Console Output
Started by GitHub push by severinsimmler
Building remotely on Rechenknecht in workspace /mnt/data/jenkins/workspace/cophi_toolbox
> /usr/bin/git rev-parse --is-inside-work-tree # timeout=10
Fetching changes from the remote Git repository
> /usr/bin/git config remote.origin.url git://github.com/cophi-wue/cophi-toolbox # timeout=10
Fetching upstream changes from git://github.com/cophi-wue/cophi-toolbox
> /usr/bin/git --version # timeout=10
using GIT_ASKPASS to set credentials
> /usr/bin/git fetch --tags --progress git://github.com/cophi-wue/cophi-toolbox +refs/heads/*:refs/remotes/origin/*
Seen branch in repository origin/ddw
Seen branch in repository origin/gh-pages
Seen branch in repository origin/master
Seen branch in repository origin/oop
Seen branch in repository origin/testing
Seen 5 remote branches
> /usr/bin/git show-ref --tags -d # timeout=10
Checking out Revision 5204eb632f071846a3070db02c8f5b6c054dfba6 (origin/testing)
> /usr/bin/git config core.sparsecheckout # timeout=10
> /usr/bin/git checkout -f 5204eb632f071846a3070db02c8f5b6c054dfba6
Commit message: "chore: move export functions"
> /usr/bin/git rev-list --no-walk eba6bd7ce1631c22ee2e56ffbc2c251f1521f858 # timeout=10
[cophi_toolbox] $ /bin/sh -xe /tmp/jenkins7563878030373660915.sh
+ tox
GLOB sdist-make: /mnt/data/jenkins/workspace/cophi_toolbox/setup.py
py34 create: /mnt/data/jenkins/workspace/cophi_toolbox/.tox/py34
ERROR: InterpreterNotFound: python3.4
py35 inst-nodeps: /mnt/data/jenkins/workspace/cophi_toolbox/.tox/dist/cophi-1.1.0.zip
py35 installed: atomicwrites==1.2.1,attrs==18.2.0,cophi==1.1.0,coverage==4.5.2,lxml==4.2.5,more-itertools==4.3.0,numpy==1.15.4,pandas==0.23.4,pathlib2==2.3.2,pkg-resources==0.0.0,pluggy==0.8.0,py==1.7.0,pytest==4.0.0,pytest-cov==2.6.0,python-dateutil==2.7.5,pytz==2018.7,regex==2018.11.22,six==1.11.0
py35 runtests: PYTHONHASHSEED='3351563218'
py35 runtests: commands[0] | pytest
============================= test session starts ==============================
platform linux -- Python 3.5.3, pytest-4.0.0, py-1.7.0, pluggy-0.8.0
rootdir: /mnt/data/jenkins/workspace/cophi_toolbox, inifile: setup.cfg
plugins: cov-2.6.0
collected 91 items
tests/test_api.py ..F [ 3%]
tests/test_complexity.py ...................... [ 27%]
tests/test_model.py .................................................... [ 84%]
....... [ 92%]
tests/test_utils.py .....EE [100%]
==================================== ERRORS ====================================
_______________________ ERROR at setup of test_svmlight ________________________
file /mnt/data/jenkins/workspace/cophi_toolbox/tests/test_utils.py, line 47
def test_svmlight(self, corpus):
E fixture 'self' not found
> available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, corpus, cov, doctest_namespace, document, monkeypatch, no_cover, pytestconfig, record_property, record_xml_attribute, record_xml_property, recwarn, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory
> use 'pytest --fixtures [testpath]' for help on them.
/mnt/data/jenkins/workspace/cophi_toolbox/tests/test_utils.py:47
_______________________ ERROR at setup of test_plaintext _______________________
file /mnt/data/jenkins/workspace/cophi_toolbox/tests/test_utils.py, line 54
def test_plaintext(self, corpus):
E fixture 'self' not found
> available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, corpus, cov, doctest_namespace, document, monkeypatch, no_cover, pytestconfig, record_property, record_xml_attribute, record_xml_property, recwarn, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory
> use 'pytest --fixtures [testpath]' for help on them.
