-
Notifications
You must be signed in to change notification settings - Fork 5
/
1.5.0-DEV-1f787492c3.log
246 lines (244 loc) · 12 KB
/
1.5.0-DEV-1f787492c3.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
Julia Version 1.5.0-DEV.507
Commit 1f787492c3 (2020-03-25 15:03 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 Combinatorics ──────────────── v1.0.0
Installed OpenSpecFun_jll ────────────── v0.5.3+3
Installed SortingAlgorithms ──────────── v0.3.1
Installed OrderedCollections ─────────── v1.1.0
Installed RecipesBase ────────────────── v0.8.0
Installed StatsFuns ──────────────────── v0.9.4
Installed HTTP ───────────────────────── v0.8.13
Installed Mangal ─────────────────────── v0.2.0
Installed Missings ───────────────────── v0.4.3
Installed DataAPI ────────────────────── v1.1.0
Installed QuadGK ─────────────────────── v2.3.1
Installed PDMats ─────────────────────── v0.9.12
Installed CompilerSupportLibraries_jll ─ v0.3.1+0
Installed MbedTLS_jll ────────────────── v2.16.0+1
Installed Parsers ────────────────────── v0.3.12
Installed StatsBase ──────────────────── v0.32.2
Installed Arpack_jll ─────────────────── v3.5.0+2
Installed GeoInterface ───────────────── v0.5.3
Installed Arpack ─────────────────────── v0.4.0
Installed MbedTLS ────────────────────── v1.0.1
Installed Requires ───────────────────── v1.0.1
Installed Rmath_jll ──────────────────── v0.2.2+0
Installed FillArrays ─────────────────── v0.8.5
Installed IniFile ────────────────────── v0.5.0
Installed Rmath ──────────────────────── v0.6.1
Installed OpenBLAS_jll ───────────────── v0.3.7+8
Installed SpecialFunctions ───────────── v0.10.0
Installed Polynomials ────────────────── v0.6.1
Installed DataStructures ─────────────── v0.17.10
Installed JSON ───────────────────────── v0.21.0
Installed EcologicalNetworks ─────────── v0.2.2
Installed Distributions ──────────────── v0.23.1
Updating `~/.julia/environments/v1.5/Project.toml`
b8b640a6 + Mangal v0.2.0
Updating `~/.julia/environments/v1.5/Manifest.toml`
7d9fca2a + Arpack v0.4.0
68821587 + Arpack_jll v3.5.0+2
861a8166 + Combinatorics v1.0.0
e66e0078 + CompilerSupportLibraries_jll v0.3.1+0
9a962f9c + DataAPI v1.1.0
864edb3b + DataStructures v0.17.10
31c24e10 + Distributions v0.23.1
f03a62fe + EcologicalNetworks v0.2.2
1a297f60 + FillArrays v0.8.5
cf35fbd7 + GeoInterface v0.5.3
cd3eb016 + HTTP v0.8.13
83e8ac13 + IniFile v0.5.0
682c06a0 + JSON v0.21.0
b8b640a6 + Mangal v0.2.0
739be429 + MbedTLS v1.0.1
c8ffd9c3 + MbedTLS_jll v2.16.0+1
e1d29d7a + Missings v0.4.3
4536629a + OpenBLAS_jll v0.3.7+8
efe28fd5 + OpenSpecFun_jll v0.5.3+3
bac558e1 + OrderedCollections v1.1.0
90014a1f + PDMats v0.9.12
69de0a69 + Parsers v0.3.12
f27b6e38 + Polynomials v0.6.1
1fd47b50 + QuadGK v2.3.1
3cdcf5f2 + RecipesBase v0.8.0
ae029012 + Requires v1.0.1
79098fc4 + Rmath v0.6.1
f50d1b31 + Rmath_jll v0.2.2+0
a2af1166 + SortingAlgorithms v0.3.1
276daf66 + SpecialFunctions v0.10.0
2913bbd2 + StatsBase v0.32.2
4c63d2b9 + StatsFuns v0.9.4
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
6462fe0b + Sockets
2f01184e + SparseArrays
10745b16 + Statistics
4607b0f0 + SuiteSparse
