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[ENH] add include_t_stop flag to Synchrotool class, Issue 493 #1035

[ENH] add include_t_stop flag to Synchrotool class, Issue 493

[ENH] add include_t_stop flag to Synchrotool class, Issue 493 #1035

Triggered via pull request January 8, 2025 13:19
Status Failure
Total duration 17m 45s
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CI.yml

on: pull_request
Matrix: build-and-test-pip
Matrix: docs
Matrix: doctests
Matrix: test-conda
Matrix: test-macOS
Matrix: test-pip-MPI
Matrix: test-pip
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8 errors and 32 warnings
conda (3.11, macos-14)
The process '/Users/runner/miniconda3/condabin/mamba' failed with exit code null
doctests (3.10, ubuntu-latest)
Process completed with exit code 1.
build-and-test-pip (3.11, ubuntu-latest)
Process completed with exit code 1.
build-and-test-pip (3.10, ubuntu-latest)
Process completed with exit code 1.
build-and-test-pip (3.12, ubuntu-latest)
Process completed with exit code 1.
test-conda (3.11, ubuntu-latest)
Process completed with exit code 1.
conda (3.11, macos-13)
Process completed with exit code 1.
test-pip (3.11, windows-latest)
Process completed with exit code 1.
conda (3.11, macos-14)
/Users/runner/miniconda3/lib/python3.12/site-packages/conda/base/context.py:201: FutureWarning: Adding 'defaults' to channel list implicitly is deprecated and will be removed in 25.3. To remove this warning, please choose a default channel explicitly with conda's regular configuration system, e.g. by adding 'defaults' to the list of channels: conda config --add channels defaults For more information see https://docs.conda.io/projects/conda/en/stable/user-guide/configuration/use-condarc.html deprecated.topic(
conda (3.11, macos-14)
CondaKeyError: 'channels': value 'defaults' not present in config
conda (3.11, macos-14)
*** Terminating app due to uncaught exception 'NSInvalidArgumentException', reason: '-[__NSCFString stringByStandardizingPath]: unrecognized selector sent to instance 0x600001374140' *** First throw call stack: ( 0 CoreFoundation 0x000000019ee7a2cc __exceptionPreprocess + 176 1 libobjc.A.dylib 0x000000019e95e158 objc_exception_throw + 60 2 CoreFoundation 0x000000019ef2c568 -[NSObject(NSObject) __retain_OA] + 0 3 CoreFoundation 0x000000019ede3f1c ___forwarding___ + 1580 4 CoreFoundation 0x000000019ede3830 _CF_forwarding_prep_0 + 96 5 Foundation 0x000000019fee3b34 -[NSProcessInfo arguments] + 188 6 CoreFoundation 0x000000019eef5fcc __getDefaultArguments_block_invoke + 96 7 libdispatch.dylib 0x000000019eb753e8 _dispatch_client_callout + 20 8 libdispatch.dylib 0x000000019eb76c68 _dispatch_once_callout + 32 9 CoreFoundation 0x000000019eef5968 _addBackstopValuesForIdentifierAndSource + 652 10 CoreFoundation 0x000000019edaf3ec __81-[_CFXPreferences(SourceAdditions) withNamedVolatileSourceForIdentifier:perform:]_block_invoke + 144 11 CoreFoundation 0x000000019eef5604 -[_CFXPreferences withNamedVolatileSourceForIdentifier:perform:] + 272 12 CoreFoundation 0x000000019edb5774 -[CFPrefsSearchListSource addNamedVolatileSourceForIdentifier:] + 136 13 CoreFoundation 0x000000019ef34970 __108-[_CFXPreferences(SearchListAdditions) withSearchListForIdentifier:container:cloudConfigurationURL:perform:]_block_invoke.155 + 296 14 CoreFoundation 0x000000019ef345e0 -[_CFXPreferences withSearchLists:] + 84 15 CoreFoundation 0x000000019edb0cc4 __108-[_CFXPreferences(SearchListAdditions) withSearchListForIdentifier:container:cloudConfigurationURL:perform:]_block_invoke + 300 16 CoreFoundation 0x000000019ef347c4 -[_CFXPreferences withSearchListForIdentifier:container:cloudConfigurationURL:perform:] + 440 17 CoreFoundation 0x000000019edb05e8 -[_CFXPreferences copyAppValueForKey:identifier:container:configurationURL:] + 156 18 CoreFoundation 0x000000019edb0510 _CFPreferencesCopyAppValueWithContainerAndConfiguration + 112 19 SystemConfiguration 0x000000019fb62818 SCDynamicStoreCopyProxiesWithOptions + 180 20 libcurl.4.dylib 0x00000001059d0624 Curl_macos_init + 16 21 libcurl.4.dylib 0x00000001059acae8 global_init + 172 22 libcurl.4.dylib 0x00000001059aca2c curl_global_init + 68 23 libmamba.2.0.0.dylib 0x00000001056e57b8 _GLOBAL__sub_I_singletons.cpp + 24 24 dyld 0x000000019e9b6608 ___ZZNK5dyld46Loader25findAndRunAllInitializersERNS_12RuntimeStateEENK3$_0clEv_block_invoke + 168 25 dyld 0x000000019e9f4b38 ___ZNK5dyld313MachOAnalyzer18forEachInitializerER11DiagnosticsRKNS0_15VMAddrConverterEU13block_pointerFvjEPKv_block_invoke.202 + 172 26 dyld 0x000000019e9e8400 ___ZNK5dyld39MachOFile14forEachSectionEU13block_pointerFvRKNS0_11SectionInfoEbRbE_block_invoke + 496 27 dyld 0x000000019e9972fc _ZNK5dyld39MachOFile18forEachLoadCommandER11DiagnosticsU13block_pointerFvPK12load_commandRbE + 300 28 dyld 0x000000019e9e7394 _ZNK5dyld39MachOFile14forEachSectionEU13block_pointerFvRKNS0_11SectionInfoEbRbE + 192 29 dyld 0x000000019e9e9c6c _ZNK5dyld39MachOFile32forEachInitializerPointerSectionER11DiagnosticsU13block_pointerFvjjRbE + 160 30 dyld 0x000000019e9f482c _ZNK5dyld313MachOAnalyzer18forEachInitializerER11DiagnosticsRKNS0_15VMAddrConverterEU13block_pointerFvjEPKv + 432 31 dyld
doctests (3.10, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
