Started by GitHub push by KarinLundengard
Running as SYSTEM
Building remotely on Ubuntu_16.04_bioeng49 (buildslave Testing) in workspace /home/cmiss/Jenkins/workspace/PhysiomeJournalSite
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/Physiome/journal-website # timeout=10
Fetching upstream changes from https://github.com/Physiome/journal-website
> git --version # timeout=10
> git fetch --tags --progress -- https://github.com/Physiome/journal-website +refs/heads/*:refs/remotes/origin/* # timeout=10
> git rev-parse refs/remotes/origin/master^{commit} # timeout=10
> git rev-parse refs/remotes/origin/origin/master^{commit} # timeout=10
Checking out Revision 2fc8a900d804d085cefb109008bbcfc4e271201f (refs/remotes/origin/master)
> git config core.sparsecheckout # timeout=10
> git checkout -f 2fc8a900d804d085cefb109008bbcfc4e271201f # timeout=10
Commit message: "Merge pull request #43 from Physiome/journaldev"
> git rev-list --no-walk c61813a9aa213b2381dd75cbf326ffb89f3b722d # timeout=10
[PhysiomeJournalSite] $ /usr/bin/python2.7 /home/cmiss/Jenkins/shiningpanda/jobs/1d46dbd3/virtualenv.py /home/cmiss/Jenkins/shiningpanda/jobs/1d46dbd3/virtualenvs/d41d8cd9
New python executable in /home/cmiss/Jenkins/shiningpanda/jobs/1d46dbd3/virtualenvs/d41d8cd9/bin/python2.7
Also creating executable in /home/cmiss/Jenkins/shiningpanda/jobs/1d46dbd3/virtualenvs/d41d8cd9/bin/python
Installing setuptools, pip, wheel...done.
[PhysiomeJournalSite] $ /bin/sh -xe /tmp/shiningpanda13564929770974957363.sh
+ make deps
pip install -r py-requirements.txt
DEPRECATION: Python 2.7 reached the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 is no longer maintained. pip 21.0 will drop support for Python 2.7 in January 2021. More details about Python 2 support in pip, can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support
Collecting pelican>3.6
Using cached pelican-4.2.0-py2.py3-none-any.whl (258 kB)
Collecting markdown
Using cached Markdown-3.1.1-py2.py3-none-any.whl (87 kB)
Collecting six>=1.4
Using cached six-1.14.0-py2.py3-none-any.whl (10 kB)
Processing /home/cmiss/.cache/pip/wheels/68/1c/e0/44629d259095aa5f4af96d3c4638f46998e4c5b9b02c1cad3f/feedgenerator-1.9.1-py2-none-any.whl
Processing /home/cmiss/.cache/pip/wheels/92/a0/00/8690a57883956a301d91cf4ec999cc0b258b01e3f548f86e89/blinker-1.4-cp27-none-any.whl
Collecting unidecode
Using cached Unidecode-1.1.1-py2.py3-none-any.whl (238 kB)
Collecting python-dateutil
Using cached python_dateutil-2.8.1-py2.py3-none-any.whl (227 kB)
Collecting pytz>=0a
Using cached pytz-2020.1-py2.py3-none-any.whl (510 kB)
Collecting docutils
Using cached docutils-0.16-py2.py3-none-any.whl (548 kB)
Collecting jinja2>=2.7
Using cached Jinja2-2.11.2-py2.py3-none-any.whl (125 kB)
Collecting pygments
Using cached Pygments-2.5.2-py2.py3-none-any.whl (896 kB)
Requirement already satisfied: setuptools>=36 in /home/cmiss/Jenkins/shiningpanda/jobs/1d46dbd3/virtualenvs/d41d8cd9/lib/python2.7/site-packages (from markdown->-r py-requirements.txt (line 2)) (44.1.0)
Collecting MarkupSafe>=0.23
Using cached MarkupSafe-1.1.1-cp27-cp27mu-manylinux1_x86_64.whl (24 kB)
Installing collected packages: six, pytz, feedgenerator, blinker, unidecode, python-dateutil, docutils, MarkupSafe, jinja2, pygments, pelican, markdown
Successfully installed MarkupSafe-1.1.1 blinker-1.4 docutils-0.16 feedgenerator-1.9.1 jinja2-2.11.2 markdown-3.1.1 pelican-4.2.0 pygments-2.5.2 python-dateutil-2.8.1 pytz-2020.1 six-1.14.0 unidecode-1.1.1
+ make html
pelican /home/cmiss/Jenkins/workspace/PhysiomeJournalSite/content -o /home/cmiss/Jenkins/workspace/PhysiomeJournalSite/output -s /home/cmiss/Jenkins/workspace/PhysiomeJournalSite/pelicanconf.py
Done: Processed 2 articles, 0 drafts, 7 pages, 0 hidden pages and 0 draft pages in 1.20 seconds.
