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1.6.0-DEV-0669b64613.log
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Julia Version 1.6.0-DEV.1153
Commit 0669b64613 (2020-10-07 09:01 UTC)
Platform Info:
OS: Linux (x86_64-linux-gnu)
CPU: AMD EPYC 7502 32-Core Processor
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-10.0.1 (ORCJIT, znver2)
Environment:
JULIA_DEPOT_PATH = ::/usr/local/share/julia
JULIA_NUM_THREADS = 2
Resolving package versions...
Installed Zlib_jll ───────────────────── v1.2.11+16
Installed SortingAlgorithms ──────────── v0.3.1
Installed Blosc_jll ──────────────────── v1.14.3+1
Installed FiniteDiff ─────────────────── v2.7.0
Installed FixedPointNumbers ──────────── v0.8.4
Installed TextWrap ───────────────────── v1.0.1
Installed Compat ─────────────────────── v3.18.0
Installed DataAPI ────────────────────── v1.3.0
Installed NaNMath ────────────────────── v0.3.4
Installed Distributions ──────────────── v0.23.12
Installed PDMats ─────────────────────── v0.10.1
Installed OpenSpecFun_jll ────────────── v0.5.3+3
Installed PyPlot ─────────────────────── v2.9.0
Installed PyCall ─────────────────────── v1.92.1
Installed ArgParse ───────────────────── v1.1.0
Installed TranscodingStreams ─────────── v0.9.5
Installed LsqFit ─────────────────────── v0.11.0
Installed StatsBase ──────────────────── v0.33.1
Installed Lz4_jll ────────────────────── v1.9.2+2
Installed DiffRules ──────────────────── v1.0.1
Installed Colors ─────────────────────── v0.12.4
Installed MacroTools ─────────────────── v0.5.5
Installed Blosc ──────────────────────── v0.7.0
Installed Reexport ───────────────────── v0.2.0
Installed ColorTypes ─────────────────── v0.10.9
Installed Zstd_jll ───────────────────── v1.4.5+1
Installed CommonSubexpressions ───────── v0.3.0
Installed ArrayInterface ─────────────── v2.13.3
Installed DCEMRI ─────────────────────── v0.2.2
Installed DataStructures ─────────────── v0.18.7
Installed FillArrays ─────────────────── v0.9.6
Installed Conda ──────────────────────── v1.4.1
Installed ForwardDiff ────────────────── v0.10.12
Installed Missings ───────────────────── v0.4.4
Installed OrderedCollections ─────────── v1.3.1
Installed Rmath ──────────────────────── v0.6.1
Installed CodecZlib ──────────────────── v0.7.0
Installed MAT ────────────────────────── v0.8.1
Installed QuadGK ─────────────────────── v2.4.1
Installed Calculus ───────────────────── v0.5.1
Installed CompilerSupportLibraries_jll ─ v0.3.3+0
Installed OptimBase ──────────────────── v2.0.1
Installed SpecialFunctions ───────────── v0.10.3
Installed StaticArrays ───────────────── v0.12.4
Installed JSON ───────────────────────── v0.21.1
