simple	09-Jul-2018 11:43:03	Build Clowder - extractors-msc - Default Job #37 (CATS-MSC-JOB1-37) started building on agent buildserver-3.os.ncsa.edu
simple	09-Jul-2018 11:43:03	Remote agent on host buildserver-3.os.ncsa.edu
simple	09-Jul-2018 11:43:03	Build working directory is /home/bamboo/bamboo-agent-home/xml-data/build-dir/CATS-MSC-JOB1
simple	09-Jul-2018 11:43:03	Executing build Clowder - extractors-msc - Default Job #37 (CATS-MSC-JOB1-37)
simple	09-Jul-2018 11:43:03	Starting task 'Checkout Default Repository' of type 'com.atlassian.bamboo.plugins.vcs:task.vcs.checkout'
simple	09-Jul-2018 11:43:03	Checking out into /home/bamboo/bamboo-agent-home/xml-data/build-dir/CATS-MSC-JOB1
simple	09-Jul-2018 11:43:03	Updating source code to revision: 6aaab3692bc88bb1c0016521723c45399615c5f2
simple	09-Jul-2018 11:43:03	Creating local git repository in '/home/bamboo/bamboo-agent-home/xml-data/build-dir/CATS-MSC-JOB1/.git'.
simple	09-Jul-2018 11:43:03	Initialized empty Git repository in /home/bamboo/bamboo-agent-home/xml-data/build-dir/CATS-MSC-JOB1/.git/
simple	09-Jul-2018 11:43:03	Fetching 'refs/heads/master' from 'ssh://git@opensource.ncsa.illinois.edu:7999/cats/extractors-msc.git'. Will try to do a shallow fetch.
simple	09-Jul-2018 11:43:03	Warning: Permanently added '[127.0.0.1]:45507' (RSA) to the list of known hosts.
simple	09-Jul-2018 11:43:05	From ssh://127.0.0.1:45507/cats/extractors-msc
simple	09-Jul-2018 11:43:05	 * [new branch]      master     -> master
simple	09-Jul-2018 11:43:05	 * [new tag]         browndog_v0.2.0 -> browndog_v0.2.0
simple	09-Jul-2018 11:43:05	 * [new tag]         browndog_v0.3.0 -> browndog_v0.3.0
simple	09-Jul-2018 11:43:05	Checking out revision 6aaab3692bc88bb1c0016521723c45399615c5f2.
simple	09-Jul-2018 11:43:05	Already on 'master'
simple	09-Jul-2018 11:43:05	Updated source code to revision: 6aaab3692bc88bb1c0016521723c45399615c5f2
simple	09-Jul-2018 11:43:05	Finished task 'Checkout Default Repository' with result: Success
simple	09-Jul-2018 11:43:05	Running pre-build action: VCS Version Collector
simple	09-Jul-2018 11:43:05	Starting task 'docker build' of type 'com.atlassian.bamboo.plugins.scripttask:task.builder.script'
command	09-Jul-2018 11:43:05	Beginning to execute external process for build 'Clowder - extractors-msc - Default Job #37 (CATS-MSC-JOB1-37)'\n ... running command line: \n/bin/sh docker.sh\n ... in: /home/bamboo/bamboo-agent-home/xml-data/build-dir/CATS-MSC-JOB1\n ... using extra environment variables: \nbamboo_planRepository_1_branch=master\nbamboo_capability_system_builder_command_npm_6=/home/bamboo/node-v6.9.1/bin/npm\nbamboo_capability_system_builder_command_buckminster_4_3=/home/bamboo/buckminster-4.3/buckminster\nbamboo_capability_system_builder_node_Node_js_v6_9_1=/home/bamboo/node-v6.9.1/bin/node\nbamboo_dependency_parent_0=CATS-PYC2-72\nbamboo_capability_system_builder_command_buckminster_4_2=/home/bamboo/buckminster-4.2/buckminster\nbamboo_dependency_parent_total=1\nbamboo_planRepository_1_branchDisplayName=master\nbamboo_repository_revision_number=6aaab3692bc88bb1c0016521723c45399615c5f2\nbamboo_resultsUrl=https://opensource.ncsa.illinois.edu/bamboo/browse/CATS-MSC-JOB1-37\nbamboo_repository_127172627_branch_name=master\nbamboo_repository_127172627_git_branch=master\nbamboo_capability_system_builder_command_sphinx=/usr/bin/sphinx-build\nbamboo_build_working_directory=/home/bamboo/bamboo-agent-home/xml-data/build-dir/CATS-MSC-JOB1\nbamboo_planRepository_1_name=extractors-msc\nbamboo_buildKey=CATS-MSC-JOB1\nbamboo_capability_system_os=linux\nbamboo_shortPlanName=extractors-msc\nbamboo_planRepository_name=extractors-msc\nbamboo_repository_127172627_git_username=\nbamboo_buildNumber=37\nbamboo_shortJobName=Default Job\nbamboo_buildResultsUrl=https://opensource.ncsa.illinois.edu/bamboo/browse/CATS-MSC-JOB1-37\nbamboo_planRepository_repositoryUrl=ssh://git@opensource.ncsa.illinois.edu:7999/cats/extractors-msc.git\nbamboo_agentId=143032321\nbamboo_planName=Clowder - extractors-msc\nbamboo_repository_127172627_revision_number=6aaab3692bc88bb1c0016521723c45399615c5f2\nbamboo_shortPlanKey=MSC\nbamboo_capability_system_builder_command_sbt_0_13=/home/bamboo/sbt-0.13.2/bin/sbt\nbamboo_capability_system_builder_node_Node_js_v0_10_28=/home/bamboo/node-v0.10.28/bin/node\nbamboo_shortJobKey=JOB1\nbamboo_planRepository_revision=6aaab3692bc88bb1c0016521723c45399615c5f2\nbamboo_buildTimeStamp=2018-07-09T11:08:20.343-05:00\nbamboo_repository_previous_revision_number=6aaab3692bc88bb1c0016521723c45399615c5f2\nbamboo_capability_system_builder_command_npm=/home/bamboo/node-v0.10.28/bin/npm\nbamboo_capability_system_builder_mvn2_Maven_2=/home/bamboo/apache-maven-2.2.1\nbamboo_planRepository_previousRevision=6aaab3692bc88bb1c0016521723c45399615c5f2\nbamboo_repository_git_branch=master\nbamboo_buildResultKey=CATS-MSC-JOB1-37\nbamboo_repository_branch_name=master\nbamboo_buildPlanName=Clowder - extractors-msc - Default