Ecosyste.ms: Issues

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GitHub / PALEOtoolkit/PALEOboxes.jl issues and pull requests

#127 - Define cartesian_size for all grids

Pull Request - State: closed - Opened by sjdaines 21 days ago

#126 - Add back Varlist_tuple_nothing(nvec) and mark as deprecated

Pull Request - State: closed - Opened by sjdaines 21 days ago

#125 - Better error message if create Reaction fails

Pull Request - State: closed - Opened by sjdaines 24 days ago

#124 - Generalize ReactionForceGrid

Pull Request - State: closed - Opened by sjdaines about 2 months ago

#123 - TODO to support sensitivity studies

Issue - State: open - Opened by sjdaines 2 months ago

#122 - Update doc to recommend vscode yaml extension

Issue - State: open - Opened by sjdaines 2 months ago

#120 - Bugfix for ReactionReservoirScalar with state_norm = true

Pull Request - State: closed - Opened by sjdaines 2 months ago

#119 - Bump julia-actions/setup-julia from 1 to 2

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago
Labels: dependencies

#118 - Add ParameterAggregator (for parameter sensitivity studies)

Pull Request - State: closed - Opened by sjdaines 3 months ago

#117 - ReactionReservoirScalar add state_norm option

Pull Request - State: closed - Opened by sjdaines 3 months ago

#115 - Updates to support PALEOaqchem generic chemistry

Pull Request - State: closed - Opened by sjdaines 4 months ago

#114 - Add ReactionReservoirConc, :gamma attribute

Pull Request - State: closed - Opened by sjdaines 4 months ago

#113 - Add :gamma variable attribute for sediment solute state variable

Pull Request - State: closed - Opened by sjdaines 4 months ago

#112 - Bugfix error message when yaml config not found

Pull Request - State: closed - Opened by sjdaines 5 months ago

#111 - Bump codecov/codecov-action from 3 to 4

Pull Request - State: open - Opened by dependabot[bot] 5 months ago
Labels: dependencies

#110 - Bump actions/cache from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 5 months ago
Labels: dependencies

#109 - CompatHelper: bump compat for NCDatasets to 0.14, (keep existing compat)

Pull Request - State: closed - Opened by github-actions[bot] 7 months ago - 1 comment

#107 - CompatHelper: bump compat for NCDatasets to 0.13, (keep existing compat)

Pull Request - State: closed - Opened by github-actions[bot] 9 months ago - 1 comment

#106 - Support Variable attributes with external%somepar in yaml

Pull Request - State: closed - Opened by sjdaines 9 months ago

#105 - Update to Documenter v1

Pull Request - State: closed - Opened by sjdaines 10 months ago - 1 comment

#104 - Bump actions/checkout from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago - 1 comment
Labels: dependencies

#103 - logging tidyup

Pull Request - State: closed - Opened by sjdaines 10 months ago - 1 comment

#102 - Fix precompile helper functions

Pull Request - State: closed - Opened by sjdaines 10 months ago

#101 - further logging tidy up

Pull Request - State: closed - Opened by sjdaines 10 months ago

#100 - Logging tidyup

Pull Request - State: closed - Opened by sjdaines 10 months ago

#99 - Use attributes on rate variable instead of get_rate_stoichiometry()

Pull Request - State: closed - Opened by sjdaines 11 months ago

#98 - Fix typo in VarConstraintScalar introduced in v0.21.5

Pull Request - State: closed - Opened by sjdaines 11 months ago

#97 - Improve slow startup with large reaction networks

Pull Request - State: closed - Opened by sjdaines 11 months ago

#96 - Fix error message from check_parameter_sum

Pull Request - State: closed - Opened by sjdaines 11 months ago

#95 - Fix crash with debug logging

Pull Request - State: closed - Opened by sjdaines 11 months ago

#94 - VariableAggregator test pack CellSpace variables

Pull Request - State: open - Opened by sjdaines 12 months ago

#93 - Add a remake! function

Issue - State: open - Opened by sjdaines about 1 year ago

#92 - Can't use modelpars to set a boolean parameter

Issue - State: closed - Opened by sjdaines about 1 year ago - 1 comment
Labels: invalid

#91 - More documentation and tidyup for VariableAttributes

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#90 - Initial value VariableAttributes should be optional

Issue - State: open - Opened by sjdaines about 1 year ago

#89 - Remove :mesh, :initialize_to_zero from required VariableAttributes

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#88 - Update documentation for ReactionFluxTransfer, VariableAttributes

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#87 - Fix for const ReactionReservoirScalar

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#86 - Variable attributes update

Pull Request - State: closed - Opened by sjdaines about 1 year ago - 1 comment

#85 - Dimensions and coordinates

Pull Request - State: open - Opened by sjdaines about 1 year ago

#84 - Document how to benchmark and optimize models

Issue - State: open - Opened by sjdaines about 1 year ago
Labels: documentation

#83 - Document how to use Domain tiling and threads

Issue - State: open - Opened by sjdaines about 1 year ago
Labels: documentation

#82 - Bump codecov/codecov-action from 1 to 3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#81 - Bump actions/checkout from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#80 - Bump actions/cache from 1 to 3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#79 - Improve documentation for Variables

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#78 - Improve documententation for how to attach numerical solvers

Issue - State: open - Opened by sjdaines about 1 year ago
Labels: documentation

#77 - Document Variable types more clearly

Issue - State: closed - Opened by sjdaines about 1 year ago
Labels: documentation

#76 - Migrate from SnoopPrecompile to PrecompileTools

Pull Request - State: closed - Opened by timholy about 1 year ago - 3 comments

#75 - Add ReactionReservoirAtm

Pull Request - State: open - Opened by sjdaines about 1 year ago - 1 comment

#74 - Robustness fixes for ReactionReservoirScalar, ReactionConst

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#73 - ReactionReservoirConst fix to prevent modification

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#72 - Update doc for SIMDutils, IteratorUtils

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#71 - Robustness fix: freeze parameters for reservoir Reactions

Pull Request - State: closed - Opened by sjdaines about 1 year ago

#70 - Fix docstring for add_method_do_totals_default!

