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Update Plant Mortality tech note#4075

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wwieder merged 17 commits into
ESCOMP:b4b-devfrom
sy-li:edit_plant_mort
Jun 3, 2026
Merged

Update Plant Mortality tech note#4075
wwieder merged 17 commits into
ESCOMP:b4b-devfrom
sy-li:edit_plant_mort

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@sy-li

@sy-li sy-li commented Jun 3, 2026

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Description of changes

  • Highlight the major change - uniform 2% mortality rate has been changed to PFT-dependent variable; add a table showing current r_mort parameter values.
  • Restructure the text to make conceptual representation and implementation more explicit.
  • Generalize the equations for mortality fluxes leaving vegetation pools, so there are fewer equations now.
  • Other minor fixes to improve the readability.

Specific notes

Contributors other than yourself, if any:

  • None.

CTSM issues resolved or otherwise addressed, if any:

Testing planned or performed, if any:

  • Changed document pages have been built and previewed locally.

Requirements before merge:

@sy-li sy-li marked this pull request as draft June 3, 2026 02:47
@sy-li sy-li requested a review from wwieder June 3, 2026 02:49
@sy-li sy-li marked this pull request as ready for review June 3, 2026 02:50
@wwieder wwieder linked an issue Jun 3, 2026 that may be closed by this pull request
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@wwieder wwieder self-assigned this Jun 3, 2026
@wwieder wwieder added documentation additions or edits to user-facing documentation or its infrastructure b4b bit-for-bit docs:update Significant update or fix needed to existing documentation docs-loc:tech-note Relates to Technical Note (science) labels Jun 3, 2026

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Looks good, I've added one reference.

Comment thread doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst Outdated
Comment thread doc/source/tech_note/References/CLM50_Tech_Note_References.rst
Comment thread doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst Outdated
Comment thread doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst Outdated
Comment thread doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst Outdated
Comment thread doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst Outdated
Comment thread doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst Outdated
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❌ Docs build failed

Build logs
Cleaning documentation build directory...
Done.
Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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Cleaning documentation build directory...
Done.
Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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Cleaning documentation build directory...
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Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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Cleaning documentation build directory...
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/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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Cleaning documentation build directory...
Done.
Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

Comment thread doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst Outdated
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Cleaning documentation build directory...
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Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

Comment thread doc/source/tech_note/References/CLM50_Tech_Note_References.rst
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Cleaning documentation build directory...
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Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/home/user/mounted_home/doc/source/tech_note/External_Nitrogen_Cycle/CLM50_Tech_Note_External_Nitrogen_Cycle.rst:68: WARNING: undefined label: 'lietal2000' [ref.ref]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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Cleaning documentation build directory...
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Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
/home/user/mounted_home/doc/source/tech_note/External_Nitrogen_Cycle/CLM50_Tech_Note_External_Nitrogen_Cycle.rst:68: WARNING: undefined label: 'lietal2000' [ref.ref]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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Cleaning documentation build directory...
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Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

Comment thread doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst Outdated
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Cleaning documentation build directory...
Done.
Building documentation...
/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: Inline interpreted text or phrase reference start-string without end-string. [docutils]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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Cleaning documentation build directory...
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/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: undefined label: 'liaoetal2023' [ref.ref]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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Comment thread doc/source/tech_note/References/CLM50_Tech_Note_References.rst Outdated
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/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: undefined label: 'luetal2020>, liao et al. 2023<liaoetal2023' [ref.ref]
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/home/user/mounted_home/doc/source/tech_note/Plant_Mortality/CLM50_Tech_Note_Plant_Mortality.rst:52: WARNING: undefined label: 'luetal2020>, liao et al. 2023<liaoetal2023' [ref.ref]
Documentation build completed, but with problems that must be resolved.
Re-run with --verbose for full output.

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tired of formatting refs

@wwieder wwieder merged commit e33793b into ESCOMP:b4b-dev Jun 3, 2026
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@wwieder wwieder moved this from Done to Done pending master merge in CLM documentation Jun 3, 2026
@sy-li

sy-li commented Jun 3, 2026

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tired of formatting refs
@wwieder Yay! It succeeds finally!!

@ekluzek ekluzek mentioned this pull request Jun 8, 2026
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b4b bit-for-bit docs:update Significant update or fix needed to existing documentation docs-loc:tech-note Relates to Technical Note (science) documentation additions or edits to user-facing documentation or its infrastructure

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Review 2.24. Plant Mortality

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