Installed Parsers ────────────────────── v1.0.11
Installed VersionParsing ─────────────── v1.2.0
Installed Rmath_jll ──────────────────── v0.2.2+1
Installed HDF5 ───────────────────────── v0.13.6
Installed LaTeXStrings ───────────────── v1.2.0
Installed StatsFuns ──────────────────── v0.9.5
Installed BufferedStreams ────────────── v1.0.0
Installed NLSolversBase ──────────────── v7.7.1
Installed Requires ───────────────────── v1.1.0
Installed DiffResults ────────────────── v1.0.2
Installed HDF5_jll ───────────────────── v1.10.5+6
Updating `~/.julia/environments/v1.6/Project.toml`
[2b3899e7] + DCEMRI v0.2.2
Updating `~/.julia/environments/v1.6/Manifest.toml`
[c7e460c6] + ArgParse v1.1.0
[4fba245c] + ArrayInterface v2.13.3
[a74b3585] + Blosc v0.7.0
[0b7ba130] + Blosc_jll v1.14.3+1
[e1450e63] + BufferedStreams v1.0.0
[49dc2e85] + Calculus v0.5.1
[944b1d66] + CodecZlib v0.7.0
[3da002f7] + ColorTypes v0.10.9
[5ae59095] + Colors v0.12.4
[bbf7d656] + CommonSubexpressions v0.3.0
[34da2185] + Compat v3.18.0
[e66e0078] + CompilerSupportLibraries_jll v0.3.3+0
[8f4d0f93] + Conda v1.4.1
[2b3899e7] + DCEMRI v0.2.2
[9a962f9c] + DataAPI v1.3.0
[864edb3b] + DataStructures v0.18.7
[163ba53b] + DiffResults v1.0.2
[b552c78f] + DiffRules v1.0.1
[31c24e10] + Distributions v0.23.12
[1a297f60] + FillArrays v0.9.6
[6a86dc24] + FiniteDiff v2.7.0
[53c48c17] + FixedPointNumbers v0.8.4
[f6369f11] + ForwardDiff v0.10.12
[f67ccb44] + HDF5 v0.13.6
[0234f1f7] + HDF5_jll v1.10.5+6
[682c06a0] + JSON v0.21.1
[b964fa9f] + LaTeXStrings v1.2.0
[2fda8390] + LsqFit v0.11.0
[5ced341a] + Lz4_jll v1.9.2+2
[23992714] + MAT v0.8.1
[1914dd2f] + MacroTools v0.5.5
[e1d29d7a] + Missings v0.4.4
[d41bc354] + NLSolversBase v7.7.1
[77ba4419] + NaNMath v0.3.4
[efe28fd5] + OpenSpecFun_jll v0.5.3+3
[87e2bd06] + OptimBase v2.0.1
[bac558e1] + OrderedCollections v1.3.1
[90014a1f] + PDMats v0.10.1
[69de0a69] + Parsers v1.0.11
[438e738f] + PyCall v1.92.1
[d330b81b] + PyPlot v2.9.0
[1fd47b50] + QuadGK v2.4.1
[189a3867] + Reexport v0.2.0
[ae029012] + Requires v1.1.0
[79098fc4] + Rmath v0.6.1
[f50d1b31] + Rmath_jll v0.2.2+1
[a2af1166] + SortingAlgorithms v0.3.1
[276daf66] + SpecialFunctions v0.10.3
[90137ffa] + StaticArrays v0.12.4
[2913bbd2] + StatsBase v0.33.1
[4c63d2b9] + StatsFuns v0.9.5
[b718987f] + TextWrap v1.0.1
[3bb67fe8] + TranscodingStreams v0.9.5
[81def892] + VersionParsing v1.2.0
[83775a58] + Zlib_jll v1.2.11+16
[3161d3a3] + Zstd_jll v1.4.5+1
[56f22d72] + Artifacts
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[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
[fa267f1f] + TOML
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/7a58bb32ce5d85f8bf7559aa7c2842f9aecf52fc/build.log`
