Тест ClinicalTrialUtilities и ReplicateBE на Raspberry Pi 4


Ничего необчного. Дистрибутивы Linux для Raspberry Pi поддерживают установку Julia из репозитория без проблем. Достаточно выполнить:

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sudo apt install julia

Дальше в среде julia установка пакетов прошла в штатном режиме:

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using Pkg
Pkg.add("ClincalTrialUtilities")
Pkg.add("ReplicateBE")

Тест также прошел без особенностей:

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Pkg.test("ClincalTrialUtilities")
Pkg.test("ReplicateBE")

Все работает как и ожидалось: вы можете спокойно расчитывать выборку и считать биоэквивалетность на джулии даже на ARM машинках. Полный вывод под катом.

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pi@raspberrypi:~ $ julia
_
_       _ _(_)_     |  Documentation: https://docs.julialang.org
(_)     | (_) (_)    |
_ _   _| |_  __ _   |  Type "?" for help, "]?" for Pkg help.
| | | | | | |/ _` |  |
| | |_| | | | (_| |  |  Version 1.0.3
_/ |\__'_|_|_|\__'_|  |  Raspbian ⛬  julia/1.0.3+dfsg-4+rpi1
|__/                   |

julia> using Pkg

julia> Pkg.add("ClinicalTrialUtilities")
Cloning default registries into /home/pi/.julia/registries
Cloning registry General from "https://github.com/JuliaRegistries/General.git"
Resolving package versions...
Installed Reexport ──────────────────── v0.2.0
Installed URIParser ─────────────────── v0.4.1
Installed Parsers ───────────────────── v0.3.12
Installed OrderedCollections ────────── v1.2.0
Installed RecipesBase ───────────────── v0.8.0
Installed CategoricalArrays ─────────── v0.7.7
Installed DataStructures ────────────── v0.17.17
Installed TableTraits ───────────────── v1.0.0
Installed InvertedIndices ───────────── v1.0.0
Installed SortingAlgorithms ─────────── v0.3.1
Installed Compat ────────────────────── v3.10.0
Installed Tables ────────────────────── v1.0.4
Installed Arpack ────────────────────── v0.3.2
Installed PooledArrays ──────────────── v0.5.3
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed ClinicalTrialUtilities ────── v0.2.5
Installed StatsFuns ─────────────────── v0.9.5
Installed JSON ──────────────────────── v0.21.0
Installed FilePathsBase ─────────────── v0.7.0
Installed SpecialFunctions ──────────── v0.8.0
Installed DataValueInterfaces ───────── v1.0.0
Installed Roots ─────────────────────── v1.0.1
Installed FillArrays ────────────────── v0.8.10
Installed BinDeps ───────────────────── v1.0.1
Installed Rmath ─────────────────────── v0.6.0
Installed StatsBase ─────────────────── v0.33.0
Installed Missings ──────────────────── v0.4.3
Installed WeakRefStrings ────────────── v0.6.2
Installed QuadGK ────────────────────── v2.3.1
Installed Distributions ─────────────── v0.23.2
Installed PDMats ────────────────────── v0.9.12
Installed DataAPI ───────────────────── v1.3.0
Installed BinaryProvider ────────────── v0.5.10
Installed DataFrames ────────────────── v0.20.2
Installed CSV ───────────────────────── v0.5.26
Updating `~/.julia/environments/v1.0/Project.toml`
[535c2557] + ClinicalTrialUtilities v0.2.5
Updating `~/.julia/environments/v1.0/Manifest.toml`
[7d9fca2a] + Arpack v0.3.2
[9e28174c] + BinDeps v1.0.1
[b99e7846] + BinaryProvider v0.5.10
[336ed68f] + CSV v0.5.26
[324d7699] + CategoricalArrays v0.7.7
[535c2557] + ClinicalTrialUtilities v0.2.5
[34da2185] + Compat v3.10.0
[9a962f9c] + DataAPI v1.3.0
[a93c6f00] + DataFrames v0.20.2
[864edb3b] + DataStructures v0.17.17
[e2d170a0] + DataValueInterfaces v1.0.0
[31c24e10] + Distributions v0.23.2
[48062228] + FilePathsBase v0.7.0
[1a297f60] + FillArrays v0.8.10
[41ab1584] + InvertedIndices v1.0.0
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[e1d29d7a] + Missings v0.4.3
[bac558e1] + OrderedCollections v1.2.0
[90014a1f] + PDMats v0.9.12
[69de0a69] + Parsers v0.3.12
[2dfb63ee] + PooledArrays v0.5.3
[1fd47b50] + QuadGK v2.3.1
[3cdcf5f2] + RecipesBase v0.8.0
[189a3867] + Reexport v0.2.0
[79098fc4] + Rmath v0.6.0
[f2b01f46] + Roots v1.0.1
[a2af1166] + SortingAlgorithms v0.3.1
[276daf66] + SpecialFunctions v0.8.0
[2913bbd2] + StatsBase v0.33.0
[4c63d2b9] + StatsFuns v0.9.5
[3783bdb8] + TableTraits v1.0.0
[bd369af6] + Tables v1.0.4
[30578b45] + URIParser v0.4.1
[ea10d353] + WeakRefStrings v0.6.2
[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
[4607b0f0] + SuiteSparse
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Building Arpack ──────────→ `~/.julia/packages/Arpack/zCmTA/deps/build.log`
Building SpecialFunctions → `~/.julia/packages/SpecialFunctions/ne2iw/deps/build.l
Building Rmath ───────────→ `~/.julia/packages/Rmath/BoBag/deps/build.log`

