If you think that there is an error in how your package is being tested or represented, please file an issue at NewPkgEval.jl , making sure to read the FAQ first.
Results with Julia v1.2.0
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Last evaluation was ago and took 6 minutes, 2 seconds.
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Resolving package versions...
Installed Missings ──────────────────── v0.4.3
Installed DataAPI ───────────────────── v1.1.0
Installed DataValueInterfaces ───────── v1.0.0
Installed Requires ──────────────────── v0.5.2
Installed PooledArrays ──────────────── v0.5.2
Installed Diversity ─────────────────── v0.4.6
Installed TableTraits ───────────────── v1.0.0
Installed DataFrames ────────────────── v0.19.4
Installed InvertedIndices ───────────── v1.0.0
Installed EcoBase ───────────────────── v0.0.7
Installed Reexport ──────────────────── v0.2.0
Installed Tables ────────────────────── v0.2.11
Installed Compat ────────────────────── v2.2.0
Installed OrderedCollections ────────── v1.1.0
Installed DataStructures ────────────── v0.17.6
Installed Parsers ───────────────────── v0.3.10
Installed RecipesBase ───────────────── v0.7.0
Installed JSON ──────────────────────── v0.21.0
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed CategoricalArrays ─────────── v0.7.3
Installed SortingAlgorithms ─────────── v0.3.1
Updating `~/.julia/environments/v1.2/Project.toml`
[d3d5718d] + Diversity v0.4.6
Updating `~/.julia/environments/v1.2/Manifest.toml`
[324d7699] + CategoricalArrays v0.7.3
[34da2185] + Compat v2.2.0
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.19.4
[864edb3b] + DataStructures v0.17.6
[e2d170a0] + DataValueInterfaces v1.0.0
[d3d5718d] + Diversity v0.4.6
[a58aae7d] + EcoBase v0.0.7
[41ab1584] + InvertedIndices v1.0.0
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[e1d29d7a] + Missings v0.4.3
[bac558e1] + OrderedCollections v1.1.0
[69de0a69] + Parsers v0.3.10
[2dfb63ee] + PooledArrays v0.5.2
[3cdcf5f2] + RecipesBase v0.7.0
[189a3867] + Reexport v0.2.0
[ae029012] + Requires v0.5.2
[a2af1166] + SortingAlgorithms v0.3.1
[3783bdb8] + TableTraits v1.0.0
[bd369af6] + Tables v0.2.11
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[9fa8497b] + Future
[b77e0a4c] + InteractiveUtils
[76f85450] + LibGit2
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
[a63ad114] + Mmap
[44cfe95a] + Pkg
[de0858da] + Printf
[3fa0cd96] + REPL
[9a3f8284] + Random
[ea8e919c] + SHA
[9e88b42a] + Serialization
[1a1011a3] + SharedArrays
[6462fe0b] + Sockets
[2f01184e] + SparseArrays
[10745b16] + Statistics
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Testing Diversity
Resolving package versions...
Installed Distances ──────── v0.8.2
Installed Tokenize ───────── v0.5.7
Installed Conda ──────────── v1.3.0
Installed StatsBase ──────── v0.32.0
Installed BinaryProvider ─── v0.5.8
Installed PDMats ─────────── v0.9.10
Installed RCall ──────────── v0.13.4
Installed URIParser ──────── v0.4.0
Installed Phylo ──────────── v0.3.3
Installed StatsFuns ──────── v0.9.0
Installed WinReg ─────────── v0.3.1
Installed Rmath ──────────── v0.5.1
Installed IterableTables ─── v1.0.0
Installed ShiftedArrays ──── v1.0.0
Installed Distributions ──── v0.21.9
Installed VersionParsing ─── v1.1.3
Installed DataValues ─────── v0.4.12
Installed QuadGK ─────────── v2.1.1
Installed TableTraitsUtils ─ v1.0.1
Installed StatsModels ────── v0.6.7
Installed SpecialFunctions ─ v0.8.0
Installed BinDeps ────────── v0.8.10
Installed Arpack ─────────── v0.3.1
Building Conda ───────────→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Building RCall ───────────→ `~/.julia/packages/RCall/g7dhB/deps/build.log`
┌ Error: Error building `RCall`:
│ ERROR: LoadError: R_HOME is not a directory.
