-
Notifications
You must be signed in to change notification settings - Fork 5
/
Copy path1.5.0-DEV-2c43528f39.log
343 lines (325 loc) · 22.8 KB
/
1.5.0-DEV-2c43528f39.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
Julia Version 1.5.0-DEV.225
Commit 2c43528f39 (2020-02-03 15:22 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 SortingAlgorithms ─────────── v0.3.1
Installed DataValueInterfaces ───────── v1.0.0
Installed TableTraits ───────────────── v1.0.0
Installed OpenSpecFun_jll ───────────── v0.5.3+1
Installed OnlineStatsBase ───────────── v1.0.2
Installed PenaltyFunctions ──────────── v0.1.2
Installed OnlineStats ───────────────── v1.0.2
Installed Pathogen ──────────────────── v0.4.3
Installed Compat ────────────────────── v3.2.0
Installed PDMats ────────────────────── v0.9.11
Installed RecipesBase ───────────────── v0.7.0
Installed InvertedIndices ───────────── v1.0.0
Installed Rmath ─────────────────────── v0.6.0
Installed QuadGK ────────────────────── v2.3.1
Installed Arpack ────────────────────── v0.4.0
Installed CategoricalArrays ─────────── v0.7.7
Installed JSON ──────────────────────── v0.21.0
Installed LossFunctions ─────────────── v0.5.1
Installed PooledArrays ──────────────── v0.5.3
Installed OpenBLAS_jll ──────────────── v0.3.7+5
Installed ProgressMeter ─────────────── v1.2.0
Installed Reexport ──────────────────── v0.2.0
Installed Parsers ───────────────────── v0.3.11
Installed Arpack_jll ────────────────── v3.5.0+2
Installed Missings ──────────────────── v0.4.3
Installed StatsFuns ─────────────────── v0.9.3
Installed StatsBase ─────────────────── v0.32.0
Installed Tables ────────────────────── v0.2.11
Installed BinaryProvider ────────────── v0.5.8
Installed DataStructures ────────────── v0.17.9
Installed LearnBase ─────────────────── v0.2.2
Installed SweepOperator ─────────────── v0.3.0
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed OrderedCollections ────────── v1.1.0
Installed DataFrames ────────────────── v0.20.0
Installed DataAPI ───────────────────── v1.1.0
Installed FillArrays ────────────────── v0.8.4
Installed SpecialFunctions ──────────── v0.9.0
Installed Distributions ─────────────── v0.22.4
#=#=# ############################## 42.5%######################################################################## 100.0%
#=#=# ######################################################################## 100.0%
#=#=# # 2.0%##### 7.0%########## 13.9%################ 23.1%######################## 33.6%######################### 35.1%#################################### 50.1%################################################## 69.6%################################################################### 93.9%######################################################################## 100.0%
Updating `~/.julia/environments/v1.5/Project.toml`
[c8189ad9] + Pathogen v0.4.3
Updating `~/.julia/environments/v1.5/Manifest.toml`
[7d9fca2a] + Arpack v0.4.0
[68821587] + Arpack_jll v3.5.0+2
[b99e7846] + BinaryProvider v0.5.8
[324d7699] + CategoricalArrays v0.7.7
[34da2185] + Compat v3.2.0
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.20.0
[864edb3b] + DataStructures v0.17.9
[e2d170a0] + DataValueInterfaces v1.0.0
[31c24e10] + Distributions v0.22.4
[1a297f60] + FillArrays v0.8.4
[41ab1584] + InvertedIndices v1.0.0
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[7f8f8fb0] + LearnBase v0.2.2
[30fc2ffe] + LossFunctions v0.5.1
[e1d29d7a] + Missings v0.4.3
[a15396b6] + OnlineStats v1.0.2
[925886fa] + OnlineStatsBase v1.0.2
[4536629a] + OpenBLAS_jll v0.3.7+5
[efe28fd5] + OpenSpecFun_jll v0.5.3+1
[bac558e1] + OrderedCollections v1.1.0
[90014a1f] + PDMats v0.9.11
[69de0a69] + Parsers v0.3.11
[c8189ad9] + Pathogen v0.4.3
[06bb1623] + PenaltyFunctions v0.1.2
[2dfb63ee] + PooledArrays v0.5.3
[92933f4c] + ProgressMeter v1.2.0
[1fd47b50] + QuadGK v2.3.1
[3cdcf5f2] + RecipesBase v0.7.0
[189a3867] + Reexport v0.2.0
[79098fc4] + Rmath v0.6.0