julia> Pkg.add("ReplicateBE")
Resolving package versions...
Installed Parameters ───────────── v0.12.1
Installed ArrayInterface ───────── v2.2.0
Installed NaNMath ──────────────── v0.3.3
Installed LineSearches ─────────── v7.0.1
Installed StatsModels ──────────── v0.6.11
Installed StaticArrays ─────────── v0.12.3
Installed DiffResults ──────────── v1.0.2
Installed Optim ────────────────── v0.21.0
Installed DiffRules ────────────── v1.0.1
Installed CommonSubexpressions ─── v0.2.0
Installed ForwardDiff ──────────── v0.10.10
Installed Requires ─────────────── v1.0.1
Installed PositiveFactorizations ─ v0.2.3
Installed DiffEqDiffTools ──────── v1.6.0
Installed UnPack ───────────────── v1.0.1
Installed Calculus ─────────────── v0.5.1
Installed NLSolversBase ────────── v7.5.0
Installed ShiftedArrays ────────── v1.0.0
Installed ReplicateBE ──────────── v1.0.8
Updating `~/.julia/environments/v1.0/Project.toml`
[671d9d50] + ReplicateBE v1.0.8
Updating `~/.julia/environments/v1.0/Manifest.toml`
[4fba245c] + ArrayInterface v2.2.0
[49dc2e85] + Calculus v0.5.1
[bbf7d656] + CommonSubexpressions v0.2.0
[01453d9d] + DiffEqDiffTools v1.6.0
[163ba53b] + DiffResults v1.0.2
[b552c78f] + DiffRules v1.0.1
[f6369f11] + ForwardDiff v0.10.10
[d3d80556] + LineSearches v7.0.1
[d41bc354] + NLSolversBase v7.5.0
[77ba4419] + NaNMath v0.3.3
[429524aa] + Optim v0.21.0
[d96e819e] + Parameters v0.12.1
[85a6dd25] + PositiveFactorizations v0.2.3
[671d9d50] + ReplicateBE v1.0.8
[ae029012] + Requires v1.0.1
[1277b4bf] + ShiftedArrays v1.0.0
[90137ffa] + StaticArrays v0.12.3
[3eaba693] + StatsModels v0.6.11
[3a884ed6] + UnPack v1.0.1