Job\nbamboo_planRepository_1_revision=6aaab3692bc88bb1c0016521723c45399615c5f2\nbamboo_capability_system_builder_command_python3=/usr/bin/python3\nbamboo_repository_name=extractors-msc\nbamboo_buildFailed=false\nbamboo_capability_system_docker_executable=/usr/bin/docker\nbamboo_capability_system_builder_command_grunt=/home/bamboo/node-v0.10.28/bin/grunt\nbamboo_planRepository_branch=master\nbamboo_agentWorkingDirectory=/home/bamboo/bamboo-agent-home/xml-data/build-dir\nbamboo_capability_system_git_executable=/usr/bin/git\nbamboo_repository_git_username=\nbamboo_planRepository_1_previousRevision=6aaab3692bc88bb1c0016521723c45399615c5f2\nbamboo_capability_system_builder_sbt_SBT_0_13_13=/home/bamboo/sbt-0.13.13\nbamboo_repository_127172627_name=extractors-msc\nbamboo_planRepository_branchDisplayName=master\nbamboo_capability_system_builder_command_phantomjs=/home/bamboo/phantomjs-1.9.8/bin/phantomjs\nbamboo_planRepository_1_type=bbserver\nbamboo_planRepository_branchName=master\nbamboo_capability_system_builder_command_python2_7=/usr/bin/python2.7\nbamboo_capability_system_hostname=buildserver-1\nbamboo_capability_system_jdk_JDK=/home/bamboo/jdk1.8.0_66\nbamboo_capability_system_software_mongo=/usr/bin/mongo\nbamboo_plan_storageTag=plan-126976035\nbamboo_hg_cache_directory=/home/bamboo/bamboo-agent-home/xml-data/build-dir/_hg-repositories-cache\nbamboo_capability_system_builder_command_casperjs=/home/bamboo/node-v0.10.28/bin/casperjs\nbamboo_capability_system_software_rabbitmq=/usr/sbin/rabbitmqctl\nbamboo_capability_system_jdk_JDK_1_8_0_66=/home/bamboo/jdk1.8.0_66\nbamboo_planRepository_1_username=\nbamboo_planRepository_type=bbserver\nbamboo_git_cache_directory=/home/bamboo/bamboo-agent-home/xml-data/build-dir/_git-repositories-cache\nbamboo_repository_git_repositoryUrl=ssh://git@opensource.ncsa.illinois.edu:7999/cats/extractors-msc.git\nbamboo_repository_127172627_git_repositoryUrl=ssh://git@opensource.ncsa.illinois.edu:7999/cats/extractors-msc.git\nbamboo_capability_system_builder_node_Node_js=/home/bamboo/node-v0.10.28/bin/node\nbamboo_capability_system_builder_ant_Ant=/home/bamboo/apache-ant-1.9.4\nbamboo_capability_system_builder_mvn3_Maven_3=/home/bamboo/apache-maven-3.3.9\nbamboo_tmp_directory=/home/bamboo/bamboo-agent-home/temp\nbamboo_working_directory=/home/bamboo/bamboo-agent-home/xml-data/build-dir/CATS-MSC-JOB1\nbamboo_planKey=CATS-MSC\nbamboo_planRepository_1_repositoryUrl=ssh://git@opensource.ncsa.illinois.edu:7999/cats/extractors-msc.git\nbamboo_planRepository_username=\nbamboo_capability_system_jdk_JDK_1_8=/home/bamboo/jdk1.8.0_66\nbamboo_capability_system_jdk_JDK_1_6=/home/bamboo/jdk1.6.0_41\nbamboo_capability_system_builder_command_mkcrx=/home/bamboo/mkcrx/mkcrx.sh\nbamboo_capability_system_jdk_JDK_1_7=/home/bamboo/jdk1.7.0_60\nbamboo_repository_127172627_previous_revision_number=6aaab3692bc88bb1c0016521723c45399615c5f2\nbamboo_planRepository_1_branchName=master\n
build	09-Jul-2018 11:43:05	Sending build context to Docker daemon  2.284MB
build	09-Jul-2018 11:43:05	
build	09-Jul-2018 11:43:05	Step 1/11 : FROM clowder/pyclowder:1
build	09-Jul-2018 11:43:05	 ---> d1a9e970ed30
build	09-Jul-2018 11:43:05	Step 2/11 : MAINTAINER Rob Kooper <kooper@illinois.edu>
build	09-Jul-2018 11:43:06	 ---> Running in f003968a561e
build	09-Jul-2018 11:43:07	Removing intermediate container f003968a561e
build	09-Jul-2018 11:43:07	 ---> 0735a366296b
build	09-Jul-2018 11:43:07	Step 3/11 : VOLUME /matlab
build	09-Jul-2018 11:43:07	 ---> Running in 56688d08e797
build	09-Jul-2018 11:43:08	Removing intermediate container 56688d08e797
build	09-Jul-2018 11:43:08	 ---> 90eed921a5e4
build	09-Jul-2018 11:43:08	Step 4/11 : ENV RABBITMQ_URI=""     RABBITMQ_EXCHANGE="clowder"     RABBITMQ_VHOST="%2F"     RABBITMQ_QUEUE="ncsa.msc.diagnosis"     MATLAB_BINARY="/matlab/bin/matlab"     MAIN_SCRIPT="diagnosis.py"
build	09-Jul-2018 11:43:08	 ---> Running in 8bec4db7f220
build	09-Jul-2018 11:43:09	Removing intermediate container 8bec4db7f220
build	09-Jul-2018 11:43:09	 ---> 8d7c509deb52
build	09-Jul-2018 11:43:09	Step 5/11 : USER root
build	09-Jul-2018 11:43:10	 ---> Running in cf9704872335
build	09-Jul-2018 11:43:10	Removing intermediate container cf9704872335
build	09-Jul-2018 11:43:10	 ---> 5215e14f7ea8
build	09-Jul-2018 11:43:10	Step 6/11 : RUN pip install --upgrade pip
build	09-Jul-2018 11:43:10	 ---> Running in 57916d443016
build	09-Jul-2018 11:43:12	Collecting pip
build	09-Jul-2018 11:43:12	  Downloading https://files.pythonhosted.org/packages/0f/74/ecd13431bcc456ed390b44c8a6e917c1820365cbebcb6a8974d1cd045ab4/pip-10.0.1-py2.py3-none-any.whl (1.3MB)
build	09-Jul-2018 11:43:13	Installing collected packages: pip
build	09-Jul-2018 11:43:13	  Found existing installation: pip 8.1.1
build	09-Jul-2018 11:43:13	    Not uninstalling pip at /usr/lib/python2.7/dist-packages, outside environment /usr
build	09-Jul-2018 11:43:13	Successfully installed pip-10.0.1
build	09-Jul-2018 11:43:16	Removing intermediate container 57916d443016
build	09-Jul-2018 11:43:16	 ---> 31d40bae1396
build	09-Jul-2018 11:43:16	Step 7/11 : RUN apt-get -qq -y update && apt-get -y install         libxext6         libxmu6         libxt6         wget     && mkdir -p /matlab     && rm -rf /var/lib/apt/lists/*
build	09-Jul-2018 11:43:17	 ---> Running in a7eefa1e7065
build	09-Jul-2018 11:43:22	Reading package lists...
build	09-Jul-2018 11:43:22	Building dependency tree...
build	09-Jul-2018 11:43:22	Reading state information...