│ Stacktrace:
│ [1] error(::String) at ./error.jl:33
│ [2] top-level scope at /root/.julia/packages/RCall/g7dhB/deps/build.jl:44
│ [3] include at ./boot.jl:328 [inlined]
│ [4] include_relative(::Module, ::String) at ./loading.jl:1094
│ [5] include(::Module, ::String) at ./Base.jl:31
│ [6] include(::String) at ./client.jl:431
│ [7] top-level scope at none:5
│ in expression starting at /root/.julia/packages/RCall/g7dhB/deps/build.jl:10
└ @ Pkg.Operations /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.2/Pkg/src/backwards_compatible_isolation.jl:647
Building Rmath ───────────→ `~/.julia/packages/Rmath/4wt82/deps/build.log`
Building SpecialFunctions → `~/.julia/packages/SpecialFunctions/ne2iw/deps/build.log`
Building Arpack ──────────→ `~/.julia/packages/Arpack/cu5By/deps/build.log`
Status `/tmp/jl_fNlmKf/Manifest.toml`
[7d9fca2a] Arpack v0.3.1
[9e28174c] BinDeps v0.8.10
[b99e7846] BinaryProvider v0.5.8
[324d7699] CategoricalArrays v0.7.3
[34da2185] Compat v2.2.0
[8f4d0f93] Conda v1.3.0
[9a962f9c] DataAPI v1.1.0
[a93c6f00] DataFrames v0.19.4
[864edb3b] DataStructures v0.17.6
[e2d170a0] DataValueInterfaces v1.0.0
[e7dc6d0d] DataValues v0.4.12
[b4f34e82] Distances v0.8.2
[31c24e10] Distributions v0.21.9
[d3d5718d] Diversity v0.4.6
[a58aae7d] EcoBase v0.0.7
[41ab1584] InvertedIndices v1.0.0
[1c8ee90f] IterableTables v1.0.0
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[e1d29d7a] Missings v0.4.3
[bac558e1] OrderedCollections v1.1.0
[90014a1f] PDMats v0.9.10
[69de0a69] Parsers v0.3.10
[aea672f4] Phylo v0.3.3
[2dfb63ee] PooledArrays v0.5.2
[1fd47b50] QuadGK v2.1.1
[6f49c342] RCall v0.13.4
[3cdcf5f2] RecipesBase v0.7.0
[189a3867] Reexport v0.2.0
[ae029012] Requires v0.5.2
[79098fc4] Rmath v0.5.1
[1277b4bf] ShiftedArrays v1.0.0
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.8.0
[2913bbd2] StatsBase v0.32.0
[4c63d2b9] StatsFuns v0.9.0
[3eaba693] StatsModels v0.6.7
[3783bdb8] TableTraits v1.0.0
[382cd787] TableTraitsUtils v1.0.1
[bd369af6] Tables v0.2.11
[0796e94c] Tokenize v0.5.7
[30578b45] URIParser v0.4.0
[81def892] VersionParsing v1.1.3
[1b915085] WinReg v0.3.1
[2a0f44e3] Base64 [`@stdlib/Base64`]
[ade2ca70] Dates [`@stdlib/Dates`]
[8bb1440f] DelimitedFiles [`@stdlib/DelimitedFiles`]
[8ba89e20] Distributed [`@stdlib/Distributed`]
[9fa8497b] Future [`@stdlib/Future`]
[b77e0a4c] InteractiveUtils [`@stdlib/InteractiveUtils`]
[76f85450] LibGit2 [`@stdlib/LibGit2`]
[8f399da3] Libdl [`@stdlib/Libdl`]
[37e2e46d] LinearAlgebra [`@stdlib/LinearAlgebra`]
[56ddb016] Logging [`@stdlib/Logging`]
[d6f4376e] Markdown [`@stdlib/Markdown`]
[a63ad114] Mmap [`@stdlib/Mmap`]
[44cfe95a] Pkg [`@stdlib/Pkg`]
[de0858da] Printf [`@stdlib/Printf`]
[3fa0cd96] REPL [`@stdlib/REPL`]
[9a3f8284] Random [`@stdlib/Random`]
[ea8e919c] SHA [`@stdlib/SHA`]
[9e88b42a] Serialization [`@stdlib/Serialization`]
[1a1011a3] SharedArrays [`@stdlib/SharedArrays`]
[6462fe0b] Sockets [`@stdlib/Sockets`]
[2f01184e] SparseArrays [`@stdlib/SparseArrays`]
[10745b16] Statistics [`@stdlib/Statistics`]
[4607b0f0] SuiteSparse [`@stdlib/SuiteSparse`]
[8dfed614] Test [`@stdlib/Test`]
[cf7118a7] UUIDs [`@stdlib/UUIDs`]
[4ec0a83e] Unicode [`@stdlib/Unicode`]
[ Info: Running tests for files:
= API.jl
= Diversity.jl
= DiversityMeasure.jl
= Ecology.jl
= EffectiveNumbers.jl
= GeneralisedDiversities.jl
= Hill.jl
= Interface.jl
= Iterators.jl
= Jost.jl
= Metacommunity.jl
= Phylogenetics.jl
Test Summary: | Pass Total
* Testing API.jl | 2 2
Test Summary: |
* Testing Diversity.jl | No tests
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:56
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:56
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:56
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:56
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:57
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:57
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:57
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:57
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:59
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:59
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:59
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:59
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:61
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:61
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:61
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:61
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:63
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:63
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:63
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:63
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:65
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:65
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:65
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:65
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:67
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:67
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:67
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:67
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:69
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:69
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:72
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:72
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:72
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:72
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:76
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:76
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:77
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:77
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:82
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:82
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:84
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:84
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:88
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:88
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:89
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:89
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:91
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:91
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:91
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:91
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:95
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:95
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:96
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:96
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:99
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:99
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:104
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:104
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:105
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:105
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:106
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:106
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:107
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:107
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:115
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:115
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:118
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:118
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:121
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:121
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:123
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:123
Test Summary: | Pass Total
* Testing DiversityMeasure.jl | 67 67
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedrichness(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:50
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:50
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = richness(::Array{Float64,2}) at Ecology.jl:69
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:69
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = richness(::Array{Float64,2}) at Ecology.jl:69
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:20
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:20
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:20
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:20
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:21
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:21
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:21
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:21
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:116
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:116
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:117
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:117
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:26
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:26
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:180
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:180
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:181
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:181
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:43
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedrichness(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:50
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:50
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:49
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:49
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:51
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:51
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:51
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:51
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:116
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:116
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:117
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:117
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:58
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:58
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:60
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:60
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:60
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:60
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:180
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:180
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:181
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:181
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:66
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:66
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:68
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:68
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:74
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:74
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:75
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:75
Test Summary: | Pass Total
* Testing Ecology.jl | 26 26
Test Summary: | Pass Total
* Testing EffectiveNumbers.jl | 41 41
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:11
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:11
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:12
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:12
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:28
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:28
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:28
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:28
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:29
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:29
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:29
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:29
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:35
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:35
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:35
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:35
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:37
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:37
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:37
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:37
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:40
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:40
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:43
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:43
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:44
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:44
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:44
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:44
Test Summary: | Pass Total
* Testing GeneralisedDiversities.jl | 16 16
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = hillnumber(::Array{Float64,1}, ::Array{Int64,1}) at Hill.jl:29
└ @ Diversity.Hill ~/.julia/packages/Diversity/WWymz/src/Hill.jl:29
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = hillnumber(::Array{Float64,1}, ::Array{Int64,1}) at Hill.jl:30
└ @ Diversity.Hill ~/.julia/packages/Diversity/WWymz/src/Hill.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Hill.jl:17
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Hill.jl:17
Test Summary: | Pass Total
* Testing Hill.jl | 8 8
Test Summary: | Pass Total
* Testing Interface.jl | 11 11
Creating Diversity to Phylo interface...