[a2af1166] + SortingAlgorithms v0.3.1
[276daf66] + SpecialFunctions v0.9.0
[2913bbd2] + StatsBase v0.32.0
[4c63d2b9] + StatsFuns v0.9.3
[7522ee7d] + SweepOperator v0.3.0
[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
[4607b0f0] + SuiteSparse
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Building Rmath → `~/.julia/packages/Rmath/BoBag/deps/build.log`
Testing Pathogen
Status `/tmp/jl_L8X2ke/Manifest.toml`
[7d9fca2a] Arpack v0.4.0
[68821587] Arpack_jll v3.5.0+2
[b99e7846] BinaryProvider v0.5.8
[324d7699] CategoricalArrays v0.7.7
[34da2185] Compat v3.2.0
[9a962f9c] DataAPI v1.1.0
[a93c6f00] DataFrames v0.20.0
[864edb3b] DataStructures v0.17.9
[e2d170a0] DataValueInterfaces v1.0.0
[b4f34e82] Distances v0.8.2
[31c24e10] Distributions v0.22.4
[1a297f60] FillArrays v0.8.4
[41ab1584] InvertedIndices v1.0.0
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[7f8f8fb0] LearnBase v0.2.2
[30fc2ffe] LossFunctions v0.5.1
[e1d29d7a] Missings v0.4.3
[a15396b6] OnlineStats v1.0.2
[925886fa] OnlineStatsBase v1.0.2
[4536629a] OpenBLAS_jll v0.3.7+5
[efe28fd5] OpenSpecFun_jll v0.5.3+1
[bac558e1] OrderedCollections v1.1.0
[90014a1f] PDMats v0.9.11
[69de0a69] Parsers v0.3.11
[c8189ad9] Pathogen v0.4.3
[06bb1623] PenaltyFunctions v0.1.2
[2dfb63ee] PooledArrays v0.5.3
[92933f4c] ProgressMeter v1.2.0
[1fd47b50] QuadGK v2.3.1
[3cdcf5f2] RecipesBase v0.7.0
[189a3867] Reexport v0.2.0
[79098fc4] Rmath v0.6.0
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.9.0
[2913bbd2] StatsBase v0.32.0
[4c63d2b9] StatsFuns v0.9.3
[7522ee7d] SweepOperator v0.3.0
[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
[4607b0f0] SuiteSparse
[8dfed614] Test
[cf7118a7] UUIDs
[4ec0a83e] Unicode
WARNING: Method definition _count_by_state(Pathogen.Events{T<:Pathogen.EpidemicModel}, Pathogen.DiseaseState, Float64) where {T<:Pathogen.EpidemicModel} in module Pathogen at /home/pkgeval/.julia/packages/Pathogen/m8XHX/src/visualization/epidemic_curve.jl:4 overwritten at /home/pkgeval/.julia/packages/Pathogen/m8XHX/src/visualization/epidemic_curve.jl:4.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition _epidemic_curve(Pathogen.Events{T<:Pathogen.EpidemicModel}, Pathogen.DiseaseState, Float64, Float64) where {T<:Pathogen.EpidemicModel} in module Pathogen at /home/pkgeval/.julia/packages/Pathogen/m8XHX/src/visualization/epidemic_curve.jl:29 overwritten at /home/pkgeval/.julia/packages/Pathogen/m8XHX/src/visualization/epidemic_curve.jl:29.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition apply_recipe(Base.Dict{Symbol, Any}, Pathogen.Events{T<:Pathogen.EpidemicModel}, Pathogen.DiseaseState, Float64, Float64) where {T<:Pathogen.EpidemicModel} in module Pathogen at /home/pkgeval/.julia/packages/RecipesBase/zBoFG/src/RecipesBase.jl:269 overwritten at /home/pkgeval/.julia/packages/RecipesBase/zBoFG/src/RecipesBase.jl:269.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition apply_recipe(Base.Dict{Symbol, Any}, Pathogen.Events{T<:Pathogen.EpidemicModel}, Pathogen.DiseaseState) where {T<:Pathogen.EpidemicModel} in module Pathogen at /home/pkgeval/.julia/packages/RecipesBase/zBoFG/src/RecipesBase.jl:269 overwritten at /home/pkgeval/.julia/packages/RecipesBase/zBoFG/src/RecipesBase.jl:269.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition apply_recipe(Base.Dict{Symbol, Any}, Pathogen.Events{T<:Pathogen.EpidemicModel}, Float64, Float64) where {T<:Pathogen.EpidemicModel} in module Pathogen at /home/pkgeval/.julia/packages/RecipesBase/zBoFG/src/RecipesBase.jl:269 overwritten at /home/pkgeval/.julia/packages/RecipesBase/zBoFG/src/RecipesBase.jl:269.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition apply_recipe(Base.Dict{Symbol, Any}, Pathogen.Events{T<:Pathogen.EpidemicModel}) where {T<:Pathogen.EpidemicModel} in module Pathogen at /home/pkgeval/.julia/packages/RecipesBase/zBoFG/src/RecipesBase.jl:269 overwritten at /home/pkgeval/.julia/packages/RecipesBase/zBoFG/src/RecipesBase.jl:269.