build	09-Jul-2018 11:43:23	The following additional packages will be installed:
build	09-Jul-2018 11:43:23	  libice6 libidn11 libsm6 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6
build	09-Jul-2018 11:43:23	  x11-common
build	09-Jul-2018 11:43:23	The following NEW packages will be installed:
build	09-Jul-2018 11:43:23	  libice6 libidn11 libsm6 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6
build	09-Jul-2018 11:43:23	  libxext6 libxmu6 libxt6 wget x11-common
build	09-Jul-2018 11:43:23	0 upgraded, 13 newly installed, 0 to remove and 47 not upgraded.
build	09-Jul-2018 11:43:23	Need to get 1402 kB of archives.
build	09-Jul-2018 11:43:23	After this operation, 5596 kB of additional disk space will be used.
build	09-Jul-2018 11:43:23	Get:1 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxau6 amd64 1:1.0.8-1 [8376 B]
build	09-Jul-2018 11:43:23	Get:2 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxdmcp6 amd64 1:1.1.2-1.1 [11.0 kB]
build	09-Jul-2018 11:43:23	Get:3 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxcb1 amd64 1.11.1-1ubuntu1 [40.0 kB]
build	09-Jul-2018 11:43:23	Get:4 http://archive.ubuntu.com/ubuntu xenial/main amd64 libx11-data all 2:1.6.3-1ubuntu2 [113 kB]
build	09-Jul-2018 11:43:23	Get:5 http://archive.ubuntu.com/ubuntu xenial/main amd64 libx11-6 amd64 2:1.6.3-1ubuntu2 [571 kB]
build	09-Jul-2018 11:43:23	Get:6 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxext6 amd64 2:1.3.3-1 [29.4 kB]
build	09-Jul-2018 11:43:23	Get:7 http://archive.ubuntu.com/ubuntu xenial/main amd64 x11-common all 1:7.7+13ubuntu3 [22.4 kB]
build	09-Jul-2018 11:43:23	Get:8 http://archive.ubuntu.com/ubuntu xenial/main amd64 libice6 amd64 2:1.0.9-1 [39.2 kB]
build	09-Jul-2018 11:43:23	Get:9 http://archive.ubuntu.com/ubuntu xenial/main amd64 libsm6 amd64 2:1.2.2-1 [15.8 kB]
build	09-Jul-2018 11:43:23	Get:10 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libidn11 amd64 1.32-3ubuntu1.2 [46.5 kB]
build	09-Jul-2018 11:43:23	Get:11 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 wget amd64 1.17.1-1ubuntu1.4 [299 kB]
build	09-Jul-2018 11:43:23	Get:12 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxt6 amd64 1:1.1.5-0ubuntu1 [160 kB]
build	09-Jul-2018 11:43:23	Get:13 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxmu6 amd64 2:1.1.2-2 [46.0 kB]
build	09-Jul-2018 11:43:24	debconf: delaying package configuration, since apt-utils is not installed
build	09-Jul-2018 11:43:24	Fetched 1402 kB in 0s (1583 kB/s)
build	09-Jul-2018 11:43:24	Selecting previously unselected package libxau6:amd64.
build	09-Jul-2018 11:43:24	(Reading database ... 
build	09-Jul-2018 11:43:24	(Reading database ... 5%
build	09-Jul-2018 11:43:24	(Reading database ... 10%
build	09-Jul-2018 11:43:24	(Reading database ... 15%
build	09-Jul-2018 11:43:24	(Reading database ... 20%
build	09-Jul-2018 11:43:24	(Reading database ... 25%
build	09-Jul-2018 11:43:24	(Reading database ... 30%
build	09-Jul-2018 11:43:24	(Reading database ... 35%
build	09-Jul-2018 11:43:24	(Reading database ... 40%
build	09-Jul-2018 11:43:24	(Reading database ... 45%
build	09-Jul-2018 11:43:24	(Reading database ... 50%
build	09-Jul-2018 11:43:24	(Reading database ... 55%
build	09-Jul-2018 11:43:24	(Reading database ... 60%
build	09-Jul-2018 11:43:24	(Reading database ... 65%
build	09-Jul-2018 11:43:24	(Reading database ... 70%
build	09-Jul-2018 11:43:24	(Reading database ... 75%
build	09-Jul-2018 11:43:24	(Reading database ... 80%
build	09-Jul-2018 11:43:24	(Reading database ... 85%
build	09-Jul-2018 11:43:24	(Reading database ... 90%
build	09-Jul-2018 11:43:24	(Reading database ... 95%
build	09-Jul-2018 11:43:24	(Reading database ... 100%
build	09-Jul-2018 11:43:24	(Reading database ... 6101 files and directories currently installed.)
build	09-Jul-2018 11:43:24	Preparing to unpack .../libxau6_1%3a1.0.8-1_amd64.deb ...
build	09-Jul-2018 11:43:24	Unpacking libxau6:amd64 (1:1.0.8-1) ...
build	09-Jul-2018 11:43:25	Selecting previously unselected package libxdmcp6:amd64.
build	09-Jul-2018 11:43:25	Preparing to unpack .../libxdmcp6_1%3a1.1.2-1.1_amd64.deb ...
build	09-Jul-2018 11:43:25	Unpacking libxdmcp6:amd64 (1:1.1.2-1.1) ...
build	09-Jul-2018 11:43:26	Selecting previously unselected package libxcb1:amd64.
build	09-Jul-2018 11:43:26	Preparing to unpack .../libxcb1_1.11.1-1ubuntu1_amd64.deb ...
build	09-Jul-2018 11:43:26	Unpacking libxcb1:amd64 (1.11.1-1ubuntu1) ...
build	09-Jul-2018 11:43:26	Selecting previously unselected package libx11-data.
build	09-Jul-2018 11:43:26	Preparing to unpack .../libx11-data_2%3a1.6.3-1ubuntu2_all.deb ...
build	09-Jul-2018 11:43:26	Unpacking libx11-data (2:1.6.3-1ubuntu2) ...
build	09-Jul-2018 11:43:27	Selecting previously unselected package libx11-6:amd64.
build	09-Jul-2018 11:43:27	Preparing to unpack .../libx11-6_2%3a1.6.3-1ubuntu2_amd64.deb ...
build	09-Jul-2018 11:43:27	Unpacking libx11-6:amd64 (2:1.6.3-1ubuntu2) ...
build	09-Jul-2018 11:43:28	Selecting previously unselected package libxext6:amd64.
build	09-Jul-2018 11:43:28	Preparing to unpack .../libxext6_2%3a1.3.3-1_amd64.deb ...
build	09-Jul-2018 11:43:28	Unpacking libxext6:amd64 (2:1.3.3-1) ...
build	09-Jul-2018 11:43:28	Selecting previously unselected package x11-common.
build	09-Jul-2018 11:43:28	Preparing to unpack .../x11-common_1%3a7.7+13ubuntu3_all.deb ...
build	09-Jul-2018 11:43:28	Unpacking x11-common (1:7.7+13ubuntu3) ...
build	09-Jul-2018 11:43:29	Selecting previously unselected package libice6:amd64.
build	09-Jul-2018 11:43:29	Preparing to unpack .../libice6_2%3a1.0.9-1_amd64.deb ...
build	09-Jul-2018 11:43:29	Unpacking libice6:amd64 (2:1.0.9-1) ...