Test Summary: | Pass Total
* Testing Iterators.jl | 4 4
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:33
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:69
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:69
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:70
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:70
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:33
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:69
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:69
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:70
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:70
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:24
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:24
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:47
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:47
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:47
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:47
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:54
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:54
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:54
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:54
Test Summary: | Pass Total
* Testing Jost.jl | 9 9
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = Diversity.Taxonomy{Float64}(::DataFrames.DataFrame, ::Dict{Symbol,Float64}, ::Symbol) at Types.jl:81
└ @ Diversity ~/.julia/packages/Diversity/WWymz/src/Types.jl:81
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = Diversity.Taxonomy{Float64}(::DataFrames.DataFrame, ::Dict{Symbol,Float64}, ::Symbol) at Types.jl:83
└ @ Diversity ~/.julia/packages/Diversity/WWymz/src/Types.jl:83
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = _gettypenames at Types.jl:104 [inlined]
└ @ Core ~/.julia/packages/Diversity/WWymz/src/Types.jl:104
Test Summary: | Pass Total
* Testing Metacommunity.jl | 33 33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Phylogenetics.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Phylogenetics.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Phylogenetics.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Phylogenetics.jl:26
Test Summary: | Pass Total
* Testing Phylogenetics.jl | 7 7
[ Info: Potentially missing tests:
- EcoBase.jl
- Partition.jl
- Types.jl
[ Info: Running cross-validation against:
= Distances
= RCall
= StatsBase
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:36
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:36
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:40
Test Summary: | Pass Total
* Validating against Distances | 800 800
ERROR: LoadError: RCall not properly installed. Please run Pkg.build("RCall")
Stacktrace:
[1] error(::String) at ./error.jl:33
[2] top-level scope at /root/.julia/packages/RCall/g7dhB/src/RCall.jl:36
[3] include at ./boot.jl:328 [inlined]
[4] include_relative(::Module, ::String) at ./loading.jl:1094
[5] include(::Module, ::String) at ./Base.jl:31
[6] top-level scope at none:2
[7] eval at ./boot.jl:330 [inlined]
[8] eval(::Expr) at ./client.jl:432
[9] top-level scope at ./none:3
in expression starting at /root/.julia/packages/RCall/g7dhB/src/RCall.jl:33
┌ Warning: R or appropriate Phylo package not installed, skipping R cross-validation.
└ @ Main.ValidateRCall ~/.julia/packages/Diversity/WWymz/test/pkg_RCall.jl:20
Test Summary: |
* Validating against RCall | No tests
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:23
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:23
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:24
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:24
Test Summary: | Pass Total
* Validating against StatsBase | 100 100
Testing Diversity tests passed
Results with Julia v1.3.0
Testing was successful .
Last evaluation was ago and took 5 minutes, 18 seconds.
Click here to download the log file.
Click here to show the log contents.
Resolving package versions...
Installed SortingAlgorithms ─────────── v0.3.1
Installed InvertedIndices ───────────── v1.0.0
Installed EcoBase ───────────────────── v0.0.7
Installed Parsers ───────────────────── v0.3.10
Installed Compat ────────────────────── v2.2.0
Installed Diversity ─────────────────── v0.4.6
Installed DataStructures ────────────── v0.17.6
Installed CategoricalArrays ─────────── v0.7.3
Installed OrderedCollections ────────── v1.1.0
Installed Missings ──────────────────── v0.4.3
Installed JSON ──────────────────────── v0.21.0
Installed TableTraits ───────────────── v1.0.0
Installed DataAPI ───────────────────── v1.1.0
Installed RecipesBase ───────────────── v0.7.0
Installed DataValueInterfaces ───────── v1.0.0
Installed Tables ────────────────────── v0.2.11
Installed Requires ──────────────────── v0.5.2
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed PooledArrays ──────────────── v0.5.2
Installed DataFrames ────────────────── v0.19.4
Installed Reexport ──────────────────── v0.2.0
Updating `~/.julia/environments/v1.3/Project.toml`
[d3d5718d] + Diversity v0.4.6
Updating `~/.julia/environments/v1.3/Manifest.toml`
[324d7699] + CategoricalArrays v0.7.3
[34da2185] + Compat v2.2.0
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.19.4
[864edb3b] + DataStructures v0.17.6
[e2d170a0] + DataValueInterfaces v1.0.0
[d3d5718d] + Diversity v0.4.6
[a58aae7d] + EcoBase v0.0.7
[41ab1584] + InvertedIndices v1.0.0
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[e1d29d7a] + Missings v0.4.3
[bac558e1] + OrderedCollections v1.1.0
[69de0a69] + Parsers v0.3.10
[2dfb63ee] + PooledArrays v0.5.2
[3cdcf5f2] + RecipesBase v0.7.0
[189a3867] + Reexport v0.2.0
[ae029012] + Requires v0.5.2
[a2af1166] + SortingAlgorithms v0.3.1
[3783bdb8] + TableTraits v1.0.0
[bd369af6] + Tables v0.2.11
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[9fa8497b] + Future
[b77e0a4c] + InteractiveUtils
[76f85450] + LibGit2
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
[a63ad114] + Mmap
[44cfe95a] + Pkg
[de0858da] + Printf
[3fa0cd96] + REPL
[9a3f8284] + Random
[ea8e919c] + SHA
[9e88b42a] + Serialization
[1a1011a3] + SharedArrays
[6462fe0b] + Sockets
[2f01184e] + SparseArrays
[10745b16] + Statistics
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Testing Diversity
Resolving package versions...
