Console Output
Started by upstream project "OpenCOR_Linux" build number 1151
originally caused by:
GitHub pull request #2411 of commit 4b78b86231e5d53e675c7b645b6e4fc2569c8ac2, no merge conflicts.
Running as SYSTEM
Building remotely on Ubuntu_16.04_bioeng49 (buildslave Testing) in workspace /home/cmiss/Jenkins/workspace/OpenCOR_Linux/Slave/Ubuntu_16.04_bioeng49
The recommended git tool is: NONE
No credentials specified
> git rev-parse --is-inside-work-tree # timeout=10
Fetching changes from the remote Git repository
> git config remote.origin.url https://github.com/opencor/opencor.git # timeout=10
Fetching upstream changes from https://github.com/opencor/opencor.git
> git --version # timeout=10
> git --version # 'git version 2.17.1'
> git fetch --tags --progress -- https://github.com/opencor/opencor.git +refs/pull/*:refs/remotes/origin/pr/* # timeout=10
JENKINS-19022: warning: possible memory leak due to Git plugin usage; see: https://wiki.jenkins.io/display/JENKINS/Remove+Git+Plugin+BuildsByBranch+BuildData
Checking out Revision 3b6e67a4255b0375b5c98e30c46d82ab0468d4b9 (refs/remotes/origin/pr/2411/merge)
> git config core.sparsecheckout # timeout=10
> git checkout -f 3b6e67a4255b0375b5c98e30c46d82ab0468d4b9 # timeout=10
Commit message: "Merge 4b78b86231e5d53e675c7b645b6e4fc2569c8ac2 into 5a13167dbd47e74e0941dbd65e6e387cff31c258"
> git rev-list --no-walk 0c0a0c3aabcc131141a9e6d2a304480df94bf875 # timeout=10
[Ubuntu_16.04_bioeng49] $ /bin/sh -xe /tmp/jenkins13657091091063063906.sh
+ pip3 install -U pip
Collecting pip
Cache entry deserialization failed, entry ignored
Downloading https://files.pythonhosted.org/packages/cb/28/91f26bd088ce8e22169032100d4260614fc3da435025ff389ef1d396a433/pip-20.2.4-py2.py3-none-any.whl (1.5MB)
Installing collected packages: pip
Successfully installed pip-20.2.4
+ pip3 list
WARNING: pip is being invoked by an old script wrapper. This will fail in a future version of pip.
Please see https://github.com/pypa/pip/issues/5599 for advice on fixing the underlying issue.
To avoid this problem you can invoke Python with '-m pip' instead of running pip directly.
Package Version
----------------------------- -------------------
alabaster 0.7.8
apturl 0.5.2
asn1crypto 0.24.0
attrs 17.4.0
Automat 0.6.0
Babel 2.4.0
beautifulsoup4 4.6.0
blinker 1.4
Brlapi 0.6.6
buildbot-worker 1.1.1-3ubuntu5
cached-property 1.5.2
certifi 2018.1.18
cffi 1.14.3
chardet 3.0.4
checkbox-support 0.22
click 6.7
colorama 0.3.7
command-not-found 0.3
constantly 15.1.0
cryptography 2.1.4
cupshelpers 1.0
defer 1.0.6
distro-info 0.18ubuntu0.18.04.1
docutils 0.14
feedparser 5.2.1
future 0.15.2
guacamole 0.9.2
html5lib 0.999999999
httplib2 0.9.2
hyperlink 17.3.1
idna 2.6
imagesize 0.7.1
