doctest failure in ~/work/Taxonomy.jl/Taxonomy.jl/src/filter.jl:26-73 ```jldoctest filter-examples ## Example just for demonstration, coding is not actually derived from the paper! using Taxonomy using Taxonomy.Judgements test_db = RecordDatabase() test_db += Record( rater="NH", id="2a129694-550c-4396-be6f-00507b1dc7ba", location=DOI("10.1007/s10869-019-09648-5"), Lang("en"), Study( N(100, 0.8), Model(Standardized(false), LatentPathmodel( Structural(structural_model=missing), Dict( :IP => Measurement(n_variables=3, factor_variance=missing, loadings=missing, quest_scale=7), :IN => Measurement(n_variables=4, factor_variance=missing, loadings=missing, quest_scale=6), :DN => Measurement(n_variables=3, factor_variance=missing, loadings=missing, quest_scale=7), :BC => Measurement(n_variables=3, factor_variance=missing, loadings=missing, quest_scale=5), :IB => Measurement(n_variables=5, factor_variance=missing, loadings=missing, quest_scale=5) ) ) ), Model(Standardized(true), NoTaxon() ) ), Study( N(200, 0.98), Model(Standardized(false), ), Model(Standardized(false)) ) ) ## Filtering on Taxon level filter_Pathmodel = filter(x -> typeof(x) == NoTaxonEver, test_db, "Taxon") Model(Study(filter_Pathmodel[Base.UUID("2a129694-550c-4396-be6f-00507b1dc7ba")])[1])[2] # output Model(Dict{Symbol, Vector{Union{Taxon, AbstractJudgement}}}(:Taxon => [NoTaxonEver ], :Standardized => [Standardized{Bool}(true, 1.0, missing)])) ``` Subexpression: ## Example just for demonstration, coding is not actually derived from the paper! using Taxonomy using Taxonomy.Judgements test_db = RecordDatabase() test_db += Record( rater="NH", id="2a129694-550c-4396-be6f-00507b1dc7ba", location=DOI("10.1007/s10869-019-09648-5"), Lang("en"), Study( N(100, 0.8), Model(Standardized(false), LatentPathmodel( Structural(structural_model=missing), Dict( :IP => Measurement(n_variables=3, factor_variance=missing, loadings=missing, quest_scale=7), :IN => Measurement(n_variables=4, factor_variance=missing, loadings=missing, quest_scale=6), :DN => Measurement(n_variables=3, factor_variance=missing, loadings=missing, quest_scale=7), :BC => Measurement(n_variables=3, factor_variance=missing, loadings=missing, quest_scale=5), :IB => Measurement(n_variables=5, factor_variance=missing, loadings=missing, quest_scale=5) ) ) ), Model(Standardized(true), NoTaxon() ) ), Study( N(200, 0.98), Model(Standardized(false), ), Model(Standardized(false)) ) ) ## Filtering on Taxon level filter_Pathmodel = filter(x -> typeof(x) == NoTaxonEver, test_db, "Taxon") Model(Study(filter_Pathmodel[Base.UUID("2a129694-550c-4396-be6f-00507b1dc7ba")])[1])[2] Evaluated output: Model(Dict{Symbol, Vector{Union{Taxon, AbstractJudgement}}}(:Taxon => [NoTaxonEver ], Symbol("Taxonomy.Judgements.Standardized") => [Standardized{Bool}(true, 1.0, missing)])) Expected output: Model(Dict{Symbol, Vector{Union{Taxon, AbstractJudgement}}}(:Taxon => [NoTaxonEver ], :Standardized => [Standardized{Bool}(true, 1.0, missing)])) diff = Warning: Diff output requires color. Model(Dict{Symbol, Vector{Union{Taxon, AbstractJudgement}}}(:Taxon => [NoTaxonEver ], :Standardized Symbol("Taxonomy.Judgements.Standardized") => [Standardized{Bool}(true, 1.0, missing)]))