Installed Distances ──────── v0.8.2
Installed URIParser ──────── v0.4.0
Installed RCall ──────────── v0.13.4
Installed Arpack ─────────── v0.3.1
Installed QuadGK ─────────── v2.1.1
Installed StatsBase ──────── v0.32.0
Installed WinReg ─────────── v0.3.1
Installed IterableTables ─── v1.0.0
Installed StatsFuns ──────── v0.9.0
Installed BinaryProvider ─── v0.5.8
Installed Phylo ──────────── v0.3.3
Installed Rmath ──────────── v0.5.1
Installed Distributions ──── v0.21.9
Installed SpecialFunctions ─ v0.8.0
Installed BinDeps ────────── v0.8.10
Installed ShiftedArrays ──── v1.0.0
Installed PDMats ─────────── v0.9.10
Installed StatsModels ────── v0.6.7
Installed VersionParsing ─── v1.1.3
Installed DataValues ─────── v0.4.12
Installed TableTraitsUtils ─ v1.0.1
Installed Conda ──────────── v1.3.0
Installed Tokenize ───────── v0.5.7
Building Conda ───────────→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Building RCall ───────────→ `~/.julia/packages/RCall/g7dhB/deps/build.log`
┌ Error: Error building `RCall`:
│ ERROR: LoadError: R_HOME is not a directory.
│ Stacktrace:
│ [1] error(::String) at ./error.jl:33
│ [2] top-level scope at /root/.julia/packages/RCall/g7dhB/deps/build.jl:44
│ [3] include at ./boot.jl:328 [inlined]
│ [4] include_relative(::Module, ::String) at ./loading.jl:1105
│ [5] include(::Module, ::String) at ./Base.jl:31
│ [6] include(::String) at ./client.jl:424
│ [7] top-level scope at none:5
│ in expression starting at /root/.julia/packages/RCall/g7dhB/deps/build.jl:10
└ @ Pkg.Operations /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.3/Pkg/src/backwards_compatible_isolation.jl:649
Building Arpack ──────────→ `~/.julia/packages/Arpack/cu5By/deps/build.log`
Building Rmath ───────────→ `~/.julia/packages/Rmath/4wt82/deps/build.log`
Building SpecialFunctions → `~/.julia/packages/SpecialFunctions/ne2iw/deps/build.log`
Status `/tmp/jl_hOVh3u/Manifest.toml`
[7d9fca2a] Arpack v0.3.1
[9e28174c] BinDeps v0.8.10
[b99e7846] BinaryProvider v0.5.8
[324d7699] CategoricalArrays v0.7.3
[34da2185] Compat v2.2.0
[8f4d0f93] Conda v1.3.0
[9a962f9c] DataAPI v1.1.0
[a93c6f00] DataFrames v0.19.4
[864edb3b] DataStructures v0.17.6
[e2d170a0] DataValueInterfaces v1.0.0
[e7dc6d0d] DataValues v0.4.12
[b4f34e82] Distances v0.8.2
[31c24e10] Distributions v0.21.9
[d3d5718d] Diversity v0.4.6
[a58aae7d] EcoBase v0.0.7
[41ab1584] InvertedIndices v1.0.0
[1c8ee90f] IterableTables v1.0.0
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[e1d29d7a] Missings v0.4.3
[bac558e1] OrderedCollections v1.1.0
[90014a1f] PDMats v0.9.10
[69de0a69] Parsers v0.3.10
[aea672f4] Phylo v0.3.3
[2dfb63ee] PooledArrays v0.5.2
[1fd47b50] QuadGK v2.1.1
[6f49c342] RCall v0.13.4
[3cdcf5f2] RecipesBase v0.7.0
[189a3867] Reexport v0.2.0
[ae029012] Requires v0.5.2
[79098fc4] Rmath v0.5.1
[1277b4bf] ShiftedArrays v1.0.0
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.8.0
[2913bbd2] StatsBase v0.32.0
[4c63d2b9] StatsFuns v0.9.0
[3eaba693] StatsModels v0.6.7
[3783bdb8] TableTraits v1.0.0
[382cd787] TableTraitsUtils v1.0.1
[bd369af6] Tables v0.2.11
[0796e94c] Tokenize v0.5.7
[30578b45] URIParser v0.4.0
[81def892] VersionParsing v1.1.3
[1b915085] WinReg v0.3.1
[2a0f44e3] Base64 [`@stdlib/Base64`]
[ade2ca70] Dates [`@stdlib/Dates`]
[8bb1440f] DelimitedFiles [`@stdlib/DelimitedFiles`]
[8ba89e20] Distributed [`@stdlib/Distributed`]
[9fa8497b] Future [`@stdlib/Future`]
[b77e0a4c] InteractiveUtils [`@stdlib/InteractiveUtils`]
[76f85450] LibGit2 [`@stdlib/LibGit2`]
[8f399da3] Libdl [`@stdlib/Libdl`]
[37e2e46d] LinearAlgebra [`@stdlib/LinearAlgebra`]
[56ddb016] Logging [`@stdlib/Logging`]
[d6f4376e] Markdown [`@stdlib/Markdown`]
[a63ad114] Mmap [`@stdlib/Mmap`]
[44cfe95a] Pkg [`@stdlib/Pkg`]
[de0858da] Printf [`@stdlib/Printf`]
[3fa0cd96] REPL [`@stdlib/REPL`]
[9a3f8284] Random [`@stdlib/Random`]
[ea8e919c] SHA [`@stdlib/SHA`]
[9e88b42a] Serialization [`@stdlib/Serialization`]
[1a1011a3] SharedArrays [`@stdlib/SharedArrays`]
[6462fe0b] Sockets [`@stdlib/Sockets`]
[2f01184e] SparseArrays [`@stdlib/SparseArrays`]
[10745b16] Statistics [`@stdlib/Statistics`]
[4607b0f0] SuiteSparse [`@stdlib/SuiteSparse`]
[8dfed614] Test [`@stdlib/Test`]
[cf7118a7] UUIDs [`@stdlib/UUIDs`]
[4ec0a83e] Unicode [`@stdlib/Unicode`]
[ Info: Running tests for files:
= API.jl
= Diversity.jl
= DiversityMeasure.jl
= Ecology.jl
= EffectiveNumbers.jl
= GeneralisedDiversities.jl
= Hill.jl
= Interface.jl
= Iterators.jl
= Jost.jl
= Metacommunity.jl
= Phylogenetics.jl
Test Summary: | Pass Total
* Testing API.jl | 2 2
Test Summary: |
* Testing Diversity.jl | No tests
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:56
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:56
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:56
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:56
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:57
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:57
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:57
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:57
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:59
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:59
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:59
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:59
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:61
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:61
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:61
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:61
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:63
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:63
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:63
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:63
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:65
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:65
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:65
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:65
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:67
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:67
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:67
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:67
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:69
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:69
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:72
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:72
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:72
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:72
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:76
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:76
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:77
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:77
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:82
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:82
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:84
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:84
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:88
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:88
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:89
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:89
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:91
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:91
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:91
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:91
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:95
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:95
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:96
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:96
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:99
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:99
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:104
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:104
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:105
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:105
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:106
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:106
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:107
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:107
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:115
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:115
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:118
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:118
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:121
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:121
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:123
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:123
Test Summary: | Pass Total
* Testing DiversityMeasure.jl | 67 67
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedrichness(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:50