incremental 16.10.1
Jinja2 2.10
keyring 10.6.0
keyrings.alt 3.0
language-selector 0.1
launchpadlib 1.10.6
lazr.restfulclient 0.13.5
lazr.uri 1.0.3
louis 3.5.0
lxml 4.2.1
macaroonbakery 1.1.3
Mako 1.0.7
MarkupSafe 1.0
netifaces 0.10.4
numpy 1.13.3
oauth 1.0.1
oauthlib 2.0.6
olefile 0.45.1
onboard 1.4.1
padme 1.1.1
PAM 0.4.2
pexpect 4.2.1
Pillow 5.1.0
pip 20.2.4
plainbox 0.25
protobuf 3.0.0
pyasn1 0.4.2
pyasn1-modules 0.2.1
pycairo 1.16.2
pycparser 2.20
pycrypto 2.6.1
pycups 1.9.73
pycurl 7.43.0.1
Pygments 2.2.0
pygobject 3.26.1
PyJWT 1.5.3
pymacaroons 0.13.0
PyNaCl 1.1.2
pyOpenSSL 17.5.0
pyparsing 2.2.0
pyRFC3339 1.0
pyserial 3.4
python-apt 1.6.5+ubuntu0.3
python-dateutil 2.6.1
python-debian 0.1.32
pytz 2018.3
pyxdg 0.25
PyYAML 3.12
reportlab 3.4.0
requests 2.18.4
requests-unixsocket 0.1.5
roman 2.0.0
SecretStorage 2.3.1
service-identity 16.0.0
setuptools 39.0.1
simplejson 3.13.2
six 1.11.0
Sphinx 1.6.7
ssh-import-id 5.7
system-service 0.3
systemd-python 234
Twisted 17.9.0
ubuntu-drivers-common 0.0.0
ufw 0.36
unattended-upgrades 0.1
unity-scope-calculator 0.1
unity-scope-chromiumbookmarks 0.1
unity-scope-colourlovers 0.1
unity-scope-devhelp 0.1
unity-scope-firefoxbookmarks 0.1
unity-scope-manpages 0.1
unity-scope-openclipart 0.1
unity-scope-texdoc 0.1
unity-scope-tomboy 0.1
unity-scope-virtualbox 0.1
unity-scope-yelp 0.1
unity-scope-zotero 0.1
urllib3 1.22
usb-creator 0.3.3
virtualenv 15.1.0
wadllib 1.3.2
webencodings 0.5
wheel 0.30.0
xdiagnose 3.8.8
xkit 0.0.0
XlsxWriter 0.9.6
zope.interface 4.3.2
+ pip3 install pygit2
WARNING: pip is being invoked by an old script wrapper. This will fail in a future version of pip.
Please see https://github.com/pypa/pip/issues/5599 for advice on fixing the underlying issue.
To avoid this problem you can invoke Python with '-m pip' instead of running pip directly.
Defaulting to user installation because normal site-packages is not writeable
Collecting pygit2
Downloading pygit2-1.3.0-cp36-cp36m-manylinux2010_x86_64.whl (3.0 MB)
Requirement already satisfied: cffi>=1.4.0 in /home/cmiss/.local/lib/python3.6/site-packages (from pygit2) (1.14.3)
Requirement already satisfied: cached-property in /home/cmiss/.local/lib/python3.6/site-packages (from pygit2) (1.5.2)
Requirement already satisfied: pycparser in /home/cmiss/.local/lib/python3.6/site-packages (from cffi>=1.4.0->pygit2) (2.20)
Installing collected packages: pygit2
Successfully installed pygit2-1.3.0
+ pip3 list
WARNING: pip is being invoked by an old script wrapper. This will fail in a future version of pip.
Please see https://github.com/pypa/pip/issues/5599 for advice on fixing the underlying issue.
To avoid this problem you can invoke Python with '-m pip' instead of running pip directly.
