-
Notifications
You must be signed in to change notification settings - Fork 5
/
1.6.0-DEV-cbd854b0f4.log
336 lines (319 loc) · 15.5 KB
/
1.6.0-DEV-cbd854b0f4.log
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
Julia Version 1.6.0-DEV.185
Commit cbd854b0f4 (2020-06-06 13:20 UTC)
Platform Info:
OS: Linux (x86_64-pc-linux-gnu)
CPU: Intel(R) Xeon(R) Silver 4114 CPU @ 2.20GHz
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-9.0.1 (ORCJIT, skylake)
Environment:
JULIA_DEPOT_PATH = ::/usr/local/share/julia
JULIA_NUM_THREADS = 2
Resolving package versions...
Installed CpuId ─────────────────────── v0.2.2
Installed RecipesBase ───────────────── v0.8.0
Installed PyDSTool ──────────────────── v0.6.0
Installed LabelledArrays ────────────── v1.2.1
Installed OrderedCollections ────────── v1.2.0
Installed SLEEFPirates ──────────────── v0.5.0
Installed DocStringExtensions ───────── v0.8.1
Installed LeftChildRightSiblingTrees ── v0.1.2
Installed ArrayInterface ────────────── v2.8.7
Installed Conda ─────────────────────── v1.4.1
Installed PyCall ────────────────────── v1.91.4
Installed LoopVectorization ─────────── v0.8.3
Installed FunctionWrappers ──────────── v1.1.1
Installed LoggingExtras ─────────────── v0.4.1
Installed ConsoleProgressMonitor ────── v0.1.2
Installed TableTraits ───────────────── v1.0.0
Installed RecursiveArrayTools ───────── v2.4.1
Installed VectorizationBase ─────────── v0.12.6
Installed StaticArrays ──────────────── v0.12.3
Installed ProgressLogging ───────────── v0.1.2
Installed SIMDPirates ───────────────── v0.8.6
Installed DataStructures ────────────── v0.17.17
Installed MacroTools ────────────────── v0.5.5
Installed Parameters ────────────────── v0.12.1
Installed ChainRulesCore ────────────── v0.8.0
Installed TerminalLoggers ───────────── v0.1.1
Installed UnPack ────────────────────── v1.0.1
Installed VersionParsing ────────────── v1.2.0
Installed Roots ─────────────────────── v1.0.1
Installed JSON ──────────────────────── v0.21.0
Installed ZygoteRules ───────────────── v0.2.0
Installed IterativeSolvers ──────────── v0.8.4
Installed MuladdMacro ───────────────── v0.2.2
Installed Parsers ───────────────────── v1.0.5
Installed ProgressMeter ─────────────── v1.3.0
Installed Requires ──────────────────── v1.0.1
Installed TreeViews ─────────────────── v0.3.0
Installed OffsetArrays ──────────────── v1.0.4
Installed AbstractTrees ─────────────── v0.3.3
Installed RecursiveFactorization ────── v0.1.2
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed DiffEqBase ────────────────── v6.36.3
Updating `~/.julia/environments/v1.6/Project.toml`
[7186c646] + PyDSTool v0.6.0
Updating `~/.julia/environments/v1.6/Manifest.toml`
[1520ce14] + AbstractTrees v0.3.3
[4fba245c] + ArrayInterface v2.8.7
[d360d2e6] + ChainRulesCore v0.8.0
[8f4d0f93] + Conda v1.4.1
[88cd18e8] + ConsoleProgressMonitor v0.1.2
[adafc99b] + CpuId v0.2.2
[864edb3b] + DataStructures v0.17.17
[2b5f629d] + DiffEqBase v6.36.3
[ffbed154] + DocStringExtensions v0.8.1
[069b7b12] + FunctionWrappers v1.1.1