Building PyCall → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/b6dff5fa725eff4f775f472acd86756d6e31fb02/build.log`
Building HDF5 ──→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0713cbabdf855852dfab3ce6447c87145f3d9ea8/build.log`
Testing DCEMRI
Status `/tmp/jl_ZRZRm0/Project.toml`
[c7e460c6] ArgParse v1.1.0
[49dc2e85] Calculus v0.5.1
[2b3899e7] DCEMRI v0.2.2
[2fda8390] LsqFit v0.11.0
[23992714] MAT v0.8.1
[d330b81b] PyPlot v2.9.0
[8ba89e20] Distributed
[37e2e46d] LinearAlgebra
[44cfe95a] Pkg
[de0858da] Printf
[9a3f8284] Random
[10745b16] Statistics
[8dfed614] Test
Status `/tmp/jl_ZRZRm0/Manifest.toml`
[c7e460c6] ArgParse v1.1.0
[4fba245c] ArrayInterface v2.13.3
[a74b3585] Blosc v0.7.0
[0b7ba130] Blosc_jll v1.14.3+1
[e1450e63] BufferedStreams v1.0.0
[49dc2e85] Calculus v0.5.1
[944b1d66] CodecZlib v0.7.0
[3da002f7] ColorTypes v0.10.9
[5ae59095] Colors v0.12.4
[bbf7d656] CommonSubexpressions v0.3.0
[34da2185] Compat v3.18.0
[e66e0078] CompilerSupportLibraries_jll v0.3.3+0
[8f4d0f93] Conda v1.4.1
[2b3899e7] DCEMRI v0.2.2
[9a962f9c] DataAPI v1.3.0
[864edb3b] DataStructures v0.18.7
[163ba53b] DiffResults v1.0.2
[b552c78f] DiffRules v1.0.1
[31c24e10] Distributions v0.23.12
[1a297f60] FillArrays v0.9.6
[6a86dc24] FiniteDiff v2.7.0
[53c48c17] FixedPointNumbers v0.8.4
[f6369f11] ForwardDiff v0.10.12
[f67ccb44] HDF5 v0.13.6
[0234f1f7] HDF5_jll v1.10.5+6
[682c06a0] JSON v0.21.1
[b964fa9f] LaTeXStrings v1.2.0
[2fda8390] LsqFit v0.11.0
[5ced341a] Lz4_jll v1.9.2+2
[23992714] MAT v0.8.1
[1914dd2f] MacroTools v0.5.5
[e1d29d7a] Missings v0.4.4
[d41bc354] NLSolversBase v7.7.1
[77ba4419] NaNMath v0.3.4
[efe28fd5] OpenSpecFun_jll v0.5.3+3
[87e2bd06] OptimBase v2.0.1
[bac558e1] OrderedCollections v1.3.1
[90014a1f] PDMats v0.10.1
[69de0a69] Parsers v1.0.11
[438e738f] PyCall v1.92.1
[d330b81b] PyPlot v2.9.0
[1fd47b50] QuadGK v2.4.1
[189a3867] Reexport v0.2.0
[ae029012] Requires v1.1.0
[79098fc4] Rmath v0.6.1
[f50d1b31] Rmath_jll v0.2.2+1
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.10.3
[90137ffa] StaticArrays v0.12.4
[2913bbd2] StatsBase v0.33.1
[4c63d2b9] StatsFuns v0.9.5
[b718987f] TextWrap v1.0.1
[3bb67fe8] TranscodingStreams v0.9.5
[81def892] VersionParsing v1.2.0
[83775a58] Zlib_jll v1.2.11+16
[3161d3a3] Zstd_jll v1.4.5+1
[56f22d72] Artifacts
[2a0f44e3] Base64
[ade2ca70] Dates
[8bb1440f] DelimitedFiles
[8ba89e20] Distributed
[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
[fa267f1f] TOML
[8dfed614] Test
[cf7118a7] UUIDs
[4ec0a83e] Unicode
Testing Running tests...
┌ Warning: Pkg.installed() is deprecated
└ @ Pkg /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/Pkg.jl:555
[ Info: Installing matplotlib via the Conda matplotlib package...