Pull Request - State: closed - Opened by sjdaines over 1 year ago

#69 - Better error messages for Variable link / attribute misconfiguration

Pull Request - State: closed - Opened by sjdaines over 1 year ago

#68 - ReactionFluxTransfer should use CellSpace

Issue - State: open - Opened by sjdaines over 1 year ago

#67 - Fix yaml parse failure with concatenated files

Pull Request - State: closed - Opened by sjdaines over 1 year ago

#65 - Fix variable linking for ReactionMethod not in reaction Domain

Pull Request - State: closed - Opened by sjdaines over 1 year ago - 1 comment

#64 - Work in progress to support parameter etc local sensitivity studies

Pull Request - State: closed - Opened by sjdaines over 1 year ago - 2 comments

#63 - ModelData can now store multiple sets of arrays for different element types

Pull Request - State: closed - Opened by sjdaines over 1 year ago - 1 comment

#62 - VariableAggregator updates

Pull Request - State: closed - Opened by sjdaines over 1 year ago

#61 - Add get_variable_attribute(model::Model, ...)

Pull Request - State: closed - Opened by sjdaines over 1 year ago

#60 - Provide a convenient way to read Model VariableDomain attributes

Issue - State: closed - Opened by sjdaines over 1 year ago - 1 comment

#59 - VariableAggregator access by variable name

Issue - State: closed - Opened by sjdaines over 1 year ago - 1 comment

#58 - Use EnumX

Issue - State: open - Opened by sjdaines over 1 year ago

#57 - Add generated_dispatch option

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#56 - ReactionMethod etc updates to reduce startup time

Pull Request - State: closed - Opened by sjdaines almost 2 years ago - 1 comment

#55 - Reduce startup time, update Project.toml for v0.21.3

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#54 - change ReactionMethod, VariableAggregator to immutable struct

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#53 - Define a new ColumnSpace <: AbstractSpace

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#52 - Check variable sizes

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#51 - Check for Variable lengths is failing.

Issue - State: closed - Opened by sjdaines almost 2 years ago - 1 comment

#50 - fixes for TestUtils

Pull Request - State: closed - Opened by sjdaines almost 2 years ago - 1 comment

#49 - doc updates

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#48 - Update doc for ReactionMethod changes

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#47 - remove ReactionForceInsolation as this is a model-specific forcing

Pull Request - State: closed - Opened by sjdaines almost 2 years ago - 1 comment

#46 - ReactionMethod.jl support Julia 1.6 form of 'methods'

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#45 - use SnoopPrecompile

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#44 - Simplify Parameters access, provide Parameters to ReactionMethod

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#43 - Duplicate keys in yaml config file are silently overwritten

Issue - State: open - Opened by sjdaines almost 2 years ago - 1 comment

#42 - update Fields docsstring

Pull Request - State: closed - Opened by sjdaines almost 2 years ago - 1 comment

#41 - fix VariableAggregatorNamed length, num_vars

Pull Request - State: closed - Opened by sjdaines almost 2 years ago - 1 comment

#40 - Document VariableAggregatorNamed

Pull Request - State: closed - Opened by sjdaines almost 2 years ago - 1 comment

#39 - CompatHelper: bump compat for Interpolations to 0.14, (keep existing compat)

Pull Request - State: closed - Opened by github-actions[bot] almost 2 years ago - 2 comments

#38 - fix collate_markdown absolute vs relative paths

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#37 - Add Docutils.jl, collate_markdown() function

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#36 - Simplify Reaction method dispatch, update doc

Pull Request - State: closed - Opened by sjdaines almost 2 years ago

#35 - Fix setup of constant (non-state) Variables

Pull Request - State: closed - Opened by sjdaines about 2 years ago

#34 - Latency fixes: add @nospecialize, precompile Reactions

Pull Request - State: closed - Opened by sjdaines about 2 years ago

#33 - bugfix for ReactionFluxPerturb

Pull Request - State: closed - Opened by sjdaines about 2 years ago

#32 - Add new dispatch_setup(model, :setup, modeldata)

Pull Request - State: closed - Opened by sjdaines about 2 years ago

#31 - Move SolverView to PALEOmodel package

Pull Request - State: closed - Opened by sjdaines about 2 years ago

#30 - Change SLEEF default to disabled

Pull Request - State: closed - Opened by sjdaines about 2 years ago

#29 - Fix show_all_reactions()

Pull Request - State: closed - Opened by sjdaines about 2 years ago

#28 - Add convert method for IsotopeLinear

Pull Request - State: closed - Opened by sjdaines about 2 years ago