build	09-Jul-2018 11:43:30	Selecting previously unselected package libsm6:amd64.
build	09-Jul-2018 11:43:30	Preparing to unpack .../libsm6_2%3a1.2.2-1_amd64.deb ...
build	09-Jul-2018 11:43:30	Unpacking libsm6:amd64 (2:1.2.2-1) ...
build	09-Jul-2018 11:43:31	Selecting previously unselected package libidn11:amd64.
build	09-Jul-2018 11:43:31	Preparing to unpack .../libidn11_1.32-3ubuntu1.2_amd64.deb ...
build	09-Jul-2018 11:43:31	Unpacking libidn11:amd64 (1.32-3ubuntu1.2) ...
build	09-Jul-2018 11:43:31	Selecting previously unselected package wget.
build	09-Jul-2018 11:43:31	Preparing to unpack .../wget_1.17.1-1ubuntu1.4_amd64.deb ...
build	09-Jul-2018 11:43:31	Unpacking wget (1.17.1-1ubuntu1.4) ...
build	09-Jul-2018 11:43:32	Selecting previously unselected package libxt6:amd64.
build	09-Jul-2018 11:43:32	Preparing to unpack .../libxt6_1%3a1.1.5-0ubuntu1_amd64.deb ...
build	09-Jul-2018 11:43:32	Unpacking libxt6:amd64 (1:1.1.5-0ubuntu1) ...
build	09-Jul-2018 11:43:32	Selecting previously unselected package libxmu6:amd64.
build	09-Jul-2018 11:43:32	Preparing to unpack .../libxmu6_2%3a1.1.2-2_amd64.deb ...
build	09-Jul-2018 11:43:32	Unpacking libxmu6:amd64 (2:1.1.2-2) ...
build	09-Jul-2018 11:43:32	Processing triggers for libc-bin (2.23-0ubuntu9) ...
build	09-Jul-2018 11:43:32	Processing triggers for systemd (229-4ubuntu19) ...
build	09-Jul-2018 11:43:32	Setting up libxau6:amd64 (1:1.0.8-1) ...
build	09-Jul-2018 11:43:33	Setting up libxdmcp6:amd64 (1:1.1.2-1.1) ...
build	09-Jul-2018 11:43:33	Setting up libxcb1:amd64 (1.11.1-1ubuntu1) ...
build	09-Jul-2018 11:43:33	Setting up libx11-data (2:1.6.3-1ubuntu2) ...
build	09-Jul-2018 11:43:33	Setting up libx11-6:amd64 (2:1.6.3-1ubuntu2) ...
build	09-Jul-2018 11:43:33	Setting up libxext6:amd64 (2:1.3.3-1) ...
build	09-Jul-2018 11:43:33	Setting up x11-common (1:7.7+13ubuntu3) ...
build	09-Jul-2018 11:43:34	debconf: unable to initialize frontend: Dialog
build	09-Jul-2018 11:43:34	debconf: (TERM is not set, so the dialog frontend is not usable.)
build	09-Jul-2018 11:43:34	debconf: falling back to frontend: Readline
build	09-Jul-2018 11:43:34	debconf: unable to initialize frontend: Readline
build	09-Jul-2018 11:43:34	debconf: (Can't locate Term/ReadLine.pm in @INC (you may need to install the Term::ReadLine module) (@INC contains: /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.22.1 /usr/local/share/perl/5.22.1 /usr/lib/x86_64-linux-gnu/perl5/5.22 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl/5.22 /usr/share/perl/5.22 /usr/local/lib/site_perl /usr/lib/x86_64-linux-gnu/perl-base .) at /usr/share/perl5/Debconf/FrontEnd/Readline.pm line 7.)
build	09-Jul-2018 11:43:34	debconf: falling back to frontend: Teletype
build	09-Jul-2018 11:43:34	update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
build	09-Jul-2018 11:43:34	invoke-rc.d: could not determine current runlevel
build	09-Jul-2018 11:43:34	invoke-rc.d: policy-rc.d denied execution of start.
build	09-Jul-2018 11:43:34	Setting up libice6:amd64 (2:1.0.9-1) ...
build	09-Jul-2018 11:43:35	Setting up libsm6:amd64 (2:1.2.2-1) ...
build	09-Jul-2018 11:43:35	Setting up libidn11:amd64 (1.32-3ubuntu1.2) ...
build	09-Jul-2018 11:43:36	Setting up wget (1.17.1-1ubuntu1.4) ...
build	09-Jul-2018 11:43:36	Setting up libxt6:amd64 (1:1.1.5-0ubuntu1) ...
build	09-Jul-2018 11:43:36	Setting up libxmu6:amd64 (2:1.1.2-2) ...
build	09-Jul-2018 11:43:36	Processing triggers for libc-bin (2.23-0ubuntu9) ...
build	09-Jul-2018 11:43:36	Processing triggers for systemd (229-4ubuntu19) ...
build	09-Jul-2018 11:43:38	Removing intermediate container a7eefa1e7065
build	09-Jul-2018 11:43:38	 ---> 96500098e343
build	09-Jul-2018 11:43:38	Step 8/11 : USER clowder
build	09-Jul-2018 11:43:38	 ---> Running in 872f0621b96b
build	09-Jul-2018 11:43:38	Removing intermediate container 872f0621b96b
build	09-Jul-2018 11:43:38	 ---> 174b70fb70da
build	09-Jul-2018 11:43:38	Step 9/11 : COPY entrypoint.sh *.py *.m data/*.mat *.json /home/clowder/
build	09-Jul-2018 11:43:40	 ---> e437a5847323
build	09-Jul-2018 11:43:40	Step 10/11 : ENTRYPOINT ["/home/clowder/entrypoint.sh"]
build	09-Jul-2018 11:43:40	 ---> Running in 1a0557b3e283
build	09-Jul-2018 11:43:41	Removing intermediate container 1a0557b3e283
build	09-Jul-2018 11:43:41	 ---> 887aa57dac4d
build	09-Jul-2018 11:43:41	Step 11/11 : CMD ["extractor"]
build	09-Jul-2018 11:43:41	 ---> Running in 928695f15106
build	09-Jul-2018 11:43:42	Removing intermediate container 928695f15106
build	09-Jul-2018 11:43:42	 ---> 4041a19bbfca
build	09-Jul-2018 11:43:42	Successfully built 4041a19bbfca
build	09-Jul-2018 11:43:42	Successfully tagged 19346:latest
build	09-Jul-2018 11:43:42	The push refers to repository [docker.io/clowder/extractors-msc-kidney]
build	09-Jul-2018 11:43:42	a8e04bcb872c: Preparing
build	09-Jul-2018 11:43:42	b23425a35cf3: Preparing
build	09-Jul-2018 11:43:42	0b7b78c692b4: Preparing
build	09-Jul-2018 11:43:42	0cdb02ac1d86: Preparing
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build	09-Jul-2018 11:43:42	ae620432889d: Preparing
build	09-Jul-2018 11:43:42	a2022691bf95: Preparing
build	09-Jul-2018 11:43:42	f96e6b25195f: Waiting
build	09-Jul-2018 11:43:42	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:43:42	59669fcdd5eb: Waiting
build	09-Jul-2018 11:43:42	c56153825175: Waiting
