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new functionality and performance improvements developed under NECCTON #75

Merged
merged 67 commits into from
Jul 3, 2024
Merged

new functionality and performance improvements developed under NECCTON #75

merged 67 commits into from
Jul 3, 2024

Commits on Jan 24, 2024

  1. coupling: clean-up and improved error messages

    @jornbr
    jornbr committed Jan 24, 2024
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  2. fabm_particle clean-up

    @jornbr
    jornbr committed Jan 24, 2024
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  3. added fabm_builtin_depth_mapping

    @jornbr
    jornbr committed Jan 24, 2024
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  4. fixed data type

    @jornbr
    jornbr committed Jan 24, 2024
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Commits on Jan 25, 2024

  1. coupling optimizations

    @jornbr
    jornbr committed Jan 25, 2024
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  2. fixed flux units and long_name

    @jornbr
    jornbr committed Jan 25, 2024
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  3. added first particle examples

    @jornbr
    jornbr committed Jan 25, 2024
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  4. exclude flux sums from output by default

    @jornbr
    jornbr committed Jan 25, 2024
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  5. added output argument to get_aggregate_variable_access

    @jornbr
    jornbr committed Jan 25, 2024
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  6. speed up particle-based coupling

    @jornbr
    jornbr committed Jan 25, 2024
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  7. support faster link-based coupling

    @jornbr
    jornbr committed Jan 25, 2024
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  8. use link-based coupling for sums

    @jornbr
    jornbr committed Jan 25, 2024
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  9. cleaned-up request_coupling

    @jornbr
    jornbr committed Jan 25, 2024
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  10. refactored sum

    @jornbr
    jornbr committed Jan 25, 2024
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Commits on Jan 26, 2024

  1. use link-based coupling for aggregate variable contributions

    @jornbr
    jornbr committed Jan 26, 2024
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Commits on Jan 30, 2024

  1. replace coupling%set_string by type_particle_model%request_coupling

    @jornbr
    jornbr committed Jan 30, 2024
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  2. clean-up of depth mapping module and example

    @jornbr
    jornbr committed Jan 30, 2024
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Commits on Feb 2, 2024

  1. depth mapping: added 2d->3d projection and 3d->2d override, improved … 

    …documentation, clean-up
    @jornbr
    jornbr committed Feb 2, 2024
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  2. fixed long name of conservation check diagnostics

    @jornbr
    jornbr committed Feb 2, 2024
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  3. unit notation change

    @jornbr
    jornbr committed Feb 2, 2024
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  4. updated depth_integrated_predator example

    @jornbr
    jornbr committed Feb 2, 2024
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Commits on Feb 5, 2024

  1. depth mapping clean-up

    @jornbr
    jornbr committed Feb 5, 2024
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  2. added coupling logging

    @jornbr
    jornbr committed Feb 5, 2024
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  3. github actions: upgraded to actions/setup-python@v5

    @jornbr
    jornbr committed Feb 5, 2024
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  4. postpone transfer of initial values until after calls to before_coupling

    @jornbr
    jornbr committed Feb 5, 2024
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Commits on Feb 6, 2024

  1. sum: use link-based coupling

    @jornbr
    jornbr committed Feb 6, 2024
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  2. sum: use separate interfaces for name- and link-based components; use… 

    … link-based coupling for conservation checks
    @jornbr
    jornbr committed Feb 6, 2024
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  3. use link-based coupling for duplicates

    @jornbr
    jornbr committed Feb 6, 2024
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  4. safer log unit check

    @jornbr
    jornbr committed Feb 6, 2024
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Commits on Feb 9, 2024

  1. added first doxygen-based documentation

    @jornbr
    jornbr committed Feb 9, 2024
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  2. optionally make coupled variables available for output

    @jornbr
    jornbr committed Feb 9, 2024
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Commits on Feb 10, 2024

  1. sum: removed add_to_parent API and moved associated logic to initiali… 

    …ze instead
    @jornbr
    jornbr committed Feb 10, 2024
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Commits on Feb 20, 2024

  1. fixed testing with <10 replicates

    @jornbr
    jornbr committed Feb 20, 2024
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  2. added recursive attribute to sum%finalize

    @jornbr
    jornbr committed Feb 20, 2024
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  3. sum clean-up

    @jornbr
    jornbr committed Feb 20, 2024
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Commits on Feb 21, 2024