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:50
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = richness(::Array{Float64,2}) at Ecology.jl:69
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:69
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = richness(::Array{Float64,2}) at Ecology.jl:69
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:20
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:20
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:20
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:20
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:21
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:21
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:21
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:21
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:116
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:116
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:117
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:117
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:26
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:26
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:180
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:180
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:181
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:181
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:43
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedrichness(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:50
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:50
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:49
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:49
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:51
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:51
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:51
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:51
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:116
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:116
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:117
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:117
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:58
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:58
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:60
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:60
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:60
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:60
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:180
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:180
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:181
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:181
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:66
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:66
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:68
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:68
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:74
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:74
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:75
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:75
Test Summary: | Pass Total
* Testing Ecology.jl | 26 26
Test Summary: | Pass Total
* Testing EffectiveNumbers.jl | 41 41
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:11
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:11
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:12
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:12
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:28
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:28
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:28
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:28
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:29
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:29
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:29
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:29
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:35
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:35
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:35
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:35
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:37
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:37
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:37
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:37
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:40
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:40
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:43
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:43
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:44
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:44
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:44
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:44
Test Summary: | Pass Total
* Testing GeneralisedDiversities.jl | 16 16
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = hillnumber(::Array{Float64,1}, ::Array{Int64,1}) at Hill.jl:29
└ @ Diversity.Hill ~/.julia/packages/Diversity/WWymz/src/Hill.jl:29
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = hillnumber(::Array{Float64,1}, ::Array{Int64,1}) at Hill.jl:30
└ @ Diversity.Hill ~/.julia/packages/Diversity/WWymz/src/Hill.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Hill.jl:17
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Hill.jl:17
Test Summary: | Pass Total
* Testing Hill.jl | 8 8
Test Summary: | Pass Total
* Testing Interface.jl | 11 11
Creating Diversity to Phylo interface...
Test Summary: | Pass Total
* Testing Iterators.jl | 4 4
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:33
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:69
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:69
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:70
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:70
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:33
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:69
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:69
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:70
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:70
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:24
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:24
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:47
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:47
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:47
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:47
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:54
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:54
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:54
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:54
Test Summary: | Pass Total
* Testing Jost.jl | 9 9
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = Diversity.Taxonomy{Float64}(::DataFrames.DataFrame, ::Dict{Symbol,Float64}, ::Symbol) at Types.jl:81
└ @ Diversity ~/.julia/packages/Diversity/WWymz/src/Types.jl:81
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = Diversity.Taxonomy{Float64}(::DataFrames.DataFrame, ::Dict{Symbol,Float64}, ::Symbol) at Types.jl:83
└ @ Diversity ~/.julia/packages/Diversity/WWymz/src/Types.jl:83
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = _gettypenames at Types.jl:104 [inlined]
└ @ Core ~/.julia/packages/Diversity/WWymz/src/Types.jl:104
Test Summary: | Pass Total
* Testing Metacommunity.jl | 33 33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Phylogenetics.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Phylogenetics.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Phylogenetics.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Phylogenetics.jl:26
Test Summary: | Pass Total
* Testing Phylogenetics.jl | 7 7
[ Info: Potentially missing tests:
- EcoBase.jl
- Partition.jl
- Types.jl
[ Info: Running cross-validation against:
= Distances
= RCall
= StatsBase
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:36
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:36
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:40
Test Summary: | Pass Total
* Validating against Distances | 800 800
ERROR: LoadError: RCall not properly installed. Please run Pkg.build("RCall")
Stacktrace:
[1] error(::String) at ./error.jl:33
[2] top-level scope at /root/.julia/packages/RCall/g7dhB/src/RCall.jl:36
[3] include at ./boot.jl:328 [inlined]
[4] include_relative(::Module, ::String) at ./loading.jl:1105
[5] include(::Module, ::String) at ./Base.jl:31
[6] top-level scope at none:2
[7] eval at ./boot.jl:330 [inlined]
[8] eval(::Expr) at ./client.jl:425
[9] top-level scope at ./none:3
in expression starting at /root/.julia/packages/RCall/g7dhB/src/RCall.jl:33
┌ Warning: R or appropriate Phylo package not installed, skipping R cross-validation.