[ Info: Running `conda install -q -y matplotlib` in root environment
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/pkgeval/.julia/conda/3
added / updated specs:
- matplotlib
The following packages will be downloaded:
package | build
---------------------------|-----------------
cycler-0.10.0 | py38_0 14 KB
dbus-1.13.16 | hb2f20db_0 501 KB
expat-2.2.9 | he6710b0_2 156 KB
fontconfig-2.13.0 | h9420a91_0 227 KB
freetype-2.10.2 | h5ab3b9f_0 608 KB
glib-2.65.0 | h3eb4bd4_0 2.9 MB
gst-plugins-base-1.14.0 | hbbd80ab_1 4.8 MB
gstreamer-1.14.0 | hb31296c_0 3.1 MB
icu-58.2 | he6710b0_3 10.5 MB
jpeg-9b | h024ee3a_2 214 KB
kiwisolver-1.2.0 | py38hfd86e86_0 84 KB
lcms2-2.11 | h396b838_0 307 KB
libpng-1.6.37 | hbc83047_0 278 KB
libtiff-4.1.0 | h2733197_1 449 KB
libuuid-1.0.3 | h1bed415_2 15 KB
libxcb-1.14 | h7b6447c_0 505 KB
libxml2-2.9.10 | he19cac6_1 1.2 MB
lz4-c-1.9.2 | he6710b0_1 190 KB
matplotlib-3.3.1 | 0 24 KB
matplotlib-base-3.3.1 | py38h817c723_0 5.1 MB
olefile-0.46 | py_0 33 KB
pcre-8.44 | he6710b0_0 212 KB
pillow-7.2.0 | py38hb39fc2d_0 617 KB
pyparsing-2.4.7 | py_0 65 KB
pyqt-5.9.2 | py38h05f1152_4 4.5 MB
python-dateutil-2.8.1 | py_0 215 KB
qt-5.9.7 | h5867ecd_1 68.5 MB
sip-4.19.13 | py38he6710b0_0 277 KB
tornado-6.0.4 | py38h7b6447c_1 603 KB
zstd-1.4.5 | h9ceee32_0 619 KB
------------------------------------------------------------
Total: 106.6 MB
The following NEW packages will be INSTALLED:
cycler pkgs/main/linux-64::cycler-0.10.0-py38_0
dbus pkgs/main/linux-64::dbus-1.13.16-hb2f20db_0
expat pkgs/main/linux-64::expat-2.2.9-he6710b0_2
fontconfig pkgs/main/linux-64::fontconfig-2.13.0-h9420a91_0
freetype pkgs/main/linux-64::freetype-2.10.2-h5ab3b9f_0
glib pkgs/main/linux-64::glib-2.65.0-h3eb4bd4_0
gst-plugins-base pkgs/main/linux-64::gst-plugins-base-1.14.0-hbbd80ab_1
gstreamer pkgs/main/linux-64::gstreamer-1.14.0-hb31296c_0
icu pkgs/main/linux-64::icu-58.2-he6710b0_3
jpeg pkgs/main/linux-64::jpeg-9b-h024ee3a_2
kiwisolver pkgs/main/linux-64::kiwisolver-1.2.0-py38hfd86e86_0
lcms2 pkgs/main/linux-64::lcms2-2.11-h396b838_0
libpng pkgs/main/linux-64::libpng-1.6.37-hbc83047_0
libtiff pkgs/main/linux-64::libtiff-4.1.0-h2733197_1
libuuid pkgs/main/linux-64::libuuid-1.0.3-h1bed415_2
libxcb pkgs/main/linux-64::libxcb-1.14-h7b6447c_0
libxml2 pkgs/main/linux-64::libxml2-2.9.10-he19cac6_1
lz4-c pkgs/main/linux-64::lz4-c-1.9.2-he6710b0_1
matplotlib pkgs/main/linux-64::matplotlib-3.3.1-0
matplotlib-base pkgs/main/linux-64::matplotlib-base-3.3.1-py38h817c723_0
olefile pkgs/main/noarch::olefile-0.46-py_0
pcre pkgs/main/linux-64::pcre-8.44-he6710b0_0
pillow pkgs/main/linux-64::pillow-7.2.0-py38hb39fc2d_0
pyparsing pkgs/main/noarch::pyparsing-2.4.7-py_0
pyqt pkgs/main/linux-64::pyqt-5.9.2-py38h05f1152_4
python-dateutil pkgs/main/noarch::python-dateutil-2.8.1-py_0
qt pkgs/main/linux-64::qt-5.9.7-h5867ecd_1
sip pkgs/main/linux-64::sip-4.19.13-py38he6710b0_0
tornado pkgs/main/linux-64::tornado-6.0.4-py38h7b6447c_1
zstd pkgs/main/linux-64::zstd-1.4.5-h9ceee32_0
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Producing noisy version of /home/pkgeval/.julia/packages/DCEMRI/IqKLJ/src/../test/q4/qiba4.mat
Noisy data saved to /home/pkgeval/.julia/packages/DCEMRI/IqKLJ/src/../test/q4/qiba4noisy.mat
Running analysis of noise-free QIBA v4 data ...
