committed
  258bdea
- Pass git-describe down, since you can only get it from within the git clone (so potentially have to cd to it), also make files in current directory (unless within the CTSM structure, so that testin…
  ekluzek
  committed
  90f5989
- Merge branch 'relfatesupdate' of github.com:ekluzek/ctsm into relfatesupdate
  ekluzek
  committed
  67690f5
- Update PTCLM
  ekluzek
  committed
  4713406
- Update change file
  ekluzek
  committed
  30ceef0
- Update doc
  ekluzek
  committed
  eea20af
- Merge pull request #846 from ekluzek/relfatesupdate
  ekluzek
  authored
  2aebe6f
Commits on Mar 23, 2020
- Fix #921
  ekluzek
  committed
  3d52a38
- Squashed 'manage_externals/' changes from fc5acdab..fde04e4d
  ekluzek
  committed
  60efa37
- Merge commit '60efa371be6e3993dda50cd60eeccb0aa035a6d3' into rel2300ext
  ekluzek
  committed
  a6d663e
Commits on Mar 24, 2020
Commits on Mar 25, 2020
Commits on Mar 26, 2020
- Make time an unlimited dimension, add creation date, change subdirectory name
  ekluzek
  committed
  26d4022
- Add some more metadata and print more information on the status
  ekluzek
  committed
  84ca818
- Update README file
  ekluzek
  committed
  77f9a25
- Update cime to latest cime5.6 and cism-wrapper to latest release
  ekluzek
  committed
  55fba5f
- Update ChangeLog
  ekluzek
  committed
  eb9c11a
- Mark PGI tests as working on izumi
  ekluzek
  committed
  ee42079
- Merge branch 'rel2300ext' of github.com:ekluzek/ctsm into rel2300ext
  ekluzek
  committed
  30f3990
Commits on Mar 29, 2020
- Update Change files
  ekluzek
  committed
  1249e7c
- Merge pull request #949 from ekluzek/rel2300ext
  ekluzek
  authored
  0b2b840
Commits on Mar 30, 2020
- Add in 2100-2300 extension datasets, and add build-namelist tests for them, fix a bug in namelist tester that kept two sets of SSP tests from working
  ekluzek
  committed
  5113721
Commits on Mar 31, 2020
- Fix 2100 fsurdat datasets for they point to the right SSP fixing #955
  ekluzek
  committed
  3e4c49f
- Point to a cime branch to bring in the needed changes
  ekluzek
  committed
  90dcef2
- Add all three 2100-2300 extension compsets and add a test for it
  ekluzek
  committed
  f8879f0
- Settings needed for extension datasets 2100-2300
  ekluzek
  committed
  6447ea7
- Ask for SSP for fsurdat since needed for 2100 files
  ekluzek
  committed
  03954bf
- Merge commit '03954bf6' into rel2300ext
  ekluzek
  committed
  fb05de4
Commits on Apr 1, 2020
- Correct dataset names for SSP extensions
  ekluzek
  committed
  0d34a1f
- Add a shell_commands file to turn ignore_warnings on for the CMIP6 WACCM deck
  ekluzek
  committed
  70c2b83
- Point to cime5.6.33 rather than branch tag
  ekluzek
  committed
  82d4e75
Commits on Apr 2, 2020
- Update change files
  ekluzek
  committed
  868239d
- Merge pull request #959 from ekluzek/rel2300ext
  ekluzek
  authored
  8e1309a
Commits on Apr 7, 2020
- Add SSP2-4.5 to the anomoly forcing script, point to a different head directory for the history files
  ekluzek
  committed
  c6bead8
- Set irrigate to on for 2100-2300 extensions
  ekluzek
  committed
  26e2faa
- Change some of the units to be UDUNITS compliant for #966
  ekluzek
  committed
  565c9b4
- Change zero_nonveg_pfts to zero_nonveg_landunits according to #935
  ekluzek
  committed
  f4fb1ff
- Merge branch 'rel2300ext' of https://github.com/ekluzek/ctsm into rel2300ext
  ekluzek
  committed
  ddc7334
- Fix Python3 problem in SSP fixes #974
  ekluzek
  committed
  f439052
- Merge commit 'bc307472' into doc_source_release