8dfed614 + Test
cf7118a7 + UUIDs
4ec0a83e + Unicode
Testing Mangal
Status `/tmp/jl_x35SW8/Project.toml`
f03a62fe EcologicalNetworks v0.2.2
cf35fbd7 GeoInterface v0.5.3
cd3eb016 HTTP v0.8.13
682c06a0 JSON v0.21.0
b8b640a6 Mangal v0.2.0
ade2ca70 Dates
8dfed614 Test
Status `/tmp/jl_x35SW8/Manifest.toml`
7d9fca2a Arpack v0.4.0
68821587 Arpack_jll v3.5.0+2
861a8166 Combinatorics v1.0.0
e66e0078 CompilerSupportLibraries_jll v0.3.1+0
9a962f9c DataAPI v1.1.0
864edb3b DataStructures v0.17.10
31c24e10 Distributions v0.23.1
f03a62fe EcologicalNetworks v0.2.2
1a297f60 FillArrays v0.8.5
cf35fbd7 GeoInterface v0.5.3
cd3eb016 HTTP v0.8.13
83e8ac13 IniFile v0.5.0
682c06a0 JSON v0.21.0
b8b640a6 Mangal v0.2.0
739be429 MbedTLS v1.0.1
c8ffd9c3 MbedTLS_jll v2.16.0+1
e1d29d7a Missings v0.4.3
4536629a OpenBLAS_jll v0.3.7+8
efe28fd5 OpenSpecFun_jll v0.5.3+3
bac558e1 OrderedCollections v1.1.0
90014a1f PDMats v0.9.12
69de0a69 Parsers v0.3.12
f27b6e38 Polynomials v0.6.1
1fd47b50 QuadGK v2.3.1
3cdcf5f2 RecipesBase v0.8.0
ae029012 Requires v1.0.1
79098fc4 Rmath v0.6.1
f50d1b31 Rmath_jll v0.2.2+0
a2af1166 SortingAlgorithms v0.3.1
276daf66 SpecialFunctions v0.10.0
2913bbd2 StatsBase v0.32.2
4c63d2b9 StatsFuns v0.9.4
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
6462fe0b Sockets
2f01184e SparseArrays
10745b16 Statistics
4607b0f0 SuiteSparse
8dfed614 Test
cf7118a7 UUIDs
4ec0a83e Unicode
[ Info: You need to login
┌ Info: To login, please go to
│
│ https://mangal.io/auth/
│
│ You will be prompted to login using ORCID - when this is done, you will be
│ returned to your profile page, which contains the access_token. Copy and
│ paste this value, and use it in the login function:
│
│ julia> my_access_token = "12345654-1234-1234-4321-4343435353"
│ julia> Mangal.login(my_access_token)
│
│ If you want to save your bearer token, you can place it in an environmental
│ variable named MANGAL_BEARER_TOKEN -- this will let you use
│
└ julia> Mangal.login()
[TEST 1] [1m[32mPASS[0m backbone.jl
[TEST 2] [1m[32mPASS[0m nodes.jl
[TEST 3] [1m[32mPASS[0m cache.jl
[TEST 4] [1m[32mPASS[0m attributes.jl
[TEST 5] [1m[32mPASS[0m datasets.jl
[TEST 6] [1m[32mPASS[0m networks.jl
Error During Test at /home/pkgeval/.julia/packages/Mangal/SKxIY/test/interactions.jl:6
Test threw exception
Expression: typeof(interactions()) <: Vector{MangalInteraction}
MethodError: Cannot `convert` an object of type Nothing to an object of type AbstractString
Closest candidates are:
convert(::Type{T}, !Matched::T) where T<:AbstractString at strings/basic.jl:220
convert(::Type{T}, !Matched::AbstractString) where T<:AbstractString at strings/basic.jl:221
convert(::Type{T}, !Matched::T) where T at essentials.jl:171
Stacktrace:
[1] MangalInteraction(::Int64, ::MangalNetwork, ::MangalNode, ::MangalNode, ::Missing, ::Missing, ::Bool, ::Symbol, ::Nothing, ::Int64, ::Dates.DateTime, ::Dates.DateTime, ::MangalAttribute) at /home/pkgeval/.julia/packages/Mangal/SKxIY/src/types.jl:142
[2] format_mangal_response(::Type{MangalInteraction}, ::Dict{String,Any}) at /home/pkgeval/.julia/packages/Mangal/SKxIY/src/response_format.jl:98