[42fd0dbc] + IterativeSolvers v0.8.4
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[2ee39098] + LabelledArrays v1.2.1
[1d6d02ad] + LeftChildRightSiblingTrees v0.1.2
[e6f89c97] + LoggingExtras v0.4.1
[bdcacae8] + LoopVectorization v0.8.3
[1914dd2f] + MacroTools v0.5.5
[46d2c3a1] + MuladdMacro v0.2.2
[6fe1bfb0] + OffsetArrays v1.0.4
[bac558e1] + OrderedCollections v1.2.0
[d96e819e] + Parameters v0.12.1
[69de0a69] + Parsers v1.0.5
[33c8b6b6] + ProgressLogging v0.1.2
[92933f4c] + ProgressMeter v1.3.0
[438e738f] + PyCall v1.91.4
[7186c646] + PyDSTool v0.6.0
[3cdcf5f2] + RecipesBase v0.8.0
[731186ca] + RecursiveArrayTools v2.4.1
[f2c3362d] + RecursiveFactorization v0.1.2
[ae029012] + Requires v1.0.1
[f2b01f46] + Roots v1.0.1
[21efa798] + SIMDPirates v0.8.6
[476501e8] + SLEEFPirates v0.5.0
[90137ffa] + StaticArrays v0.12.3
[3783bdb8] + TableTraits v1.0.0
[5d786b92] + TerminalLoggers v0.1.1
[a2a6695c] + TreeViews v0.3.0
[3a884ed6] + UnPack v1.0.1
[3d5dd08c] + VectorizationBase v0.12.6
[81def892] + VersionParsing v1.2.0
[700de1a5] + ZygoteRules v0.2.0
[2a0f44e3] + Base64
[ade2ca70] + Dates
[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
[6462fe0b] + Sockets
[2f01184e] + SparseArrays
[10745b16] + Statistics
[4607b0f0] + SuiteSparse
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Building VectorizationBase → `~/.julia/packages/VectorizationBase/SyqTC/deps/build.log`
Building SLEEFPirates ─────→ `~/.julia/packages/SLEEFPirates/mkNmA/deps/build.log`
Building Conda ────────────→ `~/.julia/packages/Conda/3rPhK/deps/build.log`
Building PyCall ───────────→ `~/.julia/packages/PyCall/zqDXB/deps/build.log`
Testing PyDSTool
Status `/tmp/jl_V2CP2c/Project.toml`
[8f4d0f93] Conda v1.4.1
[864edb3b] DataStructures v0.17.17
[2b5f629d] DiffEqBase v6.36.3
[65888b18] ParameterizedFunctions v5.3.0
[438e738f] PyCall v1.91.4
[7186c646] PyDSTool v0.6.0
[3cdcf5f2] RecipesBase v0.8.0
[37e2e46d] LinearAlgebra
[8dfed614] Test
Status `/tmp/jl_V2CP2c/Manifest.toml`
[1520ce14] AbstractTrees v0.3.3
[ec485272] ArnoldiMethod v0.0.4
[4fba245c] ArrayInterface v2.8.7
[a603d957] CanonicalTraits v0.2.1
[d360d2e6] ChainRulesCore v0.8.0
[861a8166] Combinatorics v1.0.2
[34da2185] Compat v3.10.0
[e66e0078] CompilerSupportLibraries_jll v0.3.3+0
[8f4d0f93] Conda v1.4.1
[88cd18e8] ConsoleProgressMonitor v0.1.2
[187b0558] ConstructionBase v1.0.0
[adafc99b] CpuId v0.2.2
[864edb3b] DataStructures v0.17.17
[2b5f629d] DiffEqBase v6.36.3
[c894b116] DiffEqJump v6.8.1
[b552c78f] DiffRules v1.0.1
[ffbed154] DocStringExtensions v0.8.1
[59287772] Formatting v0.4.1
[069b7b12] FunctionWrappers v1.1.1
[6b9d7cbe] GeneralizedGenerated v0.2.4
[d25df0c9] Inflate v0.1.2
[42fd0dbc] IterativeSolvers v0.8.4
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[b14d175d] JuliaVariables v0.2.0
[b964fa9f] LaTeXStrings v1.1.0
[2ee39098] LabelledArrays v1.2.1
[23fbe1c1] Latexify v0.13.5
[1d6d02ad] LeftChildRightSiblingTrees v0.1.2
[093fc24a] LightGraphs v1.3.3
[e6f89c97] LoggingExtras v0.4.1