** incremental compilation may be fatally broken for this module **
Initialization progress 0%|▏ | ETA: 2:20:30[KInitialization progress 57%|████████████████ | ETA: 0:00:21[KInitialization progress 83%|███████████████████████▎ | ETA: 0:00:06[KInitialization progress 90%|█████████████████████████▎ | ETA: 0:00:03[KInitialization progress 97%|███████████████████████████▏| ETA: 0:00:01[KInitialization progress 97%|███████████████████████████▏| ETA: 0:00:01[KInitialization progress100%|████████████████████████████| Time: 0:00:29[K
MCMC progress 0%|▏ | ETA: 1:52:11[KMCMC progress 7%|██▊ | ETA: 0:04:46[KMCMC progress 12%|████▌ | ETA: 0:02:47[KMCMC progress 18%|██████▊ | ETA: 0:01:46[KMCMC progress 24%|█████████▏ | ETA: 0:01:13[KMCMC progress 29%|███████████ | ETA: 0:00:56[KMCMC progress 35%|█████████████▎ | ETA: 0:00:43[KMCMC progress 42%|████████████████ | ETA: 0:00:32[KMCMC progress 48%|██████████████████▍ | ETA: 0:00:25[KMCMC progress 54%|████████████████████▋ | ETA: 0:00:20[KMCMC progress 59%|██████████████████████▌ | ETA: 0:00:16[KMCMC progress 65%|████████████████████████▋ | ETA: 0:00:13[KMCMC progress 70%|██████████████████████████▊ | ETA: 0:00:10[KMCMC progress 78%|█████████████████████████████▊ | ETA: 0:00:07[KMCMC progress 85%|████████████████████████████████▏ | ETA: 0:00:04[KMCMC progress 88%|█████████████████████████████████▋ | ETA: 0:00:03[KMCMC progress 95%|████████████████████████████████████ | ETA: 0:00:02[KMCMC progress 97%|█████████████████████████████████████ | ETA: 0:00:01[KMCMC progress100%|██████████████████████████████████████| Time: 0:00:29[K
Test Summary: | Pass Total
SEIR Model | 224 224
Initialization progress 0%|▏ | ETA: 0:47:44[KInitialization progress 18%|█████ | ETA: 0:00:44[KInitialization progress 36%|██████████ | ETA: 0:00:18[KInitialization progress 52%|██████████████▌ | ETA: 0:00:09[KInitialization progress 74%|████████████████████▊ | ETA: 0:00:04[KInitialization progress 87%|████████████████████████▌ | ETA: 0:00:01[KInitialization progress 97%|███████████████████████████▏| ETA: 0:00:00[KInitialization progress 97%|███████████████████████████▏| ETA: 0:00:00[KInitialization progress100%|████████████████████████████| Time: 0:00:10[K
MCMC progress 0%|▏ | ETA: 0:27:03[KMCMC progress 10%|███▉ | ETA: 0:00:48[KMCMC progress 18%|██████▉ | ETA: 0:00:26[KMCMC progress 28%|██████████▊ | ETA: 0:00:15[KMCMC progress 38%|██████████████▌ | ETA: 0:00:10[KMCMC progress 48%|██████████████████▏ | ETA: 0:00:07[KMCMC progress 54%|████████████████████▍ | ETA: 0:00:05[KMCMC progress 60%|██████████████████████▋ | ETA: 0:00:04[KMCMC progress 66%|█████████████████████████ | ETA: 0:00:03[KMCMC progress 72%|███████████████████████████▎ | ETA: 0:00:03[KMCMC progress 79%|██████████████████████████████▏ | ETA: 0:00:02[KMCMC progress 87%|█████████████████████████████████▏ | ETA: 0:00:01[KMCMC progress 91%|██████████████████████████████████▊ | ETA: 0:00:01[KMCMC progress 97%|████████████████████████████████████▊ | ETA: 0:00:00[KMCMC progress 97%|████████████████████████████████████▉ | ETA: 0:00:00[KMCMC progress100%|██████████████████████████████████████| Time: 0:00:07[K