[3] (::Mangal.var"#3#4"{DataType})(::Dict{String,Any}) at /home/pkgeval/.julia/packages/Mangal/SKxIY/src/basics.jl:72
[4] _broadcast_getindex_evalf at ./broadcast.jl:631 [inlined]
[5] _broadcast_getindex at ./broadcast.jl:604 [inlined]
[6] getindex at ./broadcast.jl:564 [inlined]
[7] copyto_nonleaf!(::Array{MangalInteraction,1}, ::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1},Tuple{Base.OneTo{Int64}},Mangal.var"#3#4"{DataType},Tuple{Base.Broadcast.Extruded{Array{Any,1},Tuple{Bool},Tuple{Int64}}}}, ::Base.OneTo{Int64}, ::Int64, ::Int64) at ./broadcast.jl:1004
[8] copy at ./broadcast.jl:858 [inlined]
[9] materialize(::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1},Nothing,Mangal.var"#3#4"{DataType},Tuple{Array{Any,1}}}) at ./broadcast.jl:820
[10] search_objects_by_query(::Type{T} where T) at /home/pkgeval/.julia/packages/Mangal/SKxIY/src/basics.jl:73
[11] interactions() at /home/pkgeval/.julia/packages/Mangal/SKxIY/src/generators.jl:66
[12] top-level scope at /home/pkgeval/.julia/packages/Mangal/SKxIY/test/interactions.jl:6
[13] include(::String) at ./client.jl:441
[14] top-level scope at /home/pkgeval/.julia/packages/Mangal/SKxIY/test/runtests.jl:25
[15] include(::String) at ./client.jl:441
[16] top-level scope at none:6
[17] eval(::Module, ::Any) at ./boot.jl:331
[18] exec_options(::Base.JLOptions) at ./client.jl:264
[19] _start() at ./client.jl:490
[TEST 7] [1m[31mFAIL[0m interactions.jl
LoadError: There was an error during testing
in expression starting at /home/pkgeval/.julia/packages/Mangal/SKxIY/test/interactions.jl:6
ERROR: LoadError: "TEST FAILED"
Stacktrace:
[1] top-level scope at /home/pkgeval/.julia/packages/Mangal/SKxIY/test/runtests.jl:32
[2] include(::String) at ./client.jl:441
[3] top-level scope at none:6
in expression starting at /home/pkgeval/.julia/packages/Mangal/SKxIY/test/runtests.jl:23
caused by [exception 1]
LoadError: There was an error during testing
in expression starting at /home/pkgeval/.julia/packages/Mangal/SKxIY/test/interactions.jl:6
ERROR: Package Mangal errored during testing
Stacktrace:
[1] pkgerror(::String, ::Vararg{String,N} where N) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/Types.jl:53
[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/v1.5/Pkg/src/Operations.jl:1523
[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/v1.5/Pkg/src/API.jl:316
[4] test(::Pkg.Types.Context, ::Array{Pkg.Types.PackageSpec,1}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:303
[5] #test#68 at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:297 [inlined]
[6] test at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:297 [inlined]
[7] #test#67 at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:296 [inlined]
[8] test at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:296 [inlined]
[9] test(::String; kwargs::Base.Iterators.Pairs{Union{},Union{},Tuple{},NamedTuple{(),Tuple{}}}) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:295
[10] test(::String) at /buildworker/worker/package_linux64/build/usr/share/julia/stdlib/v1.5/Pkg/src/API.jl:295
[11] top-level scope at none:16