[bdcacae8] LoopVectorization v0.8.3
[d8e11817] MLStyle v0.3.1
[1914dd2f] MacroTools v0.5.5
[961ee093] ModelingToolkit v3.8.0
[46d2c3a1] MuladdMacro v0.2.2
[77ba4419] NaNMath v0.3.3
[71a1bf82] NameResolution v0.1.3
[6fe1bfb0] OffsetArrays v1.0.4
[efe28fd5] OpenSpecFun_jll v0.5.3+3
[bac558e1] OrderedCollections v1.2.0
[65888b18] ParameterizedFunctions v5.3.0
[d96e819e] Parameters v0.12.1
[69de0a69] Parsers v1.0.5
[e409e4f3] PoissonRandom v0.4.0
[8162dcfd] PrettyPrint v0.1.0
[33c8b6b6] ProgressLogging v0.1.2
[92933f4c] ProgressMeter v1.3.0
[438e738f] PyCall v1.91.4
[7186c646] PyDSTool v0.6.0
[e6cf234a] RandomNumbers v1.4.0
[3cdcf5f2] RecipesBase v0.8.0
[731186ca] RecursiveArrayTools v2.4.1
[f2c3362d] RecursiveFactorization v0.1.2
[ae029012] Requires v1.0.1
[f2b01f46] Roots v1.0.1
[21efa798] SIMDPirates v0.8.6
[476501e8] SLEEFPirates v0.5.0
[1bc83da4] SafeTestsets v0.0.1
[699a6c99] SimpleTraits v0.9.2
[276daf66] SpecialFunctions v0.10.3
[90137ffa] StaticArrays v0.12.3
[d1185830] SymbolicUtils v0.3.2
[3783bdb8] TableTraits v1.0.0
[5d786b92] TerminalLoggers v0.1.1
[a759f4b9] TimerOutputs v0.5.6
[a2a6695c] TreeViews v0.3.0
[3a884ed6] UnPack v1.0.1
[1986cc42] Unitful v1.2.1
[3d5dd08c] VectorizationBase v0.12.6
[81def892] VersionParsing v1.2.0
[700de1a5] ZygoteRules v0.2.0
[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
[8dfed614] Test
[cf7118a7] UUIDs
[4ec0a83e] Unicode
┌ Warning: `getindex(o::PyObject, s::AbstractString)` is deprecated in favor of dot overloading (`getproperty`) so elements should now be accessed as e.g. `o."s"` instead of `o["s"]`.
│ caller = __init__() at PyDSTool.jl:23
└ @ PyDSTool ~/.julia/packages/PyDSTool/7Bz2h/src/PyDSTool.jl:23
ERROR: LoadError: InitError: PyError (PyImport_ImportModule
The Python package _pydstool_jl_hack could not be found by pyimport. Usually this means
that you did not install _pydstool_jl_hack in the Python version being used by PyCall.
PyCall is currently configured to use the Python version at:
/usr/bin/python3
and you should use whatever mechanism you usually use (apt-get, pip, conda,
etcetera) to install the Python package containing the _pydstool_jl_hack module.
One alternative is to re-configure PyCall to use a different Python
version on your system: set ENV["PYTHON"] to the path/name of the python
executable you want to use, run Pkg.build("PyCall"), and re-launch Julia.
Another alternative is to configure PyCall to use a Julia-specific Python
distribution via the Conda.jl package (which installs a private Anaconda
Python distribution), which has the advantage that packages can be installed
and kept up-to-date via Julia. As explained in the PyCall documentation,
set ENV["PYTHON"]="", run Pkg.build("PyCall"), and re-launch Julia. Then,
To install the _pydstool_jl_hack module, you can use `pyimport_conda("_pydstool_jl_hack", PKG)`,
where PKG is the Anaconda package the contains the module _pydstool_jl_hack,
or alternatively you can use the Conda package directly (via
`using Conda` followed by `Conda.add` etcetera).
