Console Output
Warning: A secret was passed to "sh" using Groovy String interpolation, which is insecure.
Affected argument(s) used the following variable(s): [DOC_DEPLOYER]
See https://jenkins.io/redirect/groovy-string-interpolation for details.
+ . /work/aquila/workspace/ares_multi_pipeline_main/jenkins-ares_multi_pipeline-main-189/bin/activate
++ deactivate nondestructive
++ '[' -n '' ']'
++ '[' -n '' ']'
++ '[' -n /bin/bash -o -n '' ']'
++ hash -r
++ '[' -n '' ']'
++ unset VIRTUAL_ENV
++ '[' '!' nondestructive = nondestructive ']'
++ VIRTUAL_ENV=/work/aquila/workspace/ares_multi_pipeline_main/jenkins-ares_multi_pipeline-main-189
++ export VIRTUAL_ENV
++ _OLD_VIRTUAL_PATH=/opt/java/openjdk/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
++ PATH=/work/aquila/workspace/ares_multi_pipeline_main/jenkins-ares_multi_pipeline-main-189/bin:/opt/java/openjdk/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
++ export PATH
++ '[' -n '' ']'
++ '[' -z '' ']'
++ _OLD_VIRTUAL_PS1=
++ PS1='(jenkins-ares_multi_pipeline-main-189) '
++ export PS1
++ '[' -n /bin/bash -o -n '' ']'
++ hash -r
+ pip3 install wheel
Requirement already satisfied: wheel in /work/aquila/workspace/ares_multi_pipeline_main/jenkins-ares_multi_pipeline-main-189/lib/python3.9/site-packages (0.37.1)
+ pip3 install -r requirements.txt
Collecting exhale
Using cached exhale-0.3.1-py3-none-any.whl (104 kB)
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Collecting breathe>=4.32.0
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Collecting lxml
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Installing collected packages: traitlets, six, pyrsistent, wcwidth, tornado, pyzmq, python-dateutil, pycparser, pure-eval, ptyprocess, parso, nest-asyncio, jupyter-core, jsonschema, ipython-genutils, executing, entrypoints, asttokens, webencodings, stack-data, Pygments, prompt-toolkit, pickleshare, pexpect, nbformat, matplotlib-inline, MarkupSafe, jupyter-client, jedi, decorator, cffi, backcall, testpath, pandocfilters, nbclient, mistune, jupyterlab-pygments, jinja2, ipython, defusedxml, debugpy, bleach, argon2-cffi-bindings, urllib3, terminado, Send2Trash, pytz, prometheus-client, nbconvert, ipykernel, idna, charset-normalizer, certifi, argon2-cffi, sphinxcontrib-serializinghtml, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, snowballstemmer, requests, notebook, imagesize, docutils, babel, alabaster, widgetsnbextension, sphinx, soupsieve, qtpy, jupyterlab-widgets, qtconsole, ply, plumbum, lxml, jupyter-console, ipywidgets, breathe, beautifulsoup4, sphinx-rtd-theme, sphinx-copybutton, pandoc, nbsphinx, jupyter, exhale, disttools
Successfully installed MarkupSafe-2.1.0 Pygments-2.11.2 Send2Trash-1.8.0 alabaster-0.7.12 argon2-cffi-21.3.0 argon2-cffi-bindings-21.2.0 asttokens-2.0.5 babel-2.9.1 backcall-0.2.0 beautifulsoup4-4.10.0 bleach-4.1.0 breathe-4.33.1 certifi-2021.10.8 cffi-1.15.0 charset-normalizer-2.0.12 debugpy-1.5.1 decorator-5.1.1 defusedxml-0.7.1 disttools-0.1.6 docutils-0.16 entrypoints-0.4 executing-0.8.2 exhale-0.3.1 idna-3.3 imagesize-1.3.0 ipykernel-6.9.1 ipython-8.1.0 ipython-genutils-0.2.0 ipywidgets-7.6.5 jedi-0.18.1 jinja2-3.0.3 jsonschema-4.4.0 jupyter-1.0.0 jupyter-client-7.1.2 jupyter-console-6.4.0 jupyter-core-4.9.2 jupyterlab-pygments-0.1.2 jupyterlab-widgets-1.0.2 lxml-4.8.0 matplotlib-inline-0.1.3 mistune-0.8.4 nbclient-0.5.11 nbconvert-6.4.2 nbformat-5.1.3 nbsphinx-0.8.8 nest-asyncio-1.5.4 notebook-6.4.8 pandoc-2.1 pandocfilters-1.5.0 parso-0.8.3 pexpect-4.8.0 pickleshare-0.7.5 plumbum-1.7.2 ply-3.11 prometheus-client-0.13.1 prompt-toolkit-3.0.28 