PlanktonIndividuals.jl - v0.7.5

PlanktonIndividuals v0.7.5

Diff since v0.7.4

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 2 months ago

PlanktonIndividuals.jl - v0.7.4

PlanktonIndividuals v0.7.4

Diff since v0.7.2

Merged pull requests:

• use accumulate! instead of cumsum (#74) (@zhenwu0728)
• add IronEnergyMode (#75) (@zhenwu0728)
• Add support for Metal.jl (#76) (@zhenwu0728)
• a more detailed iron allocation (#77) (@zhenwu0728)
• add N fixation in IronEnergyMode (#78) (@zhenwu0728)
• bug fix in N fixation (#81) (@zhenwu0728)
• Nitrogen fixation update (#84) (@zhenwu0728)
• add Bacteria in CarbonMode (#85) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 2 months ago

PlanktonIndividuals.jl - v0.7.2

PlanktonIndividuals v0.7.2

Diff since v0.7.1

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] 12 months ago

PlanktonIndividuals.jl - v0.7.1

PlanktonIndividuals v0.7.1

Diff since v0.7.0

Merged pull requests:

• use atomic in KernerAbstractions.jl (#68) (@zhenwu0728)
• support both Float32 and Float64 (#69) (@zhenwu0728)
• use Float32 as default (#70) (@zhenwu0728)
• update notebook dependencies (#71) (@gaelforget)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] 12 months ago

PlanktonIndividuals.jl - v0.7.0

PlanktonIndividuals v0.7.0

Diff since v0.6.6

Merged pull requests:

• Add accumulated thermal damage and related stuff (#67) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 1 year ago

PlanktonIndividuals.jl - v0.6.6

PlanktonIndividuals v0.6.6

Diff since v0.6.5

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 2 years ago

PlanktonIndividuals.jl - v0.6.5

PlanktonIndividuals v0.6.5

Diff since v0.6.4

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 2 years ago

PlanktonIndividuals.jl - v0.6.4

PlanktonIndividuals v0.6.4

Diff since v0.6.3

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 2 years ago

PlanktonIndividuals.jl - v0.6.3

PlanktonIndividuals v0.6.3

Diff since v0.6.2

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 2 years ago

PlanktonIndividuals.jl - v0.6.2

PlanktonIndividuals v0.6.2

Diff since v0.6.1

Merged pull requests:

• start to use KA v0.9 and remove events in KA (#64) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 2 years ago

PlanktonIndividuals.jl - v0.6.1

PlanktonIndividuals v0.6.1

Diff since v0.6.0

Closed issues:

• global 3D example broken (#62)

Merged pull requests:

• update / fix example (#63) (@gaelforget)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 2 years ago

PlanktonIndividuals.jl - v0.6.0

PlanktonIndividuals v0.6.0

Diff since v0.5.2

Merged pull requests:

• add ability to simulate molecule diffusion (#61) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 2 years ago

PlanktonIndividuals.jl - v0.5.2

PlanktonIndividuals v0.5.2

Diff since v0.5.1

Merged pull requests:

• more plots (tracer,Chl) in 0D example (#59) (@gaelforget)
• Thermal mortality (#60) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 2 years ago

PlanktonIndividuals.jl - v0.5.1

PlanktonIndividuals v0.5.1

Diff since v0.5.0

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 3 years ago

PlanktonIndividuals.jl - v0.5.0

PlanktonIndividuals v0.5.0

Diff since v0.4.9

Merged pull requests:

• clean up code in halo_regions.jl (#53) (@zhenwu0728)
• CompatHelper: bump compat for CUDAKernels to 0.4, (keep existing compat) (#54) (@github-actions[bot])
• CompatHelper: bump compat for KernelAbstractions to 0.8, (keep existing compat) (#55) (@github-actions[bot])
• add CONTRIBUTING.md draft (#56) (@gaelforget)
• add Macro molecular mode for phytoplankton growth (#57) (@zhenwu0728)
• final (?) revision to paper (#58) (@gaelforget)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 3 years ago

