Bug #9594

Updated by Nobuyoshi Nakada over 1 year ago

Thought I'd post this, let me know if I can help with more info.

I've experienced it in a number of different places. No segfaults occurring when debugger is not used.



matt@foo taxonworks (master *%)$ rspec spec/lib/material_spec.rb

[Coveralls] Set up the SimpleCov formatter.

[Coveralls] Using SimpleCov's default settings.

........./Users/matt/src/taxonworks/lib/material.rb:23

object.biocuration_classes << BiocurationClass.find(opts[:collection_objects][o][:biocuration_classes])



[18, 27] in /Users/matt/src/taxonworks/lib/material.rb

18 object = stub_object.clone

19 object.total = opts[:collection_objects][o][:total]

20

21 if opts[:collection_objects][o][:biocuration_classes]

22 debugger

=> 23 object.biocuration_classes << BiocurationClass.find(opts[:collection_objects][o][:biocuration_classes])

24 end

25

26 object.notes << note.clone if note

27 object.container = container if container

(rdb:1) cont

/Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/attribute_methods.rb:149: [BUG] Segmentation fault at 0x00000000000018

ruby 2.1.1p76 (2014-02-24 revision 45161) [x86_64-darwin13.0]

-- Crash Report log information --------------------------------------------
See Crash Report log file under the one of following:
* ~/Library/Logs/CrashReporter
* /Library/Logs/CrashReporter
* ~/Library/Logs/DiagnosticReports
* /Library/Logs/DiagnosticReports
for more details.

-- Control frame information -----------------------------------------------
c:0055 p:0048 s:0251 e:000250 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/attribute_methods.rb:149 [FINISH]
c:0054 p:---- s:0245 e:000244 CFUNC :public_send
c:0053 p:0018 s:0240 e:000239 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/attribute_assignment.rb:42
c:0052 p:0070 s:0235 e:000234 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/attribute_assignment.rb:29 [FINISH]
c:0051 p:---- s:0231 e:000230 CFUNC :each
c:0050 p:0063 s:0228 e:000227 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/attribute_assignment.rb:23
c:0049 p:0053 s:0221 e:000220 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/association.rb:178
c:0048 p:0011 s:0215 e:000214 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/association.rb:251
c:0047 p:0125 s:0212 E:000630 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/core.rb:187 [FINISH]
c:0046 p:---- s:0206 e:000205 CFUNC :new
c:0045 p:0109 s:0202 e:000201 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/inheritance.rb:27
c:0044 p:0015 s:0195 e:000194 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/reflection.rb:189
c:0043 p:0013 s:0190 E:0024d0 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/association.rb:250
c:0042 p:0043 s:0186 e:000184 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/collection_association.rb:114
c:0041 p:0039 s:0180 e:000176 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/has_many_through_association.rb:87
c:0040 p:0011 s:0172 e:000171 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/has_many_through_association.rb:47 [FINISH]
c:0039 p:---- s:0169 e:000168 CFUNC :each
c:0038 p:0047 s:0166 e:000165 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/has_many_through_association.rb:46
c:0037 p:0037 s:0162 e:000161 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/collection_association.rb:135
c:0036 p:0034 s:0158 e:000157 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/has_many_through_association.rb:37
c:0035 p:0013 s:0154 e:000153 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/collection_proxy.rb:943
c:0034 p:0096 s:0150 E:000a18 BLOCK /Users/matt/src/taxonworks/lib/material.rb:23 [FINISH]
c:0033 p:---- s:0146 e:000145 CFUNC :each
c:0032 p:0135 s:0143 E:001138 METHOD /Users/matt/src/taxonworks/lib/material.rb:17
c:0031 p:0219 s:0134 e:000133 BLOCK /Users/matt/src/taxonworks/spec/lib/material_spec.rb:93 [FINISH]
c:0030 p:---- s:0127 e:000126 CFUNC :instance_eval
c:0029 p:0020 s:0124 e:000123 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example.rb:114 [FINISH]
c:0028 p:---- s:0121 e:000120 CFUNC :call
c:0027 p:0007 s:0118 e:000117 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example.rb:179
c:0026 p:0018 s:0115 e:000114 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-rails-2.14.1/lib/rspec/rails/adapters.rb:68 [FINISH]
c:0025 p:---- s:0112 e:000111 CFUNC :instance_exec
c:0024 p:0020 s:0108 e:000107 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/extensions/instance_eval_with_args.rb:16
c:0023 p:0013 s:0099 e:000098 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example.rb:247
c:0022 p:0015 s:0094 e:000093 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/hooks.rb:106 [FINISH]
c:0021 p:---- s:0092 e:000091 CFUNC :call
c:0020 p:0012 s:0089 E:000208 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/hooks.rb:108
c:0019 p:0031 s:0086 e:000085 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/hooks.rb:446
c:0018 p:0015 s:0079 e:000078 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example_group.rb:340
c:0017 p:0039 s:0074 e:000073 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example.rb:256
c:0016 p:0043 s:0069 E:0024a0 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example.rb:111
c:0015 p:0048 s:0063 e:000062 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example_group.rb:390 [FINISH]
c:0014 p:---- s:0058 e:000057 CFUNC :map
c:0013 p:0011 s:0055 e:000054 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example_group.rb:386
c:0012 p:0068 s:0051 e:000050 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example_group.rb:371
c:0011 p:0010 s:0044 e:000043 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example_group.rb:372 [FINISH]
c:0010 p:---- s:0041 e:000040 CFUNC :map
c:0009 p:0079 s:0038 e:000037 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/example_group.rb:372
c:0008 p:0010 s:0031 e:000030 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/command_line.rb:28 [FINISH]
c:0007 p:---- s:0028 e:000027 CFUNC :map
c:0006 p:0027 s:0025 e:000024 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/command_line.rb:28
c:0005 p:0020 s:0022 e:000021 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/reporter.rb:58
c:0004 p:0092 s:0017 e:000016 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/command_line.rb:25
c:0003 p:0101 s:0012 e:000011 METHOD /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/runner.rb:80
c:0002 p:0044 s:0005 e:000004 BLOCK /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/runner.rb:17 [FINISH]
c:0001 p:0000 s:0002 E:002258 TOP [FINISH]