build	09-Jul-2018 11:43:42	ae620432889d: Waiting
build	09-Jul-2018 11:43:42	7f7a065d245a: Waiting
build	09-Jul-2018 11:43:42	a2022691bf95: Waiting
build	09-Jul-2018 11:43:42	f2297bdfc824: Layer already exists
build	09-Jul-2018 11:43:42	0cdb02ac1d86: Layer already exists
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build	09-Jul-2018 11:43:43	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:43:43	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:43:43	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:43:43	c56153825175: Layer already exists
build	09-Jul-2018 11:43:43	ae620432889d: Layer already exists
build	09-Jul-2018 11:43:43	a2022691bf95: Layer already exists
build	09-Jul-2018 11:43:44	a8e04bcb872c: Pushed
build	09-Jul-2018 11:43:45	0b7b78c692b4: Pushed
build	09-Jul-2018 11:43:45	b23425a35cf3: Pushed
build	09-Jul-2018 11:43:47	browndog_v0.2.0: digest: sha256:bd73a8e0bc108c95d4e648bda2176b5a0bbe1e5f95ee31eab634d17d31aacce6 size: 2826
build	09-Jul-2018 11:43:47	The push refers to repository [docker.io/clowder/extractors-msc-kidney]
build	09-Jul-2018 11:43:47	a8e04bcb872c: Preparing
build	09-Jul-2018 11:43:47	b23425a35cf3: Preparing
build	09-Jul-2018 11:43:47	0b7b78c692b4: Preparing
build	09-Jul-2018 11:43:47	0cdb02ac1d86: Preparing
build	09-Jul-2018 11:43:47	f2297bdfc824: Preparing
build	09-Jul-2018 11:43:47	0fbe2bcb1bf9: Preparing
build	09-Jul-2018 11:43:47	59669fcdd5eb: Preparing
build	09-Jul-2018 11:43:47	7f7a065d245a: Preparing
build	09-Jul-2018 11:43:47	f96e6b25195f: Preparing
build	09-Jul-2018 11:43:47	c56153825175: Preparing
build	09-Jul-2018 11:43:47	ae620432889d: Preparing
build	09-Jul-2018 11:43:47	a2022691bf95: Preparing
build	09-Jul-2018 11:43:47	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:43:47	59669fcdd5eb: Waiting
build	09-Jul-2018 11:43:47	7f7a065d245a: Waiting
build	09-Jul-2018 11:43:47	f96e6b25195f: Waiting
build	09-Jul-2018 11:43:47	c56153825175: Waiting
build	09-Jul-2018 11:43:47	ae620432889d: Waiting
build	09-Jul-2018 11:43:47	a2022691bf95: Waiting
build	09-Jul-2018 11:43:48	0cdb02ac1d86: Layer already exists
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build	09-Jul-2018 11:43:48	b23425a35cf3: Layer already exists
build	09-Jul-2018 11:43:48	a8e04bcb872c: Layer already exists
build	09-Jul-2018 11:43:48	f2297bdfc824: Layer already exists
build	09-Jul-2018 11:43:48	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:43:48	0fbe2bcb1bf9: Layer already exists
build	09-Jul-2018 11:43:48	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:43:48	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:43:48	c56153825175: Layer already exists
build	09-Jul-2018 11:43:48	ae620432889d: Layer already exists
build	09-Jul-2018 11:43:48	a2022691bf95: Layer already exists
build	09-Jul-2018 11:43:49	browndog_v0.3.0: digest: sha256:bd73a8e0bc108c95d4e648bda2176b5a0bbe1e5f95ee31eab634d17d31aacce6 size: 2826
build	09-Jul-2018 11:43:49	The push refers to repository [docker.io/clowder/extractors-msc-kidney]
build	09-Jul-2018 11:43:49	a8e04bcb872c: Preparing
build	09-Jul-2018 11:43:49	b23425a35cf3: Preparing
build	09-Jul-2018 11:43:49	0b7b78c692b4: Preparing
build	09-Jul-2018 11:43:49	0cdb02ac1d86: Preparing
build	09-Jul-2018 11:43:49	f2297bdfc824: Preparing
build	09-Jul-2018 11:43:49	0fbe2bcb1bf9: Preparing
build	09-Jul-2018 11:43:49	59669fcdd5eb: Preparing
build	09-Jul-2018 11:43:49	7f7a065d245a: Preparing
build	09-Jul-2018 11:43:49	f96e6b25195f: Preparing
build	09-Jul-2018 11:43:49	c56153825175: Preparing
build	09-Jul-2018 11:43:49	ae620432889d: Preparing
build	09-Jul-2018 11:43:49	a2022691bf95: Preparing
build	09-Jul-2018 11:43:49	59669fcdd5eb: Waiting
build	09-Jul-2018 11:43:49	7f7a065d245a: Waiting
build	09-Jul-2018 11:43:49	f96e6b25195f: Waiting
build	09-Jul-2018 11:43:49	c56153825175: Waiting
build	09-Jul-2018 11:43:49	ae620432889d: Waiting
build	09-Jul-2018 11:43:49	a2022691bf95: Waiting
build	09-Jul-2018 11:43:49	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:43:49	f2297bdfc824: Layer already exists
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build	09-Jul-2018 11:43:49	0b7b78c692b4: Layer already exists
build	09-Jul-2018 11:43:49	59669fcdd5eb: Layer already exists
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build	09-Jul-2018 11:43:50	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:43:50	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:43:50	c56153825175: Layer already exists
build	09-Jul-2018 11:43:50	ae620432889d: Layer already exists
build	09-Jul-2018 11:43:50	a2022691bf95: Layer already exists
build	09-Jul-2018 11:43:50	latest: digest: sha256:bd73a8e0bc108c95d4e648bda2176b5a0bbe1e5f95ee31eab634d17d31aacce6 size: 2826
build	09-Jul-2018 11:43:50	Untagged: 19346:latest
build	09-Jul-2018 11:43:50	Sending build context to Docker daemon  67.07kB
build	09-Jul-2018 11:43:50	
build	09-Jul-2018 11:43:50	Step 1/11 : FROM clowder/pyclowder:1
build	09-Jul-2018 11:43:50	 ---> d1a9e970ed30
build	09-Jul-2018 11:43:50	Step 2/11 : MAINTAINER Yan Zhao <yanzhao3@illinois.edu>
build	09-Jul-2018 11:43:51	 ---> Running in 73eb1f02cbc1
build	09-Jul-2018 11:43:51	Removing intermediate container 73eb1f02cbc1
build	09-Jul-2018 11:43:51	 ---> ccdf0a6fab71
build	09-Jul-2018 11:43:51	Step 3/11 : ENV RABBITMQ_URI=""     RABBITMQ_EXCHANGE="clowder"     RABBITMQ_VHOST="%2F"     RABBITMQ_QUEUE="ncsa.msc.IsletExtractor"     MONGO_URI=""    DB_USERNAME=""    DB_PASSWORD=""    MAIN_SCRIPT="extractor-Islet.py"