PlanktonIndividuals.jl - v0.4.9

PlanktonIndividuals v0.4.9

Diff since v0.4.8

Closed issues:

• stable versions of docs not getting generated (#51)

Merged pull requests:

• update docs, README, and joss paper (#52) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 3 years ago

PlanktonIndividuals.jl - v0.4.8

PlanktonIndividuals v0.4.8

Diff since v0.4.7

Merged pull requests:

• Example fixes & add global 3D example (#50) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 3 years ago

PlanktonIndividuals.jl - v0.4.7

PlanktonIndividuals v0.4.7

Diff since v0.4.6

Merged pull requests:

• update examples (#43) (@zhenwu0728)
• JOSS paper - update citations (#44) (@zhenwu0728)
• include description of model outputs in JOSS paper (#45) (@zhenwu0728)
• doc fixes / improvements (#46) (@gaelforget)
• Doc fix (#47) (@zhenwu0728)
• one-year run and plot of 3D advection example (#48) (@gaelforget)
• reorganize grid structs into RectilinearGrid and LatLonGrid (#49) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 3 years ago

PlanktonIndividuals.jl - v0.4.6

PlanktonIndividuals v0.4.6

Diff since v0.4.5

Closed issues:

• An example of global simulation (#22)

Merged pull requests:

• update to joss branch [WIP] (#41) (@gaelforget)
• add land masks for tracer advection in global cases (#42) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.4.5

PlanktonIndividuals v0.4.5

Diff since v0.4.4

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.4.4

PlanktonIndividuals v0.4.4

Diff since v0.4.3

Merged pull requests:

• add example 3D example setup (#40) (@gaelforget)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.4.3

PlanktonIndividuals v0.4.3

Diff since v0.4.2

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.4.2

PlanktonIndividuals v0.4.2

Diff since v0.4.1

Closed issues:

• unexpected slow down when benchmarking 0D simulations (#37)

Merged pull requests:

• reduced memory allocation for individuals+improved performance (#39) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.4.1

PlanktonIndividuals v0.4.1

Diff since v0.4.0

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.4.0

PlanktonIndividuals v0.4.0

Diff since v0.3.6

1. add docstrings
2. use pluto.jl to show examples
3. include different modes to resolve phytoplankton physiology processes

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.3.6

PlanktonIndividuals v0.3.6

Diff since v0.3.5

1. replace Literate.jl with Pluto.jl

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.3.5

PlanktonIndividuals v0.3.5

Diff since v0.3.4

1. add CarbonMode for phytoplankton physiology
2. add output writer
3. reorganize files into different sub modelues

Closed issues:

• New releases (#10)
• unexpected slow down when benchmarking 0D simulations (#37)

Merged pull requests:

• allow more flexibility for PARF and temperature (#32) (@zhenwu0728)
• for Julia>=1.7 CUDA no longer exports @atomic (#36) (@gaelforget)
• add CarbonMode for phytoplankton physiology (#38) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 3 years ago

PlanktonIndividuals.jl - v0.3.4

PlanktonIndividuals v0.3.4

Diff since v0.3.3

1. update docs
2. add vertically stretched latitude-longitude grid

Merged pull requests:

• first set of dcumention edits (#30) (@gaelforget)
• update badge and link to use travis-ci.com (#31) (@gaelforget)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 4 years ago

PlanktonIndividuals.jl - v0.3.3

PlanktonIndividuals v0.3.3

Diff since v0.3.2

1. use normalized indices instead of meters for individuals
2. correct annotations grid spacing (face or center)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 4 years ago

PlanktonIndividuals.jl - v0.3.2

PlanktonIndividuals v0.3.2

Diff since v0.3.1

1. add RegularLatLonGrid
2. add a global ocean example
3. bug fixes
4. add GPU support in docs

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 4 years ago

PlanktonIndividuals.jl - v0.3.1

PlanktonIndividuals v0.3.1

Diff since v0.3.0

1. bug fixed from v0.3.0

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 4 years ago

PlanktonIndividuals.jl - v0.3.0

PlanktonIndividuals v0.3.0

Diff since v0.2.0

1. documentation completed
2. examples added
3. benchmark added
4. more user-friendly interface