) <class 'ModuleNotFoundError'>
ModuleNotFoundError("No module named 'scipy'",)
File "/home/pkgeval/.julia/packages/PyDSTool/7Bz2h/src/_pydstool_jl_hack.py", line 1, in <module>
import scipy.special
Stacktrace:
[1] pyimport(::String) at /home/pkgeval/.julia/packages/PyCall/zqDXB/src/PyCall.jl:536
[2] __init__() at /home/pkgeval/.julia/packages/PyDSTool/7Bz2h/src/PyDSTool.jl:24
[3] _include_from_serialized(::String, ::Array{Any,1}) at ./loading.jl:697
[4] _require_from_serialized(::String) at ./loading.jl:749
[5] _require(::Base.PkgId) at ./loading.jl:1040
[6] require(::Base.PkgId) at ./loading.jl:928
[7] require(::Module, ::Symbol) at ./loading.jl:923
[8] include(::String) at ./client.jl:444
[9] top-level scope at none:6
during initialization of module PyDSTool
in expression starting at /home/pkgeval/.julia/packages/PyDSTool/7Bz2h/test/runtests.jl:1
caused by [exception 1]
PyError (PyImport_ImportModule
The Python package PyDSTool could not be found by pyimport. Usually this means
that you did not install PyDSTool in the Python version being used by PyCall.
PyCall is currently configured to use the Python version at:
/usr/bin/python3
and you should use whatever mechanism you usually use (apt-get, pip, conda,
etcetera) to install the Python package containing the PyDSTool module.
One alternative is to re-configure PyCall to use a different Python
version on your system: set ENV["PYTHON"] to the path/name of the python
executable you want to use, run Pkg.build("PyCall"), and re-launch Julia.
Another alternative is to configure PyCall to use a Julia-specific Python
distribution via the Conda.jl package (which installs a private Anaconda
Python distribution), which has the advantage that packages can be installed
and kept up-to-date via Julia. As explained in the PyCall documentation,
set ENV["PYTHON"]="", run Pkg.build("PyCall"), and re-launch Julia. Then,
To install the PyDSTool module, you can use `pyimport_conda("PyDSTool", PKG)`,
where PKG is the Anaconda package the contains the module PyDSTool,
or alternatively you can use the Conda package directly (via
`using Conda` followed by `Conda.add` etcetera).
) <class 'ModuleNotFoundError'>
ModuleNotFoundError("No module named 'PyDSTool'",)
Stacktrace:
[1] pyimport(::String) at /home/pkgeval/.julia/packages/PyCall/zqDXB/src/PyCall.jl:536
[2] pyimport_conda(::String, ::String, ::String) at /home/pkgeval/.julia/packages/PyCall/zqDXB/src/PyCall.jl:694
[3] __init__() at /home/pkgeval/.julia/packages/PyDSTool/7Bz2h/src/PyDSTool.jl:11
[4] _include_from_serialized(::String, ::Array{Any,1}) at ./loading.jl:697
[5] _require_from_serialized(::String) at ./loading.jl:749
[6] _require(::Base.PkgId) at ./loading.jl:1040
[7] require(::Base.PkgId) at ./loading.jl:928
[8] require(::Module, ::Symbol) at ./loading.jl:923
[9] include(::String) at ./client.jl:444
[10] top-level scope at none:6
ERROR: Package PyDSTool errored during testing
Stacktrace:
[1] pkgerror(::String) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Types.jl:52
[2] test(::Pkg.Types.Context, ::Array{Pkg.Types.PackageSpec,1}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/Operations.jl:1561
[3] test(::Pkg.Types.Context, ::Array{Pkg.Types.PackageSpec,1}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, kwargs::Base.Iterators.Pairs{Union{},Union{},Tuple{},NamedTuple{(),Tuple{}}}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:327
[4] test(::Pkg.Types.Context, ::Array{Pkg.Types.PackageSpec,1}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:314
[5] #test#61 at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:67 [inlined]
[6] test at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:67 [inlined]
[7] #test#60 at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:66 [inlined]
[8] test at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:66 [inlined]
[9] test(::String; kwargs::Base.Iterators.Pairs{Union{},Union{},Tuple{},NamedTuple{(),Tuple{}}}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:65
[10] test(::String) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.6/Pkg/src/API.jl:65
[11] top-level scope at none:16