build	09-Jul-2018 11:43:51	 ---> Running in 156b26913310
build	09-Jul-2018 11:43:52	Removing intermediate container 156b26913310
build	09-Jul-2018 11:43:52	 ---> 3ff9a06954fe
build	09-Jul-2018 11:43:52	Step 4/11 : USER root
build	09-Jul-2018 11:43:52	 ---> Running in fb9f5b5a2153
build	09-Jul-2018 11:43:52	Removing intermediate container fb9f5b5a2153
build	09-Jul-2018 11:43:52	 ---> 3247df2795a6
build	09-Jul-2018 11:43:52	Step 5/11 : COPY requirements.txt /home/clowder/
build	09-Jul-2018 11:43:53	 ---> 75e43013cf24
build	09-Jul-2018 11:43:53	Step 6/11 : RUN pip install --upgrade pip
build	09-Jul-2018 11:43:53	 ---> Running in 4b6980a34495
build	09-Jul-2018 11:43:54	Collecting pip
build	09-Jul-2018 11:43:54	  Downloading https://files.pythonhosted.org/packages/0f/74/ecd13431bcc456ed390b44c8a6e917c1820365cbebcb6a8974d1cd045ab4/pip-10.0.1-py2.py3-none-any.whl (1.3MB)
build	09-Jul-2018 11:43:55	Installing collected packages: pip
build	09-Jul-2018 11:43:55	  Found existing installation: pip 8.1.1
build	09-Jul-2018 11:43:55	    Not uninstalling pip at /usr/lib/python2.7/dist-packages, outside environment /usr
build	09-Jul-2018 11:43:55	Successfully installed pip-10.0.1
build	09-Jul-2018 11:43:57	Removing intermediate container 4b6980a34495
build	09-Jul-2018 11:43:57	 ---> 5e8e941701f6
build	09-Jul-2018 11:43:57	Step 7/11 : RUN pip install -r /home/clowder/requirements.txt
build	09-Jul-2018 11:43:57	 ---> Running in 8a291c952c6f
build	09-Jul-2018 11:43:58	Requirement already satisfied: argparse==1.2.1 in /usr/lib/python2.7 (from -r /home/clowder/requirements.txt (line 1)) (1.2.1)
build	09-Jul-2018 11:43:58	Collecting openpyxl==1.6.2 (from -r /home/clowder/requirements.txt (line 2))
build	09-Jul-2018 11:43:58	  Downloading https://files.pythonhosted.org/packages/96/53/3782b6cc03500c0949a7ba9dba0c70da95d63d0ed4a04446123987ff983f/openpyxl-1.6.2.tar.gz (199kB)
build	09-Jul-2018 11:43:59	Collecting pika==0.9.14 (from -r /home/clowder/requirements.txt (line 3))
build	09-Jul-2018 11:43:59	  Downloading https://files.pythonhosted.org/packages/2b/5b/4c5b6eafc63e0985b926267579a1e2534af70df0a45932f0c23fcc5f1b88/pika-0.9.14.tar.gz (72kB)
build	09-Jul-2018 11:43:59	Collecting pymongo==3.2.1 (from -r /home/clowder/requirements.txt (line 4))
build	09-Jul-2018 11:43:59	  Downloading https://files.pythonhosted.org/packages/d7/94/9aa9ddd3e885caa307c0db8af5a1f5d266d3db44e1ae89bd4e14841ab8d0/pymongo-3.2.1.tar.gz (647kB)
build	09-Jul-2018 11:44:00	Collecting pytz==2014.3 (from -r /home/clowder/requirements.txt (line 5))
build	09-Jul-2018 11:44:00	  Downloading https://files.pythonhosted.org/packages/e2/8d/af599c0388f46775c6b039d8b9c4acda2f6ef86787312a35291fff4cb7ca/pytz-2014.3.tar.bz2 (158kB)
build	09-Jul-2018 11:44:00	Collecting requests==2.2.1 (from -r /home/clowder/requirements.txt (line 6))
build	09-Jul-2018 11:44:01	  Downloading https://files.pythonhosted.org/packages/7d/15/6efffc6aee666e1456852c2bf1d483b46bf971a2d509b35a98fc3eae1c60/requests-2.2.1-py2.py3-none-any.whl (625kB)
build	09-Jul-2018 11:44:01	Requirement already satisfied: wsgiref==0.1.2 in /usr/lib/python2.7 (from -r /home/clowder/requirements.txt (line 7)) (0.1.2)
build	09-Jul-2018 11:44:01	Collecting xlrd==0.9.3 (from -r /home/clowder/requirements.txt (line 8))
build	09-Jul-2018 11:44:01	  Downloading https://files.pythonhosted.org/packages/b1/13/6fbcb55fef0b34c70cb3753741eaafc0e91553a1318653587a7d145caf15/xlrd-0.9.3.tar.gz (178kB)
build	09-Jul-2018 11:44:01	Installing collected packages: openpyxl, pika, pymongo, pytz, requests, xlrd
build	09-Jul-2018 11:44:01	  Running setup.py install for openpyxl: started
build	09-Jul-2018 11:44:01	    Running setup.py install for openpyxl: finished with status 'done'
build	09-Jul-2018 11:44:01	  Found existing installation: pika 0.11.0
build	09-Jul-2018 11:44:01	    Uninstalling pika-0.11.0:
build	09-Jul-2018 11:44:04	      Successfully uninstalled pika-0.11.0
build	09-Jul-2018 11:44:04	  Running setup.py install for pika: started
build	09-Jul-2018 11:44:04	    Running setup.py install for pika: finished with status 'done'
build	09-Jul-2018 11:44:04	  Running setup.py install for pymongo: started
build	09-Jul-2018 11:44:04	    Running setup.py install for pymongo: finished with status 'done'
build	09-Jul-2018 11:44:04	  Running setup.py install for pytz: started
build	09-Jul-2018 11:44:05	    Running setup.py install for pytz: finished with status 'done'
build	09-Jul-2018 11:44:05	  Found existing installation: requests 2.18.4
build	09-Jul-2018 11:44:05	    Uninstalling requests-2.18.4:
build	09-Jul-2018 11:44:08	      Successfully uninstalled requests-2.18.4
build	09-Jul-2018 11:44:08	  Running setup.py install for xlrd: started
build	09-Jul-2018 11:44:09	    Running setup.py install for xlrd: finished with status 'done'
build	09-Jul-2018 11:44:09	Successfully installed openpyxl-1.6.2 pika-0.9.14 pymongo-3.2.1 pytz-2014.3 requests-2.2.1 xlrd-0.9.3
build	09-Jul-2018 11:44:10	Removing intermediate container 8a291c952c6f
build	09-Jul-2018 11:44:10	 ---> c529cce602ac
build	09-Jul-2018 11:44:10	Step 8/11 : USER clowder
build	09-Jul-2018 11:44:10	 ---> Running in 1c4927bcdff0
build	09-Jul-2018 11:44:11	Removing intermediate container 1c4927bcdff0