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-- C level backtrace information -------------------------------------------
0 libruby.2.1.0.dylib 0x00000001036cc7ad rb_vm_bugreport + 141
1 libruby.2.1.0.dylib 0x000000010359581d report_bug + 285
2 libruby.2.1.0.dylib 0x00000001035956f3 rb_bug + 179
3 libruby.2.1.0.dylib 0x0000000103654ae9 sigsegv + 153
4 libsystem_platform.dylib 0x00007fff91e235aa _sigtramp + 26
5 libruby.2.1.0.dylib 0x00000001036bade7 rb_method_entry_without_refinements + 55
6 ??? 0x00007fa4102069e0 0x0 + 140342621923808

-- Other runtime information -----------------------------------------------

* Loaded script: /Users/matt/.rvm/gems/ruby-2.1.1/bin/rspec

* Loaded features:

0 enumerator.so
1 /Users/matt/.rvm/rubies/ruby-2.1.1/lib/ruby/2.1.0/x86_64-darwin13.0/enc/encdb.bundle
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17 thread.rb
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29 /Users/matt/.rvm/gems/ruby-2.1.1@global/gems/bundler-1.5.3/lib/bundler/gem_path_manipulation.rb
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31 /Users/matt/.rvm/gems/ruby-2.1.1@global/gems/bundler-1.5.3/lib/bundler/match_platform.rb
32 /Users/matt/.rvm/gems/ruby-2.1.1@global/gems/bundler-1.5.3/lib/bundler/rubygems_ext.rb
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2195 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/extensions/marshal.rb
2196 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/any_instance/chain.rb
2197 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/any_instance/stub_chain.rb
2198 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/any_instance/stub_chain_chain.rb
2199 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/any_instance/expectation_chain.rb
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2202 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/mutate_const.rb
2203 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/matchers/have_received.rb
2204 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/matchers/receive.rb
2205 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/stub_chain.rb
2206 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/targets.rb
2207 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/syntax.rb
2208 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/configuration.rb
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2210 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-mocks-2.14.6/lib/rspec/mocks/version.rb
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2212 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/mocking/with_rspec.rb
2213 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/formatters/helpers.rb
2214 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/formatters/base_formatter.rb
2215 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/formatters/base_text_formatter.rb
2216 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-core-2.14.7/lib/rspec/core/formatters/progress_formatter.rb
2217 /Users/matt/.rvm/gems/ruby-2.1.1/extensions/x86_64-darwin-13/2.1.0/bcrypt-3.1.7/bcrypt_ext.bundle
2218 /Users/matt/.rvm/gems/ruby-2.1.1/gems/bcrypt-3.1.7/lib/bcrypt/error.rb
2219 /Users/matt/.rvm/gems/ruby-2.1.1/gems/bcrypt-3.1.7/lib/bcrypt/engine.rb
2220 /Users/matt/.rvm/gems/ruby-2.1.1/gems/bcrypt-3.1.7/lib/bcrypt/password.rb
2221 /Users/matt/.rvm/gems/ruby-2.1.1/gems/bcrypt-3.1.7/lib/bcrypt.rb
2222 /Users/matt/src/taxonworks/app/models/user.rb
2223 /Users/matt/src/taxonworks/app/models/project_member.rb
2224 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activemodel-4.0.3/lib/active_model/errors.rb
2225 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/join_dependency.rb
2226 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/join_dependency/join_part.rb
2227 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/join_dependency/join_base.rb
2228 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/alias_tracker.rb
2229 /Users/matt/.rvm/gems/ruby-2.1.1/gems/tzinfo-0.3.38/lib/tzinfo/definitions/Etc/UTC.rb
2230 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activesupport-4.0.3/lib/active_support/multibyte/chars.rb
2231 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/association.rb
2232 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/singular_association.rb
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2236 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/association_scope.rb
2237 /Users/matt/src/taxonworks/app/models/collection_object.rb
2238 /Users/matt/src/taxonworks/app/models/collection_object/biological_collection_object.rb
2239 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/has_one_association.rb
2240 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/through_association.rb
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2242 /Users/matt/src/taxonworks/app/models/container_item.rb
2243 /Users/matt/.rvm/gems/ruby-2.1.1/gems/rspec-expectations-2.14.5/lib/rspec/matchers/built_in/eq.rb
2244 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/belongs_to_polymorphic_association.rb
2245 /Users/matt/src/taxonworks/app/models/note.rb
2246 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/collection_association.rb
2247 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/has_many_association.rb
2248 /Users/matt/src/taxonworks/app/models/repository.rb
2249 /Users/matt/src/taxonworks/app/models/biocuration_class.rb
2250 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/associations/has_many_through_association.rb
2251 /Users/matt/src/taxonworks/app/models/biocuration_classification.rb
2252 /Users/matt/.rvm/gems/ruby-2.1.1/gems/activerecord-4.0.3/lib/active_record/null_relation.rb

[NOTE]
You may have encountered a bug in the Ruby interpreter or extension libraries.
Bug reports are welcome.
For details: http://www.ruby-lang.org/bugreport.html

Abort trap: 6


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