Package Version
----------------------------- -------------------
alabaster 0.7.8
apturl 0.5.2
asn1crypto 0.24.0
attrs 17.4.0
Automat 0.6.0
Babel 2.4.0
beautifulsoup4 4.6.0
blinker 1.4
Brlapi 0.6.6
buildbot-worker 1.1.1-3ubuntu5
cached-property 1.5.2
certifi 2018.1.18
cffi 1.14.3
chardet 3.0.4
checkbox-support 0.22
click 6.7
colorama 0.3.7
command-not-found 0.3
constantly 15.1.0
cryptography 2.1.4
cupshelpers 1.0
defer 1.0.6
distro-info 0.18ubuntu0.18.04.1
docutils 0.14
feedparser 5.2.1
future 0.15.2
guacamole 0.9.2
html5lib 0.999999999
httplib2 0.9.2
hyperlink 17.3.1
idna 2.6
imagesize 0.7.1
incremental 16.10.1
Jinja2 2.10
keyring 10.6.0
keyrings.alt 3.0
language-selector 0.1
launchpadlib 1.10.6
lazr.restfulclient 0.13.5
lazr.uri 1.0.3
louis 3.5.0
lxml 4.2.1
macaroonbakery 1.1.3
Mako 1.0.7
MarkupSafe 1.0
netifaces 0.10.4
numpy 1.13.3
oauth 1.0.1
oauthlib 2.0.6
olefile 0.45.1
onboard 1.4.1
padme 1.1.1
PAM 0.4.2
pexpect 4.2.1
Pillow 5.1.0
pip 20.2.4
plainbox 0.25
protobuf 3.0.0
pyasn1 0.4.2
pyasn1-modules 0.2.1
pycairo 1.16.2
pycparser 2.20
pycrypto 2.6.1
pycups 1.9.73
pycurl 7.43.0.1
pygit2 1.3.0
Pygments 2.2.0
pygobject 3.26.1
PyJWT 1.5.3
pymacaroons 0.13.0
PyNaCl 1.1.2
pyOpenSSL 17.5.0
pyparsing 2.2.0
pyRFC3339 1.0
pyserial 3.4
python-apt 1.6.5+ubuntu0.3
python-dateutil 2.6.1
python-debian 0.1.32
pytz 2018.3
pyxdg 0.25
PyYAML 3.12
reportlab 3.4.0
requests 2.18.4
requests-unixsocket 0.1.5
roman 2.0.0
SecretStorage 2.3.1
service-identity 16.0.0
setuptools 39.0.1
simplejson 3.13.2
six 1.11.0
Sphinx 1.6.7
ssh-import-id 5.7
system-service 0.3
systemd-python 234
Twisted 17.9.0
ubuntu-drivers-common 0.0.0
ufw 0.36
unattended-upgrades 0.1
unity-scope-calculator 0.1
unity-scope-chromiumbookmarks 0.1
unity-scope-colourlovers 0.1
unity-scope-devhelp 0.1
unity-scope-firefoxbookmarks 0.1
unity-scope-manpages 0.1
unity-scope-openclipart 0.1
unity-scope-texdoc 0.1
unity-scope-tomboy 0.1
unity-scope-virtualbox 0.1
unity-scope-yelp 0.1
unity-scope-zotero 0.1
urllib3 1.22
usb-creator 0.3.3
virtualenv 15.1.0
wadllib 1.3.2
webencodings 0.5
wheel 0.30.0
xdiagnose 3.8.8
xkit 0.0.0
XlsxWriter 0.9.6
zope.interface 4.3.2
+ pip list
/tmp/jenkins13657091091063063906.sh: 6: /tmp/jenkins13657091091063063906.sh: pip: not found
Build step 'Execute shell' marked build as failure
[Set GitHub commit status (universal)] ERROR on repos [GHRepository@4c67f2ec[nodeId=MDEwOlJlcG9zaXRvcnk5OTU3NjY3,description=OpenCOR is a cross-platform modelling environment, which can be used to organise, edit, simulate and analyse CellML files.,homepage=https://opencor.ws/,name=opencor,fork=false,archived=false,size=176097,milestones={},language=C++,commits={},source=<null>,parent=<null>,isTemplate=<null>,url=https://api.github.com/repos/opencor/opencor,id=9957667,nodeId=<null>,createdAt=2013-05-09T11:07:58Z,updatedAt=2020-10-11T23:37:46Z]] (sha:3b6e67a) with context:OpenCOR_Linux/Slave=Ubuntu_16.04_bioeng49
Setting commit status on GitHub for https://github.com/opencor/opencor/commit/3b6e67a4255b0375b5c98e30c46d82ab0468d4b9
Finished: FAILURE
![[Jenkins]](/jenkins/static/6321ab2b/images/svgs/logo.svg){kind=logo}