build	09-Jul-2018 11:44:11	 ---> f23e016a70b4
build	09-Jul-2018 11:44:11	Step 9/11 : COPY entrypoint.sh *.py *.json /home/clowder/
build	09-Jul-2018 11:44:12	 ---> c0f5055bd47f
build	09-Jul-2018 11:44:12	Step 10/11 : ENTRYPOINT ["/home/clowder/entrypoint.sh"]
build	09-Jul-2018 11:44:12	 ---> Running in 7de350a1d7f7
build	09-Jul-2018 11:44:13	Removing intermediate container 7de350a1d7f7
build	09-Jul-2018 11:44:13	 ---> 728e5656e83c
build	09-Jul-2018 11:44:13	Step 11/11 : CMD ["extractor"]
build	09-Jul-2018 11:44:13	 ---> Running in 788ed15b5397
build	09-Jul-2018 11:44:14	Removing intermediate container 788ed15b5397
build	09-Jul-2018 11:44:14	 ---> 310e91d921d1
build	09-Jul-2018 11:44:14	Successfully built 310e91d921d1
build	09-Jul-2018 11:44:14	Successfully tagged 19346:latest
build	09-Jul-2018 11:44:14	The push refers to repository [docker.io/clowder/extractors-msc-islet]
build	09-Jul-2018 11:44:14	bc4498ef1792: Preparing
build	09-Jul-2018 11:44:14	c82a5b8ba2f1: Preparing
build	09-Jul-2018 11:44:14	09c2ebbeb78e: Preparing
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build	09-Jul-2018 11:44:14	ae620432889d: Preparing
build	09-Jul-2018 11:44:14	a2022691bf95: Preparing
build	09-Jul-2018 11:44:14	f2297bdfc824: Waiting
build	09-Jul-2018 11:44:14	0fbe2bcb1bf9: Waiting
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build	09-Jul-2018 11:44:14	ae620432889d: Waiting
build	09-Jul-2018 11:44:14	a2022691bf95: Waiting
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build	09-Jul-2018 11:44:15	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:44:16	14a5a4c81a6f: Pushed
build	09-Jul-2018 11:44:16	c56153825175: Layer already exists
build	09-Jul-2018 11:44:16	ae620432889d: Layer already exists
build	09-Jul-2018 11:44:16	a2022691bf95: Layer already exists
build	09-Jul-2018 11:44:16	09c2ebbeb78e: Pushed
build	09-Jul-2018 11:44:17	bc4498ef1792: Pushed
build	09-Jul-2018 11:44:17	c82a5b8ba2f1: Pushed
build	09-Jul-2018 11:44:19	browndog_v0.2.0: digest: sha256:69221eddd0c6ec28c81fe0d1eecf839b8f41f513f6cd4516a165b3920dc02226 size: 3031
build	09-Jul-2018 11:44:20	The push refers to repository [docker.io/clowder/extractors-msc-islet]
build	09-Jul-2018 11:44:20	bc4498ef1792: Preparing
build	09-Jul-2018 11:44:20	c82a5b8ba2f1: Preparing
build	09-Jul-2018 11:44:20	09c2ebbeb78e: Preparing
build	09-Jul-2018 11:44:20	14a5a4c81a6f: Preparing
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build	09-Jul-2018 11:44:20	59669fcdd5eb: Preparing
build	09-Jul-2018 11:44:20	7f7a065d245a: Preparing
build	09-Jul-2018 11:44:20	f96e6b25195f: Preparing
build	09-Jul-2018 11:44:20	c56153825175: Preparing
build	09-Jul-2018 11:44:20	ae620432889d: Preparing
build	09-Jul-2018 11:44:20	a2022691bf95: Preparing
build	09-Jul-2018 11:44:20	f2297bdfc824: Waiting
build	09-Jul-2018 11:44:20	7f7a065d245a: Waiting
build	09-Jul-2018 11:44:20	f96e6b25195f: Waiting
build	09-Jul-2018 11:44:20	c56153825175: Waiting
build	09-Jul-2018 11:44:20	ae620432889d: Waiting
build	09-Jul-2018 11:44:20	a2022691bf95: Waiting
build	09-Jul-2018 11:44:20	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:44:20	59669fcdd5eb: Waiting
build	09-Jul-2018 11:44:20	c82a5b8ba2f1: Layer already exists
build	09-Jul-2018 11:44:20	09c2ebbeb78e: Layer already exists
build	09-Jul-2018 11:44:20	14a5a4c81a6f: Layer already exists
build	09-Jul-2018 11:44:20	0cdb02ac1d86: Layer already exists
build	09-Jul-2018 11:44:20	bc4498ef1792: Layer already exists
build	09-Jul-2018 11:44:20	f2297bdfc824: Layer already exists
build	09-Jul-2018 11:44:20	0fbe2bcb1bf9: Layer already exists
build	09-Jul-2018 11:44:20	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:44:20	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:44:20	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:44:20	c56153825175: Layer already exists
build	09-Jul-2018 11:44:20	ae620432889d: Layer already exists
build	09-Jul-2018 11:44:20	a2022691bf95: Layer already exists
build	09-Jul-2018 11:44:21	browndog_v0.3.0: digest: sha256:69221eddd0c6ec28c81fe0d1eecf839b8f41f513f6cd4516a165b3920dc02226 size: 3031
build	09-Jul-2018 11:44:21	The push refers to repository [docker.io/clowder/extractors-msc-islet]
build	09-Jul-2018 11:44:21	bc4498ef1792: Preparing
build	09-Jul-2018 11:44:21	c82a5b8ba2f1: Preparing
build	09-Jul-2018 11:44:21	09c2ebbeb78e: Preparing
build	09-Jul-2018 11:44:21	14a5a4c81a6f: Preparing
build	09-Jul-2018 11:44:21	0cdb02ac1d86: Preparing
build	09-Jul-2018 11:44:21	f2297bdfc824: Preparing
build	09-Jul-2018 11:44:21	0fbe2bcb1bf9: Preparing
build	09-Jul-2018 11:44:21	59669fcdd5eb: Preparing
build	09-Jul-2018 11:44:21	7f7a065d245a: Preparing
build	09-Jul-2018 11:44:21	f96e6b25195f: Preparing
build	09-Jul-2018 11:44:21	c56153825175: Preparing
build	09-Jul-2018 11:44:21	ae620432889d: Preparing
build	09-Jul-2018 11:44:21	a2022691bf95: Preparing
build	09-Jul-2018 11:44:21	f2297bdfc824: Waiting
build	09-Jul-2018 11:44:21	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:44:21	59669fcdd5eb: Waiting
build	09-Jul-2018 11:44:21	7f7a065d245a: Waiting
build	09-Jul-2018 11:44:21	f96e6b25195f: Waiting
build	09-Jul-2018 11:44:21	c56153825175: Waiting
build	09-Jul-2018 11:44:21	ae620432889d: Waiting
build	09-Jul-2018 11:44:21	a2022691bf95: Waiting
build	09-Jul-2018 11:44:21	14a5a4c81a6f: Layer already exists