running models
found multi-flip data
fitting R1 relaxation rate to multi-flip data
running 6 x 90 points on one CPU core
processed 90 voxels in 5.3 s (17.1 vox/s)
computing signal enhancement ratios
converting DCE signal to effective R1
converting effective R1 to tracer tissue concentration Ct
fitting DCE data
attempting Extended Tofts-Kety model
running 661 x 90 points on one CPU core
processed 90 voxels in 0.7 s (128.7 vox/s)
Kt
RMSE: 7.213202817245476 %
errmax: 23.495320070058433
CCC: 0.9998008500463118
ve
RMSE: 19.126621664006066 %
errmax: 99.99999999999996
CCC: 0.8904282639075922
vp
RMSE: 24.19610147383279 %
errmax: 92.527786644143 %
CCC: 0.9999199032933601
Running analysis of noisy QIBA v4 data ...
running models
found multi-flip data
fitting R1 relaxation rate to multi-flip data
running 6 x 9000 points on one CPU core
processed 9000 voxels in 1.1 s (8220.3 vox/s)
computing signal enhancement ratios
converting DCE signal to effective R1
converting effective R1 to tracer tissue concentration Ct
fitting DCE data
attempting Extended Tofts-Kety model
running 661 x 9000 points on one CPU core
processed 9000 voxels in 28.1 s (320.2 vox/s)
Kt
RMSE: 35.73734652712641 %
errmax: 100.0
CCC: 0.6165539370860422
ve
RMSE: 41.23179511532916 %
errmax: 100.0
CCC: 0.6902101542479292
vp
RMSE: 49.040135440566154 %
errmax: 100.0 %
CCC: 0.9702429008155283
Validation complete. If saved, results can be found in /home/pkgeval/.julia/packages/DCEMRI/IqKLJ/src/../test/q4.
QIBA v4 Extended Tofts Phantom: Test Failed at /home/pkgeval/.julia/packages/DCEMRI/IqKLJ/test/runtests.jl:9
Expression: round(cccnoisy4[1], sigdigits = 2) >= 0.97
Evaluated: 0.62 >= 0.97
Stacktrace:
[1] top-level scope
@ ~/.julia/packages/DCEMRI/IqKLJ/test/runtests.jl:9
[2] top-level scope
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Test/src/Test.jl:1144
[3] top-level scope
@ ~/.julia/packages/DCEMRI/IqKLJ/test/runtests.jl:6
QIBA v4 Extended Tofts Phantom: Test Failed at /home/pkgeval/.julia/packages/DCEMRI/IqKLJ/test/runtests.jl:10
Expression: round(cccnoisy4[2], sigdigits = 2) >= 0.7
Evaluated: 0.69 >= 0.7
Stacktrace:
[1] top-level scope
@ ~/.julia/packages/DCEMRI/IqKLJ/test/runtests.jl:10
[2] top-level scope
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Test/src/Test.jl:1144
[3] top-level scope
@ ~/.julia/packages/DCEMRI/IqKLJ/test/runtests.jl:6
Test Summary: | Pass Fail Total
QIBA v4 Extended Tofts Phantom | 4 2 6
ERROR: LoadError: Some tests did not pass: 4 passed, 2 failed, 0 errored, 0 broken.
in expression starting at /home/pkgeval/.julia/packages/DCEMRI/IqKLJ/test/runtests.jl:5
ERROR: Package DCEMRI errored during testing
Stacktrace:
[1] pkgerror(msg::String)
@ Pkg.Types /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/Types.jl:52
[2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing)
@ Pkg.Operations /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:1609
[3] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, kwargs::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Pkg.API /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:331
[4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec})
@ Pkg.API /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:318
[5] #test#62
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:68 [inlined]
[6] test
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:68 [inlined]
[7] #test#61
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:66 [inlined]
[8] test
@ /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:66 [inlined]
[9] test(pkg::String; kwargs::Base.Iterators.Pairs{Union{}, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Pkg.API /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:65
[10] test(pkg::String)
@ Pkg.API /workspace/srcdir/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:65
[11] top-level scope
@ none:19