  billsacks
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  abbba05
- Add external for documentation images
  billsacks
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  73765e5
- Move documentation images up a level
  billsacks
  committed
  7ed836a
- Update paths etc. to allow documentation build from here
  billsacks
  committed
  0929ce5
- Fixes for pdf
  billsacks
  committed
  28c45da
- Point to a rewritten version of the images repo
  billsacks
  committed
  c8e99dc
- Update plant hydraulics to point to new svg version of the image
  billsacks
  committed
  cbd6209
- Remove old UsersGuide, no longer used
  billsacks
  committed
  f3d0639
- Use git LFS to track image files
  billsacks
  committed
  1221b81
- By default, don't fetch files stored in LFS
  billsacks
  committed
  fd99824
- Store images directly in repository, managed by git LFS
  billsacks
  committed
  9074c49
- Before building html or pdf, automatically obtain all of the images
  billsacks
  committed
  cd5d63e
- Use git lfs to track pdf files
  billsacks
  committed
  789b535
- Add a pdf version of phs_iteration_schematic
  billsacks
  committed
  d385c44
- Remove near-duplicated Makefiles and conf.py files
  billsacks
  committed
  7ec3e3a
- Change copyright, version, and other metadata
  billsacks
  committed
  510c813
- Change html build to make versioned documentation with a dropdown menu
  billsacks
  committed
  1c2ed61
- Documentation: Add CSS to improve the look of equations
  billsacks
  committed
  0bdc764
- Update some version information
  billsacks
  committed
  fb84b6b
- Update version information for the release branch
  billsacks
  committed
  98b3812
- Update the change files
  ekluzek
  committed
  a8b720c
- Merge pull request #975 from ekluzek/rel2300ext
  ekluzek
  authored
  72a2987
- Use generic branch name for release, rather than specific tag
  billsacks
  committed
  0380be4
Commits on Apr 14, 2020
Commits on Apr 20, 2020
Commits on Apr 21, 2020
- Update date
  ekluzek
  committed
  27ed276
- Merge pull request #986 from ekluzek/rel2300ext
  ekluzek
  authored
  e6ee5ea
Commits on Apr 28, 2020
- Remove Copyright file
  billsacks
  committed
  8501a5e
Commits on May 1, 2020
- Merge pull request #999 from billsacks/remove_copyright_release
  ekluzek
  authored
  a2989b0
Commits on May 14, 2020
- Add .zenodo.json file
  billsacks
  committed
  6f51b15
- Change README to markdown
  billsacks
  committed
  4941e4a
- Fix a link
  billsacks
  committed
  fee917c
- Add names in core CTSM code management team
  billsacks
  committed
  c69bb49
- Bring in other changes from README file on master
  billsacks
  committed
  dc46cea
Commits on Aug 7, 2020
- modified: README
  Theresa Boas
  committed
  0b38504
Commits on Aug 13, 2020
- Update README to version on master
  billsacks
  committed
  cdc544d
Commits on Nov 4, 2020
- Update README.md
  ekluzek
  authored
  0596876
- Merge branch 'release-clm5.0' into document_authorship_releaseclm50
  ekluzek
  authored
  6f606d8
- Merge pull request #1015 from billsacks/document_authorship_releaseclm50
  ekluzek
  authored
  86949af
Commits on Nov 6, 2020
- Add doc-builder as an optional external
  billsacks
  committed
  65ddb3a
- Update version of doc-builder
  billsacks
  committed
  22a1e56
- Update version of doc-builder
  billsacks
  committed
  fa19f30
- Rely on build_docs to run 'make fetch-images' rather than Makefile rule
  billsacks
  committed
  85d3548
- Update doc-builder
  billsacks
  committed
  8099717
- add anomaly forcing section
  