julia>

julia> Pkg.test("ReplicateBE")
Testing ReplicateBE
Resolving package versions...
Status `/tmp/tmpUSSTFh/Manifest.toml`
[7d9fca2a] Arpack v0.3.2
[4fba245c] ArrayInterface v2.2.0
[9e28174c] BinDeps v1.0.1
[b99e7846] BinaryProvider v0.5.10
[336ed68f] CSV v0.5.26
[49dc2e85] Calculus v0.5.1
[324d7699] CategoricalArrays v0.7.7
[bbf7d656] CommonSubexpressions v0.2.0
[34da2185] Compat v3.10.0
[9a962f9c] DataAPI v1.3.0
[a93c6f00] DataFrames v0.20.2
[864edb3b] DataStructures v0.17.17
[e2d170a0] DataValueInterfaces v1.0.0
[01453d9d] DiffEqDiffTools v1.6.0
[163ba53b] DiffResults v1.0.2
[b552c78f] DiffRules v1.0.1
[31c24e10] Distributions v0.23.2
[48062228] FilePathsBase v0.7.0
[1a297f60] FillArrays v0.8.10
[f6369f11] ForwardDiff v0.10.10
[41ab1584] InvertedIndices v1.0.0
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[d3d80556] LineSearches v7.0.1
[e1d29d7a] Missings v0.4.3
[d41bc354] NLSolversBase v7.5.0
[77ba4419] NaNMath v0.3.3
[429524aa] Optim v0.21.0
[bac558e1] OrderedCollections v1.2.0
[90014a1f] PDMats v0.9.12
[d96e819e] Parameters v0.12.1
[69de0a69] Parsers v0.3.12
[2dfb63ee] PooledArrays v0.5.3
[85a6dd25] PositiveFactorizations v0.2.3
[1fd47b50] QuadGK v2.3.1
[189a3867] Reexport v0.2.0
[671d9d50] ReplicateBE v1.0.8
[ae029012] Requires v1.0.1
[79098fc4] Rmath v0.6.0
[1277b4bf] ShiftedArrays v1.0.0
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.8.0
[90137ffa] StaticArrays v0.12.3
[2913bbd2] StatsBase v0.33.0
[4c63d2b9] StatsFuns v0.9.5
[3eaba693] StatsModels v0.6.11
[3783bdb8] TableTraits v1.0.0
[bd369af6] Tables v1.0.4
[30578b45] URIParser v0.4.1
[3a884ed6] UnPack v1.0.1
[ea10d353] WeakRefStrings v0.6.2
[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`]
Test Summary: | Pass Total
Basic mixed model test | 19 19
Test Summary: | Pass Total
#1 Patterson and Jones 2017 E 4.3 | 8 8
Test Summary: | Pass Total
#2 Shein-Chung Chow, Jen-pei Liu 2009 E 9.4.1 | 3 3
Test Summary: | Pass Total
#3 Patterson and Jones 2017 E 4.4 | 6 6
Test Summary: | Pass Total
#4 QA 1 Bioequivalence 2x2x4, UnB, NC Dataset | 6 6
Test Summary: | Pass Total
#5 Patterson 2012 doi:10.1002/pst.498 AUC | 3 3
Test Summary: | Pass Total
#6 Shumaker 1998 doi:10.1177/009286159803200426 | 4 4
Test Summary: | Pass Total
# Utils test | 14 14
Test Summary: | Pass Total
# Random DataSet test | 7 7
Test Summary: | Pass Total
# Validation with generated datasets | 109 109
Test Summary: | Pass Total
# Simulation | 2 2
Testing ReplicateBE tests passed

julia> Pkg.test("ClinicalTrialUtilities")
Testing ClinicalTrialUtilities
Resolving package versions...
Installed Measures ────────── v0.3.1
Installed PlotThemes ──────── v1.0.3
Installed FFMPEG ──────────── v0.2.4
Installed Plots ───────────── v0.29.9
Installed Colors ──────────── v0.12.1
Installed PlotUtils ───────── v0.6.5
Installed GeometryTypes ───── v0.8.3
Installed Showoff ─────────── v0.3.1
Installed ColorTypes ──────── v0.10.3
Installed FixedPointNumbers ─ v0.8.0
Installed Contour ─────────── v0.5.3
Installed GR ──────────────── v0.48.0
Building FFMPEG → `~/.julia/packages/FFMPEG/guN1x/deps/build.log`
Building GR ────→ `~/.julia/packages/GR/yMV3y/deps/build.log`
Building Plots ─→ `~/.julia/packages/Plots/cc8wh/deps/build.log`
Status `/tmp/tmpWENUqr/Manifest.toml`
[7d9fca2a] Arpack v0.3.2
[9e28174c] BinDeps v1.0.1
[b99e7846] BinaryProvider v0.5.10
[336ed68f] CSV v0.5.26
[324d7699] CategoricalArrays v0.7.7
[535c2557] ClinicalTrialUtilities v0.2.5
[3da002f7] ColorTypes v0.10.3
[5ae59095] Colors v0.12.1
[34da2185] Compat v3.10.0
[d38c429a] Contour v0.5.3
[9a962f9c] DataAPI v1.3.0
[a93c6f00] DataFrames v0.20.2
[864edb3b] DataStructures v0.17.17
[e2d170a0] DataValueInterfaces v1.0.0
[31c24e10] Distributions v0.23.2
[c87230d0] FFMPEG v0.2.4
[48062228] FilePathsBase v0.7.0
[1a297f60] FillArrays v0.8.10
[53c48c17] FixedPointNumbers v0.8.0
[28b8d3ca] GR v0.48.0
[4d00f742] GeometryTypes v0.8.3
[41ab1584] InvertedIndices v1.0.0
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[442fdcdd] Measures v0.3.1
[e1d29d7a] Missings v0.4.3
[77ba4419] NaNMath v0.3.3
[bac558e1] OrderedCollections v1.2.0
[90014a1f] PDMats v0.9.12
[69de0a69] Parsers v0.3.12
[ccf2f8ad] PlotThemes v1.0.3
[995b91a9] PlotUtils v0.6.5
[91a5bcdd] Plots v0.29.9
[2dfb63ee] PooledArrays v0.5.3
[1fd47b50] QuadGK v2.3.1
[3cdcf5f2] RecipesBase v0.8.0
[189a3867] Reexport v0.2.0
[ae029012] Requires v1.0.1
[79098fc4] Rmath v0.6.0
[f2b01f46] Roots v1.0.1
[992d4aef] Showoff v0.3.1
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.8.0
[90137ffa] StaticArrays v0.12.3
[2913bbd2] StatsBase v0.33.0
[4c63d2b9] StatsFuns v0.9.5
[3783bdb8] TableTraits v1.0.0
[bd369af6] Tables v1.0.4
[30578b45] URIParser v0.4.1
[ea10d353] WeakRefStrings v0.6.2
[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`]