Closed issues:

• Create a divergence-free 3D velocity field to be used in examples (#19)

Merged pull requests:

• vertical_2D_example & literate (#20) (@gaelforget)
• global ocean example + README update + plankton_without_physiology.jl (#21) (@gaelforget)
• docs revision (cosmetic changes mostly) (#23) (@gaelforget)
• cosmetic changes to examples + new example name suggestions + mv helper functions (#24) (@gaelforget)
• docs update + separate diagnostics from PlanktonModel (#25) (@zhenwu0728)
• Merge pull request #25 from JuliaOcean/dev0513 (#26) (@zhenwu0728)
• Dev0513 (#27) (@zhenwu0728)
• bug fixes in docs & examples (#28) (@zhenwu0728)
• update docs of model description (#29) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 4 years ago

PlanktonIndividuals.jl - v0.2.0

PlanktonIndividuals v0.2.0

Diff since v0.1.9

1. add GPU support
2. src files reorganized

Merged pull requests:

• add GPU support (#17) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] over 4 years ago

PlanktonIndividuals.jl - v0.1.9

PlanktonIndividuals v0.1.9

Diff since v0.1.8

1.add an option for N fixation
2.use a constant respiration rate instead of a proportion of PP
3.add natural death to individuals

Merged pull requests:

• Dev (#16) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 5 years ago

PlanktonIndividuals.jl - v0.1.8

PlanktonIndividuals v0.1.8

Diff since v0.1.7

1. added population related grazing pressure
2. added 5 options of different cell division rules
3. added an initial condition for C, N, P reserves
4. fixed photo-inhibition

Merged pull requests:

• Dev (#15) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 5 years ago

PlanktonIndividuals.jl - v0.1.7

PlanktonIndividuals v0.1.7

Diff since v0.1.6

add different options of cell division strategy

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 5 years ago

PlanktonIndividuals.jl - v0.1.6

PlanktonIndividuals v0.1.6

Diff since v0.1.5

1. add diagnostic options
2. use real time (in seconds) for model.t
3. fix bugs in individual diffusion

Merged pull requests:

• adder-like cell division (#13) (@zhenwu0728)
• Diags (#14) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 5 years ago

PlanktonIndividuals.jl - v0.1.5

PlanktonIndividuals v0.1.5

Diff since v0.1.4

1. use NCDatasets.jl instead of NetCDF.jl
2. add DOC uptake if useDOC allowed
3. grid structure changed

Merged pull requests:

• Dev (#12) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] almost 5 years ago

PlanktonIndividuals.jl - v0.1.4

PlanktonIndividuals v0.1.4

Diff since v0.1.3

1. add metabolic rate to all reserves
2. make metabolic rate size dependent

Merged pull requests:

• update: phytoplankton physiology (#11) (@zhenwu0728)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 5 years ago

PlanktonIndividuals.jl - v0.1.3

PlanktonIndividuals v0.1.3

Diff since v0.1.2

1. phytoplankton physiology processes update
2. bug fixes
3. add more examples

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 5 years ago

PlanktonIndividuals.jl - v0.1.2

PlanktonIndividuals v0.1.2

Diff since v0.1.0

Check out my new features!

Closed issues:

• Register new package (#9)

Biosphere - Marine Life and Fishery - Julia
Published by github-actions[bot] about 5 years ago

PlanktonIndividuals.jl -

1. use Array to record individual information instead of DataFrame
2. change test cases to mass conservation tests which can test nutrient and individuals together
3. fixed 3rd order direct space-time with flux limiting advection scheme

Biosphere - Marine Life and Fishery - Julia
Published by zhenwu0728 about 5 years ago

PlanktonIndividuals.jl -

Biosphere - Marine Life and Fishery - Julia
Published by zhenwu0728 about 5 years ago

PlanktonIndividuals.jl - V0.0.1

Original version

Biosphere - Marine Life and Fishery - Julia
Published by zhenwu0728 almost 6 years ago