doctests (3.10, ubuntu-latest)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
build-and-test-pip (3.11, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
build-and-test-pip (3.9, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
build-and-test-pip (3.10, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
build-and-test-pip (3.12, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test-conda (3.11, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test-conda (3.11, ubuntu-latest)
/usr/share/miniconda/lib/python3.12/site-packages/conda/base/context.py:201: FutureWarning: Adding 'defaults' to channel list implicitly is deprecated and will be removed in 25.3. To remove this warning, please choose a default channel explicitly with conda's regular configuration system, e.g. by adding 'defaults' to the list of channels: conda config --add channels defaults For more information see https://docs.conda.io/projects/conda/en/stable/user-guide/configuration/use-condarc.html deprecated.topic(
test-conda (3.11, ubuntu-latest)
CondaKeyError: 'channels': value 'defaults' not present in config
test-conda (3.11, ubuntu-latest)
warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/
test-conda (3.11, ubuntu-latest)
warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/ warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/ warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/
test-conda (3.11, ubuntu-latest)
warning libmamba You are using 'pip' as an additional package manager. Be aware that packages installed with 'pip' are managed independently from 'conda-forge' channel.
docs (ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
docs (ubuntu-latest)
/usr/share/miniconda/lib/python3.12/site-packages/conda/base/context.py:201: FutureWarning: Adding 'defaults' to channel list implicitly is deprecated and will be removed in 25.3. To remove this warning, please choose a default channel explicitly with conda's regular configuration system, e.g. by adding 'defaults' to the list of channels: conda config --add channels defaults For more information see https://docs.conda.io/projects/conda/en/stable/user-guide/configuration/use-condarc.html deprecated.topic(
docs (ubuntu-latest)
CondaKeyError: 'channels': value 'defaults' not present in config
docs (ubuntu-latest)
warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/
docs (ubuntu-latest)
warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/ warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/
docs (ubuntu-latest)
warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/
docs (ubuntu-latest)
warning libmamba You are using 'pip' as an additional package manager. Be aware that packages installed with 'pip' are managed independently from 'conda-forge' channel.
test-pip-MPI (3.9, ubuntu-latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
conda (3.11, macos-13)
/Users/runner/miniconda3/lib/python3.12/site-packages/conda/base/context.py:201: FutureWarning: Adding 'defaults' to channel list implicitly is deprecated and will be removed in 25.3. To remove this warning, please choose a default channel explicitly with conda's regular configuration system, e.g. by adding 'defaults' to the list of channels: conda config --add channels defaults For more information see https://docs.conda.io/projects/conda/en/stable/user-guide/configuration/use-condarc.html deprecated.topic(
conda (3.11, macos-13)
CondaKeyError: 'channels': value 'defaults' not present in config
conda (3.11, macos-13)
warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services.
conda (3.11, macos-13)
warning libmamba See: https://legal.anaconda.com/policies/en/ warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/
conda (3.11, macos-13)
warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used.
conda (3.11, macos-13)
warning libmamba Please make sure you understand Anaconda Terms of Services. warning libmamba See: https://legal.anaconda.com/policies/en/
conda (3.11, macos-13)
warning libmamba 'repo.anaconda.com', a commercial channel hosted by Anaconda.com, is used. warning libmamba Please make sure you understand Anaconda Terms of Services.
conda (3.11, macos-13)
warning libmamba See: https://legal.anaconda.com/policies/en/
conda (3.11, macos-13)
warning libmamba You are using 'pip' as an additional package manager. Be aware that packages installed with 'pip' are managed independently from 'conda-forge' channel.