doctest failure in ~/work/Taxonomy.jl/Taxonomy.jl/src/filter.jl:75-85 ```jldoctest filter-examples ## Filtering on Model level filter_Standardized = filter(x -> rating(x, :Standardized) == true, test_db, "Model") Model(Study(filter_Standardized[Base.UUID("2a129694-550c-4396-be6f-00507b1dc7ba")])[1]) # output 1-element Vector{Union{Model, AbstractJudgement}}: Model(Dict{Symbol, Vector{Union{Taxon, AbstractJudgement}}}(:Taxon => [NoTaxonEver ], :Standardized => [Standardized{Bool}(true, 1.0, missing)])) ``` Subexpression: ## Filtering on Model level filter_Standardized = filter(x -> rating(x, :Standardized) == true, test_db, "Model") Model(Study(filter_Standardized[Base.UUID("2a129694-550c-4396-be6f-00507b1dc7ba")])[1]) Evaluated output: Union{Model, AbstractJudgement}[] Expected output: 1-element Vector{Union{Model, AbstractJudgement}}: Model(Dict{Symbol, Vector{Union{Taxon, AbstractJudgement}}}(:Taxon => [NoTaxonEver ], :Standardized => [Standardized{Bool}(true, 1.0, missing)])) diff = Warning: Diff output requires color. 1-element Vector{Union{Model, AbstractJudgement}}: Model(Dict{Symbol, Vector{Union{Taxon, AbstractJudgement}}}(:Taxon => [NoTaxonEver ], :Standardized => [Standardized{Bool}(true, 1.0, missing)]))Union{Model, AbstractJudgement}[]

doctest failure in ~/work/Taxonomy.jl/Taxonomy.jl/src/filter.jl:88-98 ```jldoctest filter-examples ## Filtering on Study level filter_N = filter(x -> certainty(x, :N) > 0.9, test_db, "Study") Study(filter_N[Base.UUID("2a129694-550c-4396-be6f-00507b1dc7ba")]) # output 1-element Vector{Union{Study, AbstractJudgement}}: Study(Dict{Symbol, Vector{Union{JudgementLevel, AbstractJudgement}}}(:N => [N{Int64}(200, 0.98, missing)])) ``` Subexpression: ## Filtering on Study level filter_N = filter(x -> certainty(x, :N) > 0.9, test_db, "Study") Study(filter_N[Base.UUID("2a129694-550c-4396-be6f-00507b1dc7ba")]) Evaluated output: ERROR: MethodError: no method matching certainty(::Vector{Vector{Union{JudgementLevel, AbstractJudgement}}}) Closest candidates are: certainty(!Matched::Pair{Base.UUID, Record}, !Matched::Symbol) @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/judgements/judgement.jl:139 certainty(!Matched::Array{Union{AbstractJudgement, T}, 1}) where T<:JudgementLevel @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/judgements/judgement.jl:141 certainty(!Matched::JudgementLevel, !Matched::Symbol) @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/judgements/judgement.jl:140 ... Stacktrace: [1] certainty(x::Study, field::Symbol) @ Taxonomy.Judgements ~/work/Taxonomy.jl/Taxonomy.jl/src/judgements/judgement.jl:140 [2] (::var"#5#6")(x::Study) @ Main.var"Main" ./none:3 [3] filter(f::var"#5#6", s::Vector{Union{Study, AbstractJudgement}}) @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/filter.jl:4 [4] filter(f::Function, db::RecordDatabase{Base.UUID, Record}, level::String) @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/filter.jl:112 [5] top-level scope @ none:1 Expected output: 1-element Vector{Union{Study, AbstractJudgement}}: Study(Dict{Symbol, Vector{Union{JudgementLevel, AbstractJudgement}}}(:N => [N{Int64}(200, 0.98, missing)])) diff = Warning: Diff output requires color. 1-element Vector{Union{Study, AbstractJudgement}}: Study(Dict{Symbol, Vector{Union{JudgementLevel, AbstractJudgement}}}(:N => [N{Int64}(200, 0.98, missing)]))ERROR: MethodError: no method matching certainty(::Vector{Vector{Union{JudgementLevel, AbstractJudgement}}}) Closest candidates are: certainty(!Matched::Pair{Base.UUID, Record}, !Matched::Symbol) @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/judgements/judgement.jl:139 certainty(!Matched::Array{Union{AbstractJudgement, T}, 1}) where T<:JudgementLevel @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/judgements/judgement.jl:141 certainty(!Matched::JudgementLevel, !Matched::Symbol) @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/judgements/judgement.jl:140 ... Stacktrace: [1] certainty(x::Study, field::Symbol) @ Taxonomy.Judgements ~/work/Taxonomy.jl/Taxonomy.jl/src/judgements/judgement.jl:140 [2] (::var"#5#6")(x::Study) @ Main.var"Main" ./none:3 [3] filter(f::var"#5#6", s::Vector{Union{Study, AbstractJudgement}}) @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/filter.jl:4 [4] filter(f::Function, db::RecordDatabase{Base.UUID, Record}, level::String) @ Taxonomy ~/work/Taxonomy.jl/Taxonomy.jl/src/filter.jl:112 [5] top-level scope @ none:1

Process completed with exit code 1.