  1. safer background reading from fabm.yaml

    @jornbr
    jornbr committed Feb 21, 2024
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  2. simplified create_aggregate_models

    @jornbr
    jornbr committed Feb 21, 2024
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  3. simplified create_flux_sums

    @jornbr
    jornbr committed Feb 21, 2024
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  4. sum: mark some components as private

    @jornbr
    jornbr committed Feb 21, 2024
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  5. access_set_source -> access_add_source

    @jornbr
    jornbr committed Feb 21, 2024
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Commits on Feb 22, 2024

  1. clean up register_model_dependency and add support for model dependen… 

    …cy long_name
    @jornbr
    jornbr committed Feb 22, 2024
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  2. depth mapping: use register_model_dependency improvements

    @jornbr
    jornbr committed Feb 22, 2024
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  3. verify more often whether model%start has been called, if compiled in… 

    … debug mode
    @jornbr
    jornbr committed Feb 22, 2024
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Commits on Mar 1, 2024

  1. Merge branch 'master' of github.com:fabm-model/fabm into neccton

    @jornbr
    jornbr committed Mar 1, 2024
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Commits on Mar 22, 2024

  1. make state variable coupling to non-state variables a warning, not an… 

    … error
    @jornbr
    jornbr committed Mar 22, 2024
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Commits on Mar 25, 2024

  1. work around stack overflow (time filters+ifort)

    @jornbr
    jornbr committed Mar 25, 2024
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  2. improved reporting of ignored sources

    @jornbr
    jornbr committed Mar 25, 2024
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  3. split lines

    @jornbr
    jornbr committed Mar 25, 2024
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  4. replaced master/slave with variable/target

    @jornbr
    jornbr committed Mar 25, 2024
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Commits on Mar 26, 2024

  1. depth mapping: more generic long names

    @jornbr
    jornbr committed Mar 26, 2024
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  2. Merge branch 'master' of github.com:fabm-model/fabm into neccton

    @jornbr
    jornbr committed Mar 26, 2024
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  3. clean up depth mapping logic

    @jornbr
    jornbr committed Mar 26, 2024
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Commits on Mar 28, 2024

  1. Merge branch 'master' of github.com:fabm-model/fabm into neccton

    @jornbr
    jornbr committed Mar 28, 2024
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  2. depth mapping: support multiple vertical distributions through type_v… 

    …ertical_distribution_id
    @jornbr
    jornbr committed Mar 28, 2024
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  3. depth mapping: made type_vertical_distribution_id public

    @jornbr
    jornbr committed Mar 28, 2024
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  4. depth mapping: replaced remaining name-based coupling to weights

    @jornbr
    jornbr committed Mar 28, 2024
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  5. Merge branch 'master' of github.com:fabm-model/fabm into neccton

    @jornbr
    jornbr committed Mar 28, 2024
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Commits on Apr 16, 2024

  1. Merge branch 'master' of github.com:fabm-model/fabm into neccton

    @jornbr
    jornbr committed Apr 16, 2024
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Commits on Apr 25, 2024

  1. Merge branch 'master' of github.com:fabm-model/fabm into neccton

    @jornbr
    jornbr committed Apr 25, 2024
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  2. support breaking of circular dependency chains by flagging couplings … 

    …with @old
    @jornbr
    jornbr committed Apr 25, 2024
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Commits on Apr 26, 2024

  1. ensure stale dependencies are correctly loaded and stored

    @jornbr
    jornbr committed Apr 26, 2024
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  2. do not preload potentially-stale inputs if calculated by earlier call

    @jornbr
    jornbr committed Apr 26, 2024
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  3. add stale inputs to the graph before creating tasks/calls

    @jornbr
    jornbr committed Apr 26, 2024
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Commits on Apr 27, 2024

  1. freeze graph as part of job_create_tasks

    @jornbr
    jornbr committed Apr 27, 2024
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  2. fabm_job: return call from index find_responsible_task, making output… 

    …_is_produced_before redundant
    @jornbr
    jornbr committed Apr 27, 2024
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Commits on Apr 28, 2024

  1. fabm_job: simplify link_cowritten_outputs

    @jornbr
    jornbr committed Apr 28, 2024
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Commits on Jul 2, 2024

  1. Merge branch 'master' of github.com:fabm-model/fabm into neccton

    @jornbr
    jornbr committed Jul 2, 2024
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