Package name: ClinicalTrialUtilities
Clinical Trial Power and Sample Size Utilities
Copyright © 2019 Vladimir Arnautov aka PharmCat (mail@pharmcat.net)
For references, citations and copyrights run: ClinicalTrialUtilities.citation()
Licence: ClinicalTrialUtilities.licence()

Test Summary: |
Info: | No tests
----------------------------------
--------- START TEST ---------
----------------------------------
----------------------------------
Test Summary: | Pass Total
#1 ctsamplen Test | 21 21
----------------------------------
Test Summary: | Pass Total
#2 ctpower Test | 17 17
----------------------------------
Test Summary: | Pass Total
#3 besamplen Test | 18 18
----------------------------------
Test Summary: | Pass Total
#4 bepower Test | 26 26
----------------------------------
Test Summary: | Pass Total
#5 utils Test | 19 19
----------------------------------
Test Summary: | Pass Total
Internal functions test | 34 34
----------------------------------
Test Summary: | Pass Total
CI Test | 150 150
----------------------------------
Test Summary: | Pass Total
Simulations | 2 2
----------------------------------
Test Summary: | Pass Total
descriptives | 37 37
----------------------------------
Test Summary: | Pass Total
Frequency | 2 2
----------------------------------
┌ Warning: `names!(df::AbstractDataFrame, vals::Vector{Symbol}; makeunique::Bool=false)` is deprecated, use `rename!(df, vals, makeunique=makeunique)` instead.
│ caller = #randomtable#150(::Int32, ::Int32, ::Int32, ::Array{Int32,1}, ::Array{String,1}, ::Int32, ::Function) at randomization.jl:77
└ @ ClinicalTrialUtilities ~/.julia/packages/ClinicalTrialUtilities/Aa6al/src/randomization.jl:77
Test Summary: | Pass Total
Random | 2 2
----------------------------------
Test Summary: | Pass Total
PK | 75 75
----------------------------------
Test Summary: | Pass Total
UPK | 4 4
----------------------------------
Test Summary: | Pass Total
PD | 12 12
----------------------------------
Test Summary: | Pass Total
Scenario | 3 3
----------------------------------
Test Summary: | Pass Total
HTML export | 1 1
----------------------------------
Test Summary: | Pass Total
Errors | 9 9
Testing ClinicalTrialUtilities tests passed

julia> versioninfo(verbose = true)
Julia Version 1.0.3
Platform Info:
OS: Linux (arm-linux-gnueabihf)
Raspbian GNU/Linux 10 (buster)
uname: Linux 4.19.97-v7l+ #1294 SMP Thu Jan 30 13:21:14 GMT 2020 armv7l unknown
CPU: ARMv7 Processor rev 3 (v7l):
speed user nice sys idle irq
#1 1500 MHz 406674 s 435266 s 223107 s 13883621 s 0 s
#2 1500 MHz 298684 s 439102 s 142311 s 14102178 s 0 s
#3 1500 MHz 470598 s 567600 s 230747 s 13713427 s 0 s
#4 1500 MHz 186990 s 308035 s 101501 s 14390818 s 0 s

Memory: 1.8944778442382812 GB (475.24609375 MB free)
Uptime: 149984.0 sec
Load Avg: 1.310546875 1.5234375 1.70556640625
WORD_SIZE: 32
LIBM: libopenlibm
LLVM: libLLVM-6.0.0 (ORCJIT, cortex-a72)
Environment:
HOME = /home/pi
TERM = xterm
PATH = /usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games

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