ptyprocess-0.7.0 pure-eval-0.2.2 pycparser-2.21 pyrsistent-0.18.1 python-dateutil-2.8.2 pytz-2021.3 pyzmq-22.3.0 qtconsole-5.2.2 qtpy-2.0.1 requests-2.27.1 six-1.16.0 snowballstemmer-2.2.0 soupsieve-2.3.1 sphinx-4.0.2 sphinx-copybutton-0.5.0 sphinx-rtd-theme-1.0.0 sphinxcontrib-applehelp-1.0.2 sphinxcontrib-devhelp-1.0.2 sphinxcontrib-htmlhelp-2.0.0 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-1.0.3 sphinxcontrib-serializinghtml-1.1.5 stack-data-0.2.0 terminado-0.13.1 testpath-0.6.0 tornado-6.1 traitlets-5.1.1 urllib3-1.26.8 wcwidth-0.2.5 webencodings-0.5.1 widgetsnbextension-3.5.2
+ rm -fr source/_generate
+ rm -fr _build
+ make html
Running Sphinx v4.0.2
making output directory... done
[autosummary] generating autosummary for: developer/code_architecture.rst, developer/code_tutorials.rst, developer/contributing_to_this_documentation.rst, developer/copyright_and_authorship.rst, developer/development_with_git.rst, developer/mpi_in_borg.rst, developer/using_borg_forwardmodel.rst, index.rst, pythonref.rst, theory/ARES&BORG_FFT_normalization.rst, ..., user/building.rst, user/building/Aquila_tutorial_0.ipynb, user/clusters.rst, user/extras.rst, user/extras/python-jupyter/PM-tCOLA.ipynb, user/inputs.rst, user/outputs.rst, user/postprocessing.rst, user/running.rst, user/versions.rst
Initializing console.
[INFO ] libLSS version v2.0.0alpha-576-gb8a695e1 built-in modules ares_fg;ares_fg@tmp;borg;borg@tmp;hades;hades@tmp;hmclet;hmclet@tmp;python;python@tmp
[INFO ] Registering data IO converters
[INFO S ] Registered forward models:
[INFO S ] - 2LPT_CIC
[INFO S ] - 2LPT_CIC_OPENMP
[INFO S ] - 2LPT_DOUBLE
[INFO S ] - 2LPT_NGP
[INFO S ] - ALTAIR_AP
[INFO S ] - Downgrade
[INFO S ] - EnforceMass
[INFO S ] - HADES_LOG
[INFO S ] - HADES_PT
[INFO S ] - Haar
[INFO S ] - LPT_CIC
[INFO S ] - LPT_CIC_OPENMP
[INFO S ] - LPT_DOUBLE
[INFO S ] - LPT_NGP
[INFO S ] - LPT_NU_CIC
[INFO S ] - LPT_NU_CIC_OPENMP
[INFO S ] - PATCH_MODEL
[INFO S ] - PM_CIC
[INFO S ] - PM_CIC_OPENMP
[INFO S ] - PM_CIC_OPENMP2
[INFO S ] - PRIMORDIAL
[INFO S ] - PRIMORDIAL_AS
[INFO S ] - PRIMORDIAL_FNL
[INFO S ] - QLPT
[INFO S ] - QLPT_RSD
[INFO S ] - Softplus
[INFO S ] - TRANSFER_CLASS
[INFO S ] - TRANSFER_EHU
[INFO S ] - Transfer
[INFO S ] - Upgrade
[INFO S ] - bias::BrokenPowerLaw
[INFO S ] - bias::DoubleBrokenPowerLaw
[INFO S ] - bias::EFT
[INFO S ] - bias::EFT_Thresh
[INFO S ] - bias::Linear
[INFO S ] - bias::ManyPower_1^1
[INFO S ] - bias::ManyPower_1^2
[INFO S ] - bias::ManyPower_1^4
[INFO S ] - bias::ManyPower_2^2
[INFO S ] - bias::Noop
[INFO S ] - bias::PowerLaw
[INFO S ] Registered forward models (v3):
[INFO S ] - SphereProjection
[INFO S ] Registered likelihoods:
[INFO S ] - BORG_NULL
[INFO S ] - BORG_POISSON
[INFO S ] - BORG_REDUCED_SHEAR
[INFO S ] - BORG_SHEAR
[INFO S ] - BORG_STUDENT_T
[INFO S ] - EFT_BIAS_LIKE
[INFO S ] - EFT_BIAS_MARG_LIKE
[INFO S ] - GAUSSIAN_BROKEN_POWER_LAW_BIAS
[INFO S ] - GAUSSIAN_LINEAR_BIAS
[INFO S ] - GAUSSIAN_MO_WHITE_BIAS
[INFO S ] - GAUSSIAN_POWER_LAW_BIAS
[INFO S ] - GENERIC_GAUSSIAN_MANY_POWER_1^1
[INFO S ] - GENERIC_GAUSSIAN_MANY_POWER_1^2
[INFO S ] - GENERIC_GAUSSIAN_MANY_POWER_1^4
[INFO S ] - GENERIC_POISSON_BROKEN_POWERLAW_BIAS
[INFO S ] - GENERIC_POISSON_BROKEN_POWERLAW_SIGMOID_BIAS
[INFO S ] - GENERIC_POISSON_MANY_POWER_1^1
[INFO S ] - GENERIC_POISSON_MANY_POWER_1^2
[INFO S ] - GENERIC_POISSON_MANY_POWER_1^2_DEGRADE4
[INFO S ] - GENERIC_POISSON_MANY_POWER_1^4
[INFO S ] - GENERIC_POISSON_MANY_POWER_2^2
[INFO S ] - GENERIC_POISSON_MANY_POWER_2^2_DEGRADE4
[INFO S ] - GENERIC_POISSON_MANY_POWER_2^4
[INFO S ] - GENERIC_POISSON_MANY_POWER_4^1