  swensosc
  authored and
  billsacks
  committed
  b41a09b
- Call out the version dropdown menu
  billsacks
  committed
  b0d4990
- Change version_label for release branch
  billsacks
  committed
  98739eb
Commits on Nov 7, 2020
- Revert "Change version_label for release branch"
  billsacks
  committed
  c1e0e69
- Tweak handling of version_label to reduce duplication
  billsacks
  committed
  15a1eaf
- Change version_label for release branch
  billsacks
  committed
  acca763
- Tweak "important" call-out
  billsacks
  committed
  6645130
- Fixes for latest sphinx version
  billsacks
  committed
  dc5ea97
Commits on Sep 7, 2021
- Bringing a copy of master_list_file.rst to the release-clm5.0 branch
  slevis-lmwg
  committed
  3c00edf
Commits on Sep 8, 2021
- Merge pull request #1480 from slevisconsulting/master_hist_list_updates
  billsacks
  authored
  4d9bb14
Commits on Nov 30, 2021
- Fix errors in technical note Eq. 2.3.16
  olyson
  committed
  d035667
- Merge pull request #1568 from olyson/releasedoc
  billsacks
  authored
  d2b2706
Commits on Feb 8, 2022
- Implement CLM-FruitTree sub-model for deciduous fruit trees
  odombro
  committed
  9fa4d0d
- Update README
  odombro
  authored
  c4f164e
Commits on Feb 9, 2022
- Update README
  odombro
  authored
  2a1f5b9
- Update README
  odombro
  committed
  7b82320
- Update README
  odombro
  committed
  64c8749
Commits on Mar 14, 2022
- Correct orchard rotation/replanting trigger
  odombro
  committed
  87b35be
Commits on May 5, 2022
- Make taper and nstem PFT parameters to be set in parameter file
  odombro
  committed
  093c985
- Update parameter file with taper and nstem parameters
  odombro
  committed
  2a6d95e
Commits on May 22, 2022
- added references to CLM-Palm (Fan et al. 2015)
  odombro
  committed
  57586d7
Commits on May 30, 2022
- Bug fix in CNPhenology and CNVegStructUpdateMod, and parameter value correction
  odombro
  committed
  ad3d25b
Commits on Aug 17, 2022
- Included harvest trigger when leaf offset starts
  odombro
  committed
  7c9a3bb
Commits on Oct 18, 2022
- debug planting of fruit trees, make two more CFTs active
  odombro
  committed
  17f3e8a
Commits on Nov 4, 2022
- Fix orchard rotation carbon balance error
  odombro
  committed
  2a21cb0
Commits on Nov 15, 2022
- added new subroutine for orchard rotation
  odombro
  committed
  a6bd8de
- cleaned up some scripts, added some crop types to active CFTs
  odombro
  committed
  7edde0b
Commits on Jul 17, 2023
- Corrected flux assignment from column to patch level
  odombro
  committed
  59b6a30
Commits on Dec 18, 2023
- Update README
  odombro
  authored
  d4c6a1b
- Update README
  odombro
  authored
  2c1722c
Commits on Apr 19, 2024
- Replace name variables citrus by apple, irrig_citrus by irrig_apple, ntrp_soybean by ncovercrop_1, nirrig_trp_soybean by ncovercrop_2
  AGonzalezNicolas
  committed
  e68cba1
Commits on Apr 30, 2024
- Merge WinterCrops into FruitTree_namesVar_v2
  AGonzalezNicolas
  committed
  5a01bbc
- Replace 'citrus' by 'apple' after merging WC into FT_namesVar
  AGonzalezNicolas
  committed
  eaf4f9b
Commits on Jul 12, 2024
Commits on Jul 23, 2024
- Delete not used files by eCLM
  AGonzalezNicolas
  committed
  c732122
- Updated README file
  AGonzalezNicolas
  committed
  a9a5114
- Create CI.yml
  AGonzalezNicolas
  authored
  50654ef
- Update CI.yml
  AGonzalezNicolas
  authored
  d6b4545
Commits on Jul 25, 2024