└ @ Main.ValidateRCall ~/.julia/packages/Diversity/WWymz/test/pkg_RCall.jl:20
Test Summary: |
* Validating against RCall | No tests
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:23
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:23
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:24
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:24
Test Summary: | Pass Total
* Validating against StatsBase | 100 100
Testing Diversity tests passed
Results with Julia v1.3.1-pre-7704df0a5a
Testing was successful .
Last evaluation was ago and took 5 minutes, 22 seconds.
Click here to download the log file.
Click here to show the log contents.
Resolving package versions...
Installed Missings ──────────────────── v0.4.3
Installed Tables ────────────────────── v0.2.11
Installed PooledArrays ──────────────── v0.5.2
Installed Compat ────────────────────── v2.2.0
Installed Diversity ─────────────────── v0.4.6
Installed TableTraits ───────────────── v1.0.0
Installed DataStructures ────────────── v0.17.6
Installed DataFrames ────────────────── v0.19.4
Installed Requires ──────────────────── v0.5.2
Installed InvertedIndices ───────────── v1.0.0
Installed Reexport ──────────────────── v0.2.0
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed DataValueInterfaces ───────── v1.0.0
Installed RecipesBase ───────────────── v0.7.0
Installed EcoBase ───────────────────── v0.0.7
Installed CategoricalArrays ─────────── v0.7.3
Installed JSON ──────────────────────── v0.21.0
Installed DataAPI ───────────────────── v1.1.0
Installed OrderedCollections ────────── v1.1.0
Installed Parsers ───────────────────── v0.3.10
Installed SortingAlgorithms ─────────── v0.3.1
Updating `~/.julia/environments/v1.3/Project.toml`
[d3d5718d] + Diversity v0.4.6
Updating `~/.julia/environments/v1.3/Manifest.toml`
[324d7699] + CategoricalArrays v0.7.3
[34da2185] + Compat v2.2.0
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.19.4
[864edb3b] + DataStructures v0.17.6
[e2d170a0] + DataValueInterfaces v1.0.0
[d3d5718d] + Diversity v0.4.6
[a58aae7d] + EcoBase v0.0.7
[41ab1584] + InvertedIndices v1.0.0
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[e1d29d7a] + Missings v0.4.3
[bac558e1] + OrderedCollections v1.1.0
[69de0a69] + Parsers v0.3.10
[2dfb63ee] + PooledArrays v0.5.2
[3cdcf5f2] + RecipesBase v0.7.0
[189a3867] + Reexport v0.2.0
[ae029012] + Requires v0.5.2
[a2af1166] + SortingAlgorithms v0.3.1
[3783bdb8] + TableTraits v1.0.0
[bd369af6] + Tables v0.2.11
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[9fa8497b] + Future
[b77e0a4c] + InteractiveUtils
[76f85450] + LibGit2
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
[a63ad114] + Mmap
[44cfe95a] + Pkg
[de0858da] + Printf
[3fa0cd96] + REPL
[9a3f8284] + Random
[ea8e919c] + SHA
[9e88b42a] + Serialization
[1a1011a3] + SharedArrays
[6462fe0b] + Sockets
[2f01184e] + SparseArrays
[10745b16] + Statistics
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Testing Diversity
Resolving package versions...
Installed DataValues ─────── v0.4.12
Installed Distances ──────── v0.8.2
Installed QuadGK ─────────── v2.1.1
Installed Conda ──────────── v1.3.0
Installed RCall ──────────── v0.13.4
Installed StatsBase ──────── v0.32.0
Installed StatsModels ────── v0.6.7
Installed Phylo ──────────── v0.3.3
Installed SpecialFunctions ─ v0.8.0
Installed URIParser ──────── v0.4.0
Installed BinDeps ────────── v0.8.10
Installed TableTraitsUtils ─ v1.0.1
Installed Arpack ─────────── v0.3.1
Installed BinaryProvider ─── v0.5.8
Installed ShiftedArrays ──── v1.0.0
Installed StatsFuns ──────── v0.9.0
Installed Rmath ──────────── v0.5.1
Installed WinReg ─────────── v0.3.1
Installed Tokenize ───────── v0.5.7
Installed VersionParsing ─── v1.1.3
Installed PDMats ─────────── v0.9.10
Installed IterableTables ─── v1.0.0
Installed Distributions ──── v0.21.9
Building Conda ───────────→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Building RCall ───────────→ `~/.julia/packages/RCall/g7dhB/deps/build.log`
┌ Error: Error building `RCall`:
│ ERROR: LoadError: R_HOME is not a directory.