[INFO S ] - GENERIC_POISSON_MO_WHITE_BIAS
[INFO S ] - GENERIC_POISSON_POWERLAW_BIAS
[INFO S ] - GENERIC_POISSON_POWERLAW_BIAS_DEGRADE4
[INFO S ] - HADES_LINEAR
[INFO S ] - OCT_LIKELIHOOD
[INFO S ] - OCT_LIKELIHOOD_MARG
[INFO S ] - POISSON
[INFO S ] - ROBUST_POISSON_BROKEN_POWERLAW_BIAS
[INFO S ] - ROBUST_POISSON_BROKEN_POWERLAW_SIGMOID_BIAS
[INFO S ] - ROBUST_POISSON_MANY_POWER_1^1
[INFO S ] - ROBUST_POISSON_MANY_POWER_1^2
[INFO S ] - ROBUST_POISSON_MANY_POWER_2^2
[INFO S ] - ROBUST_POISSON_POWERLAW_BIAS
[INFO S ] ARES3 base version v2.0.0alpha-576-gb8a695e1
[INFO S ] GIT report
[INFO S ] - Module: root, Version: b8a695e1c36f969e9629b94ee7e22c90327e5a47
[INFO S ] - Module: ares_fg, Version: b88db1f30e04b1b4243c940b96944ebd9188b277
[INFO S ] - Module: ares_fg@tmp, Version: b8a695e1c36f969e9629b94ee7e22c90327e5a47
[INFO S ] - Module: borg, Version: d80149737c52239aa7e1d7f147da06b03751b720
[INFO S ] - Module: borg@tmp, Version: b8a695e1c36f969e9629b94ee7e22c90327e5a47
[INFO S ] - Module: hades, Version: 956eacb9f01f8b9d916e6e838c7d24300780e973
[INFO S ] - Module: hades@tmp, Version: b8a695e1c36f969e9629b94ee7e22c90327e5a47
[INFO S ] - Module: hmclet, Version: 43f8932132552fd90b39c4c9989958030ab45f23
[INFO S ] - Module: hmclet@tmp, Version: b8a695e1c36f969e9629b94ee7e22c90327e5a47
[INFO S ] - Module: python, Version: 14f1751e39900b23c4ce33b6ffa611784e5ba7b8
[INFO S ] - Module: python@tmp, Version: b8a695e1c36f969e9629b94ee7e22c90327e5a47
[INFO S ] [0m
[INFO S ]
[INFO ] CPU features: MMX AVX AVX2 AVX512F SSE SSE2 SSE3 SSE4.1 SSE4.2
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./
./_generate/
./_generate/aquila_borg.cosmo.ClassCosmo.html
./_generate/aquila_borg.cosmo.CosmoPower.html
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./_generate/aquila_borg.cosmo.Cosmology.html
./_generate/aquila_borg.domains.CompleteDomainSpec.html
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./_generate/aquila_borg.domains.run.html
./_generate/aquila_borg.forward.BORGForwardModel.html
./_generate/aquila_borg.forward.BaseForwardModel.html
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./_generate/aquila_borg.forward.ChainForwardModel.html
./_generate/aquila_borg.forward.ForwardModel.html
./_generate/aquila_borg.forward.ParticleBasedForwardModel.html
./_generate/aquila_borg.forward.PreferredIO.html
./_generate/aquila_borg.forward.models.Borg2Lpt.html
./_generate/aquila_borg.forward.models.BorgLpt.html
./_generate/aquila_borg.forward.models.BorgLptNGP_Double.html
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./_generate/aquila_borg.forward.models.BorgLptOpenMP.html
./_generate/aquila_borg.forward.models.BorgLptSmoothNGP_Quad.html
./_generate/aquila_borg.forward.models.BorgPM.html
./_generate/aquila_borg.forward.models.Downgrade.html
./_generate/aquila_borg.forward.models.EisensteinHu.html
./_generate/aquila_borg.forward.models.HadesLinear.html
./_generate/aquila_borg.forward.models.HadesLog.html
./_generate/aquila_borg.forward.models.HermiticEnforcer.html
./_generate/aquila_borg.forward.models.Primordial.html
./_generate/aquila_borg.forward.models.Transfer.html
./_generate/aquila_borg.forward.models.listModels.html
./_generate/aquila_borg.forward.models.listModels_v3.html
./_generate/aquila_borg.forward.models.newModel.html
./_generate/aquila_borg.forward.models.newModel_v3.html
./_generate/aquila_borg.forward.velocity.CICModel.html
./_generate/aquila_borg.forward.velocity.ParticleBasedModel.html
./_generate/aquila_borg.forward.velocity.SICModel.html
./_generate/aquila_borg.forward.velocity.VelocityBase.html