Commits on May 7, 2026
- tboas: organic carbon fertilization from farmyard manure (cfert)
  tboas
  committed
  6466ad3
Commits on May 8, 2026
- tboas: cfert v2 — single-timestep application, litter fractions, injection depth, freq/timing
  tboas
  committed
  a0bf8ff
Commits on Jul 20, 2026
Commits on Jul 21, 2026
- feat: add use_fruittree namelist switch for backward compat
  tboas
  committed
  5576459
- feat: backward compat for fruittree/covercrop with old param files
  tboas
  committed
  0c1ff6d
Commits on Jul 27, 2026
- feat: calendar-date rotation switch + IVT history output
  tboas
  committed
  17cd3d0
Commits on Jul 29, 2026
- feat: calendar-date crop rotation + IVT history output
  tboas
  committed
  8781065
Commits on Jul 31, 2026
- wip: post-harvest crop switching + xsmrpool/onset flag reset
  tboas
  committed
  a80f46f
Commits on Aug 4, 2026
- Fix crop rotation phase-2 lockout after PFT switch
  tboas
  committed
  7039471
- Two-date calendar crop rotation replacing post-harvest switch
  tboas
  committed
  4780a06
- Sugar beet season length + autumn sowing retry
  tboas
  committed
  6959e84
Commits on Aug 5, 2026
- Remove dead manure_lignin_frac declaration
  tboas
  committed
  a8849bf
Commits on Aug 6, 2026
- Winter cover-crop slot and window-driven autumn sowing
  tboas
  committed
  390125b
- Per-patch use_grainproduct, cached rotation reads, hoisted date test
  tboas
  committed
  f75eb5e
Commits on Aug 18, 2026
- Disable per-patch debug writes in the vernalization and FUN paths
  tboas
  committed
  e20d038
Commits on Aug 20, 2026
- eCLM_FYM correctness fixes
  tboas
  committed
  ff3643d
- Fire/allometry params, grainproduct bcast, CFT list, manure date
  tboas
  committed
  7c2a70d
Commits on Aug 24, 2026
- Add case-setup tutorial, generic rotation-file template, reference parameter file
  tboas
  committed
  44790da
- dynHarvestMod: guard cover-crop termination to actual cover-crop patches
  tboas
  committed
  ab27d2e
Commits on Aug 26, 2026
- Add eCLM_FYM implementation matrix doc
  tboas
  committed
  cfa2b6b
Commits on Sep 29, 2026
- Merge branch 'master' into eCLM_FYM_fixes
  jjokella
  committed
  58a506c
- .github: remove CTSM files
  jjokella
  committed
  dcbae20
- src: mode changes of several files
  jjokella
  committed
  70d4c8a
- remove whitespace
  jjokella
  committed
  b3a6d62
- .gitignore: master-version, move test-files to docs/params
  jjokella
  committed
  ce5c1a3
- whitespace
  jjokella
  committed
  2d97260
- remove comments
  jjokella
  committed
  e797676
- AI summary of changes
  jjokella
  committed
  cde4946
Commits on Oct 23, 2026
- Merge branch 'master' into eCLM_FYM_fixes_merged_with_master
  jjokella
  committed
  7109836

Commits

Commits on Nov 15, 2019

Commits on Nov 18, 2019

Commits on Nov 19, 2019

Commits on Dec 13, 2019

Commits on Dec 16, 2019

Commits on Dec 18, 2019

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Commits on Jan 3, 2020

Commits on Jan 4, 2020

Commits on Jan 6, 2020

Commits on Jan 13, 2020

Commits on Jan 14, 2020

Commits on Jan 16, 2020

Commits on Jan 18, 2020

Commits on Jan 20, 2020

Commits on Jan 21, 2020

Commits on Mar 23, 2020

Commits on Mar 24, 2020

Commits on Mar 25, 2020

Commits on Mar 26, 2020

Commits on Mar 29, 2020

Commits on Mar 30, 2020

Commits on Mar 31, 2020

Commits on Apr 1, 2020

Commits on Apr 2, 2020

Commits on Apr 7, 2020

Commits on Apr 14, 2020