│ Stacktrace:
│ [1] error(::String) at ./error.jl:33
│ [2] top-level scope at /root/.julia/packages/RCall/g7dhB/deps/build.jl:44
│ [3] include at ./boot.jl:328 [inlined]
│ [4] include_relative(::Module, ::String) at ./loading.jl:1105
│ [5] include(::Module, ::String) at ./Base.jl:31
│ [6] include(::String) at ./client.jl:424
│ [7] top-level scope at none:5
│ in expression starting at /root/.julia/packages/RCall/g7dhB/deps/build.jl:10
└ @ Pkg.Operations /workspace/srcdir/julia/usr/share/julia/stdlib/v1.3/Pkg/src/backwards_compatible_isolation.jl:649
Building SpecialFunctions → `~/.julia/packages/SpecialFunctions/ne2iw/deps/build.log`
Building Arpack ──────────→ `~/.julia/packages/Arpack/cu5By/deps/build.log`
Building Rmath ───────────→ `~/.julia/packages/Rmath/4wt82/deps/build.log`
Status `/tmp/jl_KoJo6S/Manifest.toml`
[7d9fca2a] Arpack v0.3.1
[9e28174c] BinDeps v0.8.10
[b99e7846] BinaryProvider v0.5.8
[324d7699] CategoricalArrays v0.7.3
[34da2185] Compat v2.2.0
[8f4d0f93] Conda v1.3.0
[9a962f9c] DataAPI v1.1.0
[a93c6f00] DataFrames v0.19.4
[864edb3b] DataStructures v0.17.6
[e2d170a0] DataValueInterfaces v1.0.0
[e7dc6d0d] DataValues v0.4.12
[b4f34e82] Distances v0.8.2
[31c24e10] Distributions v0.21.9
[d3d5718d] Diversity v0.4.6
[a58aae7d] EcoBase v0.0.7
[41ab1584] InvertedIndices v1.0.0
[1c8ee90f] IterableTables v1.0.0
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[e1d29d7a] Missings v0.4.3
[bac558e1] OrderedCollections v1.1.0
[90014a1f] PDMats v0.9.10
[69de0a69] Parsers v0.3.10
[aea672f4] Phylo v0.3.3
[2dfb63ee] PooledArrays v0.5.2
[1fd47b50] QuadGK v2.1.1
[6f49c342] RCall v0.13.4
[3cdcf5f2] RecipesBase v0.7.0
[189a3867] Reexport v0.2.0
[ae029012] Requires v0.5.2
[79098fc4] Rmath v0.5.1
[1277b4bf] ShiftedArrays v1.0.0
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.8.0
[2913bbd2] StatsBase v0.32.0
[4c63d2b9] StatsFuns v0.9.0
[3eaba693] StatsModels v0.6.7
[3783bdb8] TableTraits v1.0.0
[382cd787] TableTraitsUtils v1.0.1
[bd369af6] Tables v0.2.11
[0796e94c] Tokenize v0.5.7
[30578b45] URIParser v0.4.0
[81def892] VersionParsing v1.1.3
[1b915085] WinReg v0.3.1
[2a0f44e3] Base64 [`@stdlib/Base64`]
[ade2ca70] Dates [`@stdlib/Dates`]
[8bb1440f] DelimitedFiles [`@stdlib/DelimitedFiles`]
[8ba89e20] Distributed [`@stdlib/Distributed`]
[9fa8497b] Future [`@stdlib/Future`]
[b77e0a4c] InteractiveUtils [`@stdlib/InteractiveUtils`]
[76f85450] LibGit2 [`@stdlib/LibGit2`]
[8f399da3] Libdl [`@stdlib/Libdl`]
[37e2e46d] LinearAlgebra [`@stdlib/LinearAlgebra`]
[56ddb016] Logging [`@stdlib/Logging`]
[d6f4376e] Markdown [`@stdlib/Markdown`]
[a63ad114] Mmap [`@stdlib/Mmap`]
[44cfe95a] Pkg [`@stdlib/Pkg`]
[de0858da] Printf [`@stdlib/Printf`]
[3fa0cd96] REPL [`@stdlib/REPL`]
[9a3f8284] Random [`@stdlib/Random`]
[ea8e919c] SHA [`@stdlib/SHA`]
[9e88b42a] Serialization [`@stdlib/Serialization`]
[1a1011a3] SharedArrays [`@stdlib/SharedArrays`]
[6462fe0b] Sockets [`@stdlib/Sockets`]
[2f01184e] SparseArrays [`@stdlib/SparseArrays`]
[10745b16] Statistics [`@stdlib/Statistics`]
[4607b0f0] SuiteSparse [`@stdlib/SuiteSparse`]
[8dfed614] Test [`@stdlib/Test`]
[cf7118a7] UUIDs [`@stdlib/UUIDs`]
[4ec0a83e] Unicode [`@stdlib/Unicode`]
[ Info: Running tests for files:
= API.jl
= Diversity.jl
= DiversityMeasure.jl
= Ecology.jl
= EffectiveNumbers.jl
= GeneralisedDiversities.jl
= Hill.jl
= Interface.jl
= Iterators.jl
= Jost.jl
= Metacommunity.jl
= Phylogenetics.jl
Test Summary: | Pass Total
* Testing API.jl | 2 2
Test Summary: |
* Testing Diversity.jl | No tests
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:56
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:56
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:56
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:56
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:57
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:57
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:57
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:57
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:59
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:59
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:59
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:59
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:61
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:61
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:61
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:61
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:63
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:63
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:63
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:63
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:65
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:65
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:65
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:65
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:67
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:67
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:67
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:67
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:69
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:69
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:72
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:72
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:72
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:72
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:76
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:76
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:77
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:77
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:82
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:82
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:84
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:84
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:88
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:88
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:89
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:89
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:91
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:91
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:91
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:91
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:95
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:95
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:96
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:96
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:99
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:99
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:104
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:104
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:105
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:105
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:106
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:106
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:107
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:107
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:115
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:115
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:118
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:118
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:121
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:121
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_DiversityMeasure.jl:123
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_DiversityMeasure.jl:123
Test Summary: | Pass Total
* Testing DiversityMeasure.jl | 67 67
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedrichness(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:50
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:50
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = richness(::Array{Float64,2}) at Ecology.jl:69
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:69
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = richness(::Array{Float64,2}) at Ecology.jl:69
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:69
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:20
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:20
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:20
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:20
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:21
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:21
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:21
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:21
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:116
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:116
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:117
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:117
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:26
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:26
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:180
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:180
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.UniqueTypes) at Ecology.jl:181
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:181
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Int64, ::Diversity.UniqueTypes) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:43
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedrichness(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:50
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:50
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:49
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:49
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:51
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:51
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:51
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:51
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:115
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:115
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:116
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:116