Process completed with exit code 1.

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, julia-actions/setup-julia@v1, actions/cache@4d4ae6ae148a43d0fd1eda1800170683e9882738, pyTooling/Actions/with-post-step@adef08d3bdef092282614f3b683897cefae82ee3, codecov/codecov-action@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, codecov/codecov-action@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, julia-actions/setup-julia@v1, actions/cache@4d4ae6ae148a43d0fd1eda1800170683e9882738, pyTooling/Actions/with-post-step@adef08d3bdef092282614f3b683897cefae82ee3, codecov/codecov-action@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, codecov/codecov-action@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

no doc found for reference '[`JudgementLevel`](@ref)' in src/tutorials/judgement.md.

no doc found for reference '[`Judments`](@ref)' in src/tutorials/judgement.md.

no doc found for reference '[`Standalone_Factor`](@ref)' in src/index.md.

no doc found for reference '[`Strucutral`](@ref)' in src/index.md.

40 docstrings not included in the manual: Taxonomy.Judgements.JudgementInt Taxonomy.variance_intercept :: Tuple{SimpleLGCM} Taxonomy.variance_slope :: Tuple{SimpleLGCM} Taxonomy.Judgements.Lang Taxonomy.Judgements.Empirical Taxonomy.Judgements.JudgementVecNumber Taxonomy.judgements :: Tuple{JudgementLevel} Taxonomy.covariance_intercept_slope :: Tuple{SimpleLGCM} Taxonomy.timecoding :: Tuple{SimpleLGCM} Taxonomy.StandaloneFactor :: Tuple{} Taxonomy.intercept :: Tuple{SimpleLGCM} Taxonomy.AbstractJudgement Taxonomy.n_predictors :: Tuple{SimpleLGCM} Taxonomy.Judgements.JudgementString Taxonomy.Judgements.CFI Base.filter :: Tuple{Any, RecordDatabase, AbstractString} Taxonomy.nonlinear_timecoding :: Tuple{SimpleLGCM} Taxonomy.Judgements.JudgementVecBool Taxonomy.predictor_paths_intercept :: Tuple{SimpleLGCM} Taxonomy.auto_request_meta :: Tuple{Bool} Taxonomy.Fixed Taxonomy.NoTaxon Taxonomy.Judgements.JudgementVecString Taxonomy.variances_timepoints :: Tuple{SimpleLGCM} Taxonomy.Judgements.Quest Taxonomy.Judgements.JudgementBool Taxonomy.Judgements.N Taxonomy.AbstractPathmodel Taxonomy.n_timepoints :: Tuple{SimpleLGCM} Taxonomy.Judgements.JudgementVecInt Taxonomy.Judgements.comment :: Tuple{AbstractJudgement} Taxonomy.measurement_model :: Tuple{Taxon} Taxonomy.Judgements.Standardized Taxonomy.Judgements.JudgementNumber Taxonomy.slope :: Tuple{SimpleLGCM} Taxonomy.AbstractCFA Taxonomy.Judgements.judgement_unique Taxonomy.predictor_paths_slope :: Tuple{SimpleLGCM} Taxonomy.Judgements.judgement_key Taxonomy.Judgements.judgement_level These are docstrings in the checked modules (configured with the modules keyword) that are not included in @docs or @autodocs blocks.

invalid local link: unresolved path in tutorials/judgement.md link.text = 1-element Vector{Any}: Markdown.Code("", "JudgementLevel") link.url = "@ref"

invalid local link: unresolved path in tutorials/judgement.md link.text = 1-element Vector{Any}: Markdown.Code("", "Judments") link.url = "@ref"

invalid local link: unresolved path in index.md link.text = 1-element Vector{Any}: "StructuralEquationModels.jl" link.url = "github.com/StructuralEquationModels/StructuralEquationModels.jl"

invalid local link: unresolved path in index.md link.text = 1-element Vector{Any}: Markdown.Code("", "Standalone_Factor") link.url = "@ref"

invalid local link: unresolved path in index.md link.text = 1-element Vector{Any}: Markdown.Code("", "Strucutral") link.url = "@ref"

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v2, julia-actions/setup-julia@v1, actions/cache@4d4ae6ae148a43d0fd1eda1800170683e9882738, pyTooling/Actions/with-post-step@adef08d3bdef092282614f3b683897cefae82ee3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/