/mnt/data/jenkins/workspace/cophi_toolbox/tests/test_utils.py:54
=================================== FAILURES ===================================
_________________________________ test_export __________________________________
corpus = <cophi.model.Corpus object at 0x7f5f1dda50b8>
def test_export(corpus):
output = pathlib.Path("corpus.svmlight")
> cophi.export(corpus.dtm, output, "svmlight")
tests/test_api.py:35:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
src/cophi/api.py:98: in export
cophi.utils.export_svmlight(corpus, filepath)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
dtm = <function corpus at 0x7f5f1f5a58c8>
filepath = PosixPath('corpus.svmlight')
def export_svmlight(dtm, filepath):
"""Export document-term matrix to SVMLight format.
Parameters:
dtm: Document-term matrix.
filepath: Path to output file.
"""
with pathlib.Path(filepath).open("w", encoding="utf-8") as file:
> for title, document in dtm.iterrows():
E AttributeError: 'function' object has no attribute 'iterrows'
src/cophi/utils.py:126: AttributeError
--- generated xml file: /mnt/data/jenkins/workspace/cophi_toolbox/tests.xml ----
----------- coverage: platform linux, python 3.5.3-final-0 -----------
Coverage HTML written to dir htmlcov
Coverage XML written to file coverage.xml
================= 1 failed, 88 passed, 2 error in 0.98 seconds =================
ERROR: InvocationError: '/mnt/data/jenkins/workspace/cophi_toolbox/.tox/py35/bin/pytest'
py36 create: /mnt/data/jenkins/workspace/cophi_toolbox/.tox/py36
ERROR: InterpreterNotFound: python3.6
py37 create: /mnt/data/jenkins/workspace/cophi_toolbox/.tox/py37
ERROR: InterpreterNotFound: python3.7
docs inst-nodeps: /mnt/data/jenkins/workspace/cophi_toolbox/.tox/dist/cophi-1.1.0.zip
docs installed: alabaster==0.7.12,Babel==2.6.0,certifi==2018.10.15,chardet==3.0.4,cophi==1.1.0,docutils==0.14,idna==2.7,imagesize==1.1.0,Jinja2==2.10,lxml==4.2.5,MarkupSafe==1.1.0,numpy==1.15.4,packaging==18.0,pandas==0.23.4,pkg-resources==0.0.0,Pygments==2.2.0,pyparsing==2.3.0,python-dateutil==2.7.5,pytz==2018.7,regex==2018.11.22,requests==2.20.1,six==1.11.0,snowballstemmer==1.2.1,Sphinx==1.8.2,sphinxcontrib-websupport==1.1.0,urllib3==1.24.1
docs runtests: PYTHONHASHSEED='3351563218'
docs runtests: commands[0] | sphinx-build -E -b html docs dist/docs
Running Sphinx v1.8.2
loading intersphinx inventory from https://docs.python.org/objects.inv...
intersphinx inventory has moved: https://docs.python.org/objects.inv -> https://docs.python.org/3/objects.inv
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 3 source files that are out of date
updating environment: 3 added, 0 changed, 0 removed
reading sources... [ 33%] index
reading sources... [ 66%] reference/cophi-toolbox
reading sources... [100%] reference/index
/mnt/data/jenkins/workspace/cophi_toolbox/docs/reference/cophi-toolbox.rst:3: WARNING: Unknown directive type "testsetup".
.. testsetup::
from cophi import *
WARNING: autodoc: failed to import module 'preprocessing' from module 'cophi_toolbox'; the following exception was raised:
No module named 'cophi_toolbox'
looking for now-outdated files... none found
pickling environment... done
checking consistency... /mnt/data/jenkins/workspace/cophi_toolbox/docs/reference/cophi-toolbox.rst: WARNING: document isn't included in any toctree
/mnt/data/jenkins/workspace/cophi_toolbox/docs/reference/index.rst: WARNING: document isn't included in any toctree
done
preparing documents... done
writing output... [ 33%] index
writing output... [ 66%] reference/cophi-toolbox
writing output... [100%] reference/index
generating indices... genindex
writing additional pages... search
copying static files... WARNING: html_static_path entry '/mnt/data/jenkins/workspace/cophi_toolbox/docs/_static' does not exist
done
copying extra files... done
dumping search index in English (code: en) ... done
dumping object inventory... done
build succeeded, 5 warnings.
The HTML pages are in dist/docs.
docs runtests: commands[1] | sphinx-build -b linkcheck docs dist/docs
Running Sphinx v1.8.2
loading pickled environment... done
building [mo]: targets for 0 po files that are out of date
building [linkcheck]: targets for 3 source files that are out of date
updating environment: [] 0 added, 1 changed, 0 removed
reading sources... [100%] reference/cophi-toolbox
/mnt/data/jenkins/workspace/cophi_toolbox/docs/reference/cophi-toolbox.rst:3: WARNING: Unknown directive type "testsetup".