./_generate/aquila_borg.likelihood.BaseLikelihood.html
./_generate/aquila_borg.likelihood.ForwardModelLikelihood3d.html
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./_generate/aquila_borg.modelio.AbstractRepresentation.html
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./_sources/
./_sources/_generate/
./_sources/_generate/aquila_borg.cosmo.ClassCosmo.rst.txt
./_sources/_generate/aquila_borg.cosmo.CosmoPower.rst.txt
./_sources/_generate/aquila_borg.cosmo.CosmologicalParameters.rst.txt
./_sources/_generate/aquila_borg.cosmo.Cosmology.rst.txt
./_sources/_generate/aquila_borg.domains.CompleteDomainSpec.rst.txt
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./_sources/_generate/aquila_borg.domains.computeCompleteDomainSpec.rst.txt
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./_sources/_generate/aquila_borg.domains.run.rst.txt
./_sources/_generate/aquila_borg.forward.BORGForwardModel.rst.txt
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./_sources/_generate/aquila_borg.forward.BoxModel.rst.txt
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./_sources/_generate/aquila_borg.forward.ParticleBasedForwardModel.rst.txt
./_sources/_generate/aquila_borg.forward.PreferredIO.rst.txt
./_sources/_generate/aquila_borg.forward.models.Borg2Lpt.rst.txt
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./_sources/_generate/aquila_borg.forward.models.BorgLptNGP_Double.rst.txt
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./_sources/_generate/aquila_borg.forward.models.HadesLog.rst.txt
./_sources/_generate/aquila_borg.forward.models.HermiticEnforcer.rst.txt
./_sources/_generate/aquila_borg.forward.models.Primordial.rst.txt
./_sources/_generate/aquila_borg.forward.models.Transfer.rst.txt
./_sources/_generate/aquila_borg.forward.models.listModels.rst.txt
./_sources/_generate/aquila_borg.forward.models.listModels_v3.rst.txt
./_sources/_generate/aquila_borg.forward.models.newModel.rst.txt
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./_sources/_generate/aquila_borg.forward.velocity.CICModel.rst.txt
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./_sources/_generate/aquila_borg.forward.velocity.SICModel.rst.txt
./_sources/_generate/aquila_borg.forward.velocity.VelocityBase.rst.txt
./_sources/_generate/aquila_borg.likelihood.BaseLikelihood.rst.txt
./_sources/_generate/aquila_borg.likelihood.ForwardModelLikelihood3d.rst.txt
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./_sources/_generate/aquila_borg.likelihood.LikelihoodInfo.rst.txt
./_sources/_generate/aquila_borg.likelihood.MarkovState.rst.txt
./_sources/_generate/aquila_borg.likelihood.PoissonPowerLaw.rst.txt
./_sources/_generate/aquila_borg.modelio.AbstractRepresentation.rst.txt
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./_sources/_generate/aquila_borg.modelio.newInputModelIO.rst.txt
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./_sources/_generate/aquila_borg.modelio.transform_for_forward.rst.txt
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./_sources/_generate/aquila_borg.samplers.AltairMetaSampler.rst.txt
./_sources/_generate/aquila_borg.samplers.BiasModelParamsSampler.rst.txt
./_sources/_generate/aquila_borg.samplers.GenericBiasSampler.rst.txt
./_sources/_generate/aquila_borg.samplers.HMCDensitySampler.rst.txt
./_sources/_generate/aquila_borg.samplers.MarkovSampler.rst.txt
./_sources/_generate/aquila_borg.samplers.ModelParamsSampler.rst.txt
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./_sources/_generate/aquila_borg.samplers.Sigma8Sampler.rst.txt
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