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedshannon(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:117
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:117
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:58
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:58
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:60
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:60
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:60
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:60
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:179
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:179
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:180
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:180
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedsimpson(::Diversity.DiversityLevel, ::Array{Float64,2}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:181
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:181
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:66
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:66
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:68
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:68
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Float64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:74
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:74
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:250
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:250
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:251
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:251
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = generalisedjaccard(::Array{Float64,2}, ::Array{Int64,1}, ::Diversity.GeneralTypes{Float64,Array{Float64,2}}) at Ecology.jl:252
└ @ Diversity.Ecology ~/.julia/packages/Diversity/WWymz/src/Ecology.jl:252
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Ecology.jl:75
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Ecology.jl:75
Test Summary: | Pass Total
* Testing Ecology.jl | 26 26
Test Summary: | Pass Total
* Testing EffectiveNumbers.jl | 41 41
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:11
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:11
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:12
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:12
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:27
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:27
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:28
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:28
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:28
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:28
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:29
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:29
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:29
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:29
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:33
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:35
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:35
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:35
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:35
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:37
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:37
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:37
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:37
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:39
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:39
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:40
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:40
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:43
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:43
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:43
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:44
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:44
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_GeneralisedDiversities.jl:44
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_GeneralisedDiversities.jl:44
Test Summary: | Pass Total
* Testing GeneralisedDiversities.jl | 16 16
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = hillnumber(::Array{Float64,1}, ::Array{Int64,1}) at Hill.jl:29
└ @ Diversity.Hill ~/.julia/packages/Diversity/WWymz/src/Hill.jl:29
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = hillnumber(::Array{Float64,1}, ::Array{Int64,1}) at Hill.jl:30
└ @ Diversity.Hill ~/.julia/packages/Diversity/WWymz/src/Hill.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Hill.jl:17
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Hill.jl:17
Test Summary: | Pass Total
* Testing Hill.jl | 8 8
Test Summary: | Pass Total
* Testing Interface.jl | 11 11
Creating Diversity to Phylo interface...
Test Summary: | Pass Total
* Testing Iterators.jl | 4 4
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostalpha(::Array{Float64,2}, ::Int64) at Jost.jl:33
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:69
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:69
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Int64) at Jost.jl:70
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:70
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:30
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:30
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostalpha(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:33
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: `setindex!(df::DataFrame, v::AbstractVector, col_ind::ColumnIndex)` is deprecated, use `begin
│ df[!, col_ind] = v
│ df
│ end` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:68
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:68
┌ Warning: Implicit broadcasting to an existing column in DataFrame assignment is deprecated.Use an explicit broadcast with `df[:, col_ind] .= v`
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:69
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:69
┌ Warning: `deletecols!(df::DataFrame, inds)` is deprecated, use `select!(df, Not(inds))` instead.
│ caller = jostbeta(::Array{Float64,2}, ::Array{Float64,1}) at Jost.jl:70
└ @ Diversity.Jost ~/.julia/packages/Diversity/WWymz/src/Jost.jl:70
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:24
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:24
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:30
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:30
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:32
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:32
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:47
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:47
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:47
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:47
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:54
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:54
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Jost.jl:54
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Jost.jl:54
Test Summary: | Pass Total
* Testing Jost.jl | 9 9
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = Diversity.Taxonomy{Float64}(::DataFrames.DataFrame, ::Dict{Symbol,Float64}, ::Symbol) at Types.jl:81
└ @ Diversity ~/.julia/packages/Diversity/WWymz/src/Types.jl:81
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = Diversity.Taxonomy{Float64}(::DataFrames.DataFrame, ::Dict{Symbol,Float64}, ::Symbol) at Types.jl:83
└ @ Diversity ~/.julia/packages/Diversity/WWymz/src/Types.jl:83
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = _gettypenames at Types.jl:104 [inlined]
└ @ Core ~/.julia/packages/Diversity/WWymz/src/Types.jl:104
Test Summary: | Pass Total
* Testing Metacommunity.jl | 33 33
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Phylogenetics.jl:25
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Phylogenetics.jl:25
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at test_Phylogenetics.jl:26
└ @ Core ~/.julia/packages/Diversity/WWymz/test/test_Phylogenetics.jl:26
Test Summary: | Pass Total
* Testing Phylogenetics.jl | 7 7
- EcoBase.jl
- Partition.jl
- Types.jl
[ Info: Potentially missing tests:
[ Info: Running cross-validation against:
= Distances
= RCall
= StatsBase
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:34
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:34
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:36
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:36
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:38
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:38
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_Distances.jl:40
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_Distances.jl:40
Test Summary: | Pass Total
* Validating against Distances | 800 800
ERROR: LoadError: RCall not properly installed. Please run Pkg.build("RCall")
Stacktrace:
[1] error(::String) at ./error.jl:33
[2] top-level scope at /root/.julia/packages/RCall/g7dhB/src/RCall.jl:36
[3] include at ./boot.jl:328 [inlined]
[4] include_relative(::Module, ::String) at ./loading.jl:1105
[5] include(::Module, ::String) at ./Base.jl:31
[6] top-level scope at none:2
[7] eval at ./boot.jl:330 [inlined]
[8] eval(::Expr) at ./client.jl:425
[9] top-level scope at ./none:3
in expression starting at /root/.julia/packages/RCall/g7dhB/src/RCall.jl:33
┌ Warning: R or appropriate Phylo package not installed, skipping R cross-validation.
└ @ Main.ValidateRCall ~/.julia/packages/Diversity/WWymz/test/pkg_RCall.jl:20
Test Summary: |
* Validating against RCall | No tests
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:22
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:22
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:23
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:23
┌ Warning: `getindex(df::DataFrame, col_ind::ColumnIndex)` is deprecated, use `df[!, col_ind]` instead.
│ caller = top-level scope at pkg_StatsBase.jl:24
└ @ Core ~/.julia/packages/Diversity/WWymz/test/pkg_StatsBase.jl:24
Test Summary: | Pass Total
* Validating against StatsBase | 100 100
Testing Diversity tests passed