.. testsetup::
from cophi import *
WARNING: autodoc: failed to import module 'preprocessing' from module 'cophi_toolbox'; the following exception was raised:
No module named 'cophi_toolbox'
looking for now-outdated files... none found
pickling environment... done
checking consistency... /mnt/data/jenkins/workspace/cophi_toolbox/docs/reference/cophi-toolbox.rst: WARNING: document isn't included in any toctree
/mnt/data/jenkins/workspace/cophi_toolbox/docs/reference/index.rst: WARNING: document isn't included in any toctree
done
preparing documents... done
writing output... [ 33%] index
writing output... [ 66%] reference/cophi-toolbox
writing output... [100%] reference/index
build succeeded, 4 warnings.
Look for any errors in the above output or in dist/docs/output.txt
___________________________________ summary ____________________________________
SKIPPED: py34: InterpreterNotFound: python3.4
ERROR: py35: commands failed
SKIPPED: py36: InterpreterNotFound: python3.6
SKIPPED: py37: InterpreterNotFound: python3.7
docs: commands succeeded
Build step 'Execute shell' marked build as failure
[TASKS] Skipping publisher since build result is FAILURE
Recording test results
[Cobertura] Publishing Cobertura coverage report...
[Cobertura] Publishing Cobertura coverage results...
[Cobertura] Cobertura coverage report found.
[Set GitHub commit status (universal)] ERROR on repos [GHRepository@6ae1f328[description=A repository containing general functions for processing and accessing text corpora,homepage=<null>,name=cophi-toolbox,license=<null>,fork=false,size=461,milestones={},language=Jupyter Notebook,commits={},source=<null>,parent=<null>,responseHeaderFields={null=[HTTP/1.1 200 OK], Access-Control-Allow-Origin=[*], Access-Control-Expose-Headers=[ETag, Link, Location, Retry-After, X-GitHub-OTP, X-RateLimit-Limit, X-RateLimit-Remaining, X-RateLimit-Reset, X-OAuth-Scopes, X-Accepted-OAuth-Scopes, X-Poll-Interval, X-GitHub-Media-Type], Cache-Control=[private, max-age=60, s-maxage=60], Content-Encoding=[gzip], Content-Security-Policy=[default-src 'none'], Content-Type=[application/json; charset=utf-8], Date=[Sun, 23 Dec 2018 19:34:50 GMT], ETag=[W/"38a4b4ac563cb5e324128c23d942ec49"], Last-Modified=[Sun, 23 Dec 2018 19:08:12 GMT], OkHttp-Received-Millis=[1545593690495], OkHttp-Response-Source=[CONDITIONAL_CACHE 200], OkHttp-Selected-Protocol=[http/1.1], OkHttp-Sent-Millis=[1545593690337], Referrer-Policy=[origin-when-cross-origin, strict-origin-when-cross-origin], Server=[GitHub.com], Status=[200 OK], Strict-Transport-Security=[max-age=31536000; includeSubdomains; preload], Transfer-Encoding=[chunked], Vary=[Accept, Authorization, Cookie, X-GitHub-OTP], X-Accepted-OAuth-Scopes=[repo], X-Content-Type-Options=[nosniff], X-Frame-Options=[deny], X-GitHub-Media-Type=[github.v3; format=json], X-GitHub-Request-Id=[B3F4:1F55:2650C3F:5C48213:5C1FE35A], X-OAuth-Scopes=[admin:repo_hook, repo, repo:status], X-RateLimit-Limit=[5000], X-RateLimit-Remaining=[4995], X-RateLimit-Reset=[1545595708], X-XSS-Protection=[1; mode=block]},url=https://api.github.com/repos/cophi-wue/cophi-toolbox,id=113045733]] (sha:5204eb6) with context:cophi_toolbox
Setting commit status on GitHub for https://github.com/cophi-wue/cophi-toolbox/commit/5204eb632f071846a3070db02c8f5b6c054dfba6
[BFA] Scanning build for known causes...
[BFA] No failure causes found
[BFA] Done. 0s
Started calculate disk usage of build
Finished Calculation of disk usage of build in 0 seconds
Started calculate disk usage of workspace
Finished Calculation of disk usage of workspace in 0 seconds
Notifying upstream projects of job completion
Finished: FAILURE
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