Test Summary: | Pass Total
SEI Model | 152 152
Initialization progress 0%|▏ | ETA: 0:47:48[KInitialization progress 25%|██████▉ | ETA: 0:00:30[KInitialization progress 44%|████████████▍ | ETA: 0:00:12[KInitialization progress 65%|██████████████████▎ | ETA: 0:00:05[KInitialization progress 88%|████████████████████████▊ | ETA: 0:00:01[KInitialization progress 95%|██████████████████████████▋ | ETA: 0:00:01[KInitialization progress100%|████████████████████████████| Time: 0:00:10[K
MCMC progress 0%|▏ | ETA: 0:22:34[KMCMC progress 9%|███▎ | ETA: 0:00:49[KMCMC progress 18%|██████▊ | ETA: 0:00:22[KMCMC progress 26%|█████████▊ | ETA: 0:00:14[KMCMC progress 33%|████████████▋ | ETA: 0:00:10[KMCMC progress 39%|███████████████ | ETA: 0:00:08[KMCMC progress 46%|█████████████████▋ | ETA: 0:00:06[KMCMC progress 51%|███████████████████▍ | ETA: 0:00:05[KMCMC progress 56%|█████████████████████▎ | ETA: 0:00:04[KMCMC progress 64%|████████████████████████▍ | ETA: 0:00:03[KMCMC progress 70%|██████████████████████████▊ | ETA: 0:00:02[KMCMC progress 77%|█████████████████████████████▎ | ETA: 0:00:02[KMCMC progress 81%|██████████████████████████████▉ | ETA: 0:00:01[KMCMC progress 87%|████████████████████████████████▉ | ETA: 0:00:01[KMCMC progress 94%|███████████████████████████████████▊ | ETA: 0:00:00[KMCMC progress 97%|█████████████████████████████████████ | ETA: 0:00:00[KMCMC progress100%|██████████████████████████████████████| Time: 0:00:06[K
Test Summary: | Pass Total
SIR Model | 152 152
Initialization progress 0%|▏ | ETA: 0:44:11[KInitialization progress 10%|██▊ | ETA: 0:01:21[KInitialization progress 24%|██████▋ | ETA: 0:00:29[KInitialization progress 44%|████████████▍ | ETA: 0:00:12[KInitialization progress 60%|████████████████▊ | ETA: 0:00:06[KInitialization progress 67%|██████████████████▊ | ETA: 0:00:05[KInitialization progress 82%|██████████████████████▉ | ETA: 0:00:02[KInitialization progress 90%|█████████████████████████▏ | ETA: 0:00:01[KInitialization progress 97%|███████████████████████████▏| ETA: 0:00:00[KInitialization progress100%|████████████████████████████| Time: 0:00:09[K
MCMC progress 0%|▏ | ETA: 0:26:14[KMCMC progress 11%|████ | ETA: 0:00:45[KMCMC progress 14%|█████▌ | ETA: 0:00:33[KMCMC progress 22%|████████▍ | ETA: 0:00:20[KMCMC progress 29%|███████████ | ETA: 0:00:14[KMCMC progress 38%|██████████████▌ | ETA: 0:00:09[KMCMC progress 47%|██████████████████ | ETA: 0:00:07[KMCMC progress 54%|████████████████████▌ | ETA: 0:00:05[KMCMC progress 61%|███████████████████████ | ETA: 0:00:04[KMCMC progress 69%|██████████████████████████▎ | ETA: 0:00:03[KMCMC progress 78%|█████████████████████████████▋ | ETA: 0:00:02[KMCMC progress 88%|█████████████████████████████████▌ | ETA: 0:00:01[KMCMC progress 94%|███████████████████████████████████▉ | ETA: 0:00:00[KMCMC progress 97%|█████████████████████████████████████ | ETA: 0:00:00[KMCMC progress100%|██████████████████████████████████████| Time: 0:00:07[K
Test Summary: | Pass Total
SI Model | 80 80
Testing Pathogen tests passed