+ scp -v -2 -r -o GlobalKnownHostsFile=**** -i **** output/about.html output/archive-descriptions output/archives.html output/articles output/articles.html output/author output/authors.html output/categories.html output/data output/editorial-board.html output/index.html output/instructions-to-authors.html output/models output/pdfs output/physiome-project.html output/pmr.html output/tags.html output/testing.html output/theme pj-site@abiwebsrv02.bioeng.auckland.ac.nz:/home/pj-site/journal.physiomeproject.org/
Executing: program /usr/bin/ssh host abiwebsrv02.bioeng.auckland.ac.nz, user pj-site, command scp -v -r -d -t /home/pj-site/journal.physiomeproject.org/
OpenSSH_7.6p1 Ubuntu-4ubuntu0.3, OpenSSL 1.0.2n 7 Dec 2017
debug1: Reading configuration data /etc/ssh/ssh_config
debug1: /etc/ssh/ssh_config line 19: Applying options for *
debug1: Connecting to abiwebsrv02.bioeng.auckland.ac.nz [130.216.4.34] port 22.
debug1: Connection established.
debug1: key_load_public: No such file or directory
debug1: identity file **** type -1
debug1: key_load_public: No such file or directory
debug1: identity file ****-cert type -1
debug1: Local version string SSH-2.0-OpenSSH_7.6p1 Ubuntu-4ubuntu0.3
debug1: Remote protocol version 2.0, remote software version OpenSSH_7.2p2 Ubuntu-4ubuntu2.8
debug1: match: OpenSSH_7.2p2 Ubuntu-4ubuntu2.8 pat OpenSSH* compat 0x04000000
debug1: Authenticating to abiwebsrv02.bioeng.auckland.ac.nz:22 as 'pj-site'
debug1: SSH2_MSG_KEXINIT sent
debug1: SSH2_MSG_KEXINIT received
debug1: kex: algorithm: curve25519-sha256@libssh.org
debug1: kex: host key algorithm: ecdsa-sha2-nistp256
debug1: kex: server->client cipher: chacha20-poly1305@openssh.com MAC: <implicit> compression: none
debug1: kex: client->server cipher: chacha20-poly1305@openssh.com MAC: <implicit> compression: none
debug1: expecting SSH2_MSG_KEX_ECDH_REPLY
debug1: Server host key: ecdsa-sha2-nistp256 SHA256:nrl+uVNnKBIgl3yLEOD5DNhwRjwUUYwcQfwVtvox6as
debug1: Host 'abiwebsrv02.bioeng.auckland.ac.nz' is known and matches the ECDSA host key.
debug1: Found key in /home/cmiss/.ssh/known_hosts:9
debug1: rekey after 134217728 blocks
debug1: SSH2_MSG_NEWKEYS sent
debug1: expecting SSH2_MSG_NEWKEYS
debug1: SSH2_MSG_NEWKEYS received
debug1: rekey after 134217728 blocks
debug1: SSH2_MSG_EXT_INFO received
debug1: kex_input_ext_info: server-sig-algs=<rsa-sha2-256,rsa-sha2-512>
debug1: SSH2_MSG_SERVICE_ACCEPT received
debug1: Authentications that can continue: publickey,password
debug1: Next authentication method: publickey
debug1: Trying private key: ****
debug1: Authentication succeeded (publickey).
Authenticated to abiwebsrv02.bioeng.auckland.ac.nz ([130.216.4.34]:22).
debug1: channel 0: new [client-session]
debug1: Requesting no-more-sessions@openssh.com
debug1: Entering interactive session.
debug1: pledge: network
debug1: client_input_global_request: rtype hostkeys-00@openssh.com want_reply 0
debug1: Sending environment.
debug1: Sending env LANG = en_NZ.UTF-8
debug1: Sending command: scp -v -r -d -t /home/pj-site/journal.physiomeproject.org/
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Sink: E
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debug1: client_input_channel_req: channel 0 rtype exit-status reply 0
debug1: channel 0: free: client-session, nchannels 1
debug1: fd 0 clearing O_NONBLOCK
debug1: fd 1 clearing O_NONBLOCK
debug1: fd 2 clearing O_NONBLOCK
Transferred: sent 24148296, received 45008 bytes, in 2.1 seconds
Bytes per second: sent 11612012.9, received 21642.7
debug1: Exit status 0
Finished: SUCCESS