build	09-Jul-2018 11:44:21	bc4498ef1792: Layer already exists
build	09-Jul-2018 11:44:21	09c2ebbeb78e: Layer already exists
build	09-Jul-2018 11:44:22	c82a5b8ba2f1: Layer already exists
build	09-Jul-2018 11:44:22	0cdb02ac1d86: Layer already exists
build	09-Jul-2018 11:44:22	f2297bdfc824: Layer already exists
build	09-Jul-2018 11:44:22	0fbe2bcb1bf9: Layer already exists
build	09-Jul-2018 11:44:22	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:44:22	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:44:22	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:44:22	c56153825175: Layer already exists
build	09-Jul-2018 11:44:22	ae620432889d: Layer already exists
build	09-Jul-2018 11:44:22	a2022691bf95: Layer already exists
build	09-Jul-2018 11:44:22	latest: digest: sha256:69221eddd0c6ec28c81fe0d1eecf839b8f41f513f6cd4516a165b3920dc02226 size: 3031
build	09-Jul-2018 11:44:22	Untagged: 19346:latest
build	09-Jul-2018 11:44:22	Sending build context to Docker daemon  66.05kB
build	09-Jul-2018 11:44:22	
build	09-Jul-2018 11:44:23	Step 1/11 : FROM clowder/pyclowder:1
build	09-Jul-2018 11:44:23	 ---> d1a9e970ed30
build	09-Jul-2018 11:44:23	Step 2/11 : MAINTAINER Yan Zhao <yanzhao3@illinois.edu>
build	09-Jul-2018 11:44:23	 ---> Using cache
build	09-Jul-2018 11:44:23	 ---> ccdf0a6fab71
build	09-Jul-2018 11:44:23	Step 3/11 : ENV RABBITMQ_URI=""     RABBITMQ_EXCHANGE="clowder"     RABBITMQ_VHOST="%2F"     RABBITMQ_QUEUE="ncsa.msc.ChemCBCExtractor"     MONGO_URI=""    DB_USERNAME=""    DB_PASSWORD=""    MAIN_SCRIPT="extractor-Chem.py"
build	09-Jul-2018 11:44:23	 ---> Running in b00e6ba41b6d
build	09-Jul-2018 11:44:23	Removing intermediate container b00e6ba41b6d
build	09-Jul-2018 11:44:23	 ---> 1cfb4fccc586
build	09-Jul-2018 11:44:23	Step 4/11 : USER root
build	09-Jul-2018 11:44:24	 ---> Running in 429aa53ec6a6
build	09-Jul-2018 11:44:24	Removing intermediate container 429aa53ec6a6
build	09-Jul-2018 11:44:24	 ---> 6d0225e106b5
build	09-Jul-2018 11:44:24	Step 5/11 : COPY requirements.txt /home/clowder/
build	09-Jul-2018 11:44:25	 ---> 24052423dabe
build	09-Jul-2018 11:44:25	Step 6/11 : RUN pip install --upgrade pip
build	09-Jul-2018 11:44:26	 ---> Running in bd6d4cfb4df6
build	09-Jul-2018 11:44:28	Collecting pip
build	09-Jul-2018 11:44:28	  Downloading https://files.pythonhosted.org/packages/0f/74/ecd13431bcc456ed390b44c8a6e917c1820365cbebcb6a8974d1cd045ab4/pip-10.0.1-py2.py3-none-any.whl (1.3MB)
build	09-Jul-2018 11:44:28	Installing collected packages: pip
build	09-Jul-2018 11:44:28	  Found existing installation: pip 8.1.1
build	09-Jul-2018 11:44:28	    Not uninstalling pip at /usr/lib/python2.7/dist-packages, outside environment /usr
build	09-Jul-2018 11:44:29	Successfully installed pip-10.0.1
build	09-Jul-2018 11:44:31	Removing intermediate container bd6d4cfb4df6
build	09-Jul-2018 11:44:31	 ---> 926074894991
build	09-Jul-2018 11:44:31	Step 7/11 : RUN pip install -r /home/clowder/requirements.txt
build	09-Jul-2018 11:44:31	 ---> Running in c09d72100142
build	09-Jul-2018 11:44:32	Requirement already satisfied: argparse==1.2.1 in /usr/lib/python2.7 (from -r /home/clowder/requirements.txt (line 1)) (1.2.1)
build	09-Jul-2018 11:44:32	Collecting openpyxl==1.6.2 (from -r /home/clowder/requirements.txt (line 2))
build	09-Jul-2018 11:44:32	  Downloading https://files.pythonhosted.org/packages/96/53/3782b6cc03500c0949a7ba9dba0c70da95d63d0ed4a04446123987ff983f/openpyxl-1.6.2.tar.gz (199kB)
build	09-Jul-2018 11:44:33	Collecting pika==0.9.14 (from -r /home/clowder/requirements.txt (line 3))
build	09-Jul-2018 11:44:33	  Downloading https://files.pythonhosted.org/packages/2b/5b/4c5b6eafc63e0985b926267579a1e2534af70df0a45932f0c23fcc5f1b88/pika-0.9.14.tar.gz (72kB)
build	09-Jul-2018 11:44:33	Collecting pymongo==3.2.1 (from -r /home/clowder/requirements.txt (line 4))
build	09-Jul-2018 11:44:34	  Downloading https://files.pythonhosted.org/packages/d7/94/9aa9ddd3e885caa307c0db8af5a1f5d266d3db44e1ae89bd4e14841ab8d0/pymongo-3.2.1.tar.gz (647kB)
build	09-Jul-2018 11:44:34	Collecting pytz==2014.3 (from -r /home/clowder/requirements.txt (line 5))
build	09-Jul-2018 11:44:34	  Downloading https://files.pythonhosted.org/packages/e2/8d/af599c0388f46775c6b039d8b9c4acda2f6ef86787312a35291fff4cb7ca/pytz-2014.3.tar.bz2 (158kB)
build	09-Jul-2018 11:44:35	Collecting requests==2.2.1 (from -r /home/clowder/requirements.txt (line 6))
build	09-Jul-2018 11:44:35	  Downloading https://files.pythonhosted.org/packages/7d/15/6efffc6aee666e1456852c2bf1d483b46bf971a2d509b35a98fc3eae1c60/requests-2.2.1-py2.py3-none-any.whl (625kB)
build	09-Jul-2018 11:44:35	Requirement already satisfied: wsgiref==0.1.2 in /usr/lib/python2.7 (from -r /home/clowder/requirements.txt (line 7)) (0.1.2)
build	09-Jul-2018 11:44:35	Collecting xlrd==0.9.3 (from -r /home/clowder/requirements.txt (line 8))
build	09-Jul-2018 11:44:35	  Downloading https://files.pythonhosted.org/packages/b1/13/6fbcb55fef0b34c70cb3753741eaafc0e91553a1318653587a7d145caf15/xlrd-0.9.3.tar.gz (178kB)
build	09-Jul-2018 11:44:35	Installing collected packages: openpyxl, pika, pymongo, pytz, requests, xlrd
build	09-Jul-2018 11:44:35	  Running setup.py install for openpyxl: started
build	09-Jul-2018 11:44:36	    Running setup.py install for openpyxl: finished with status 'done'
build	09-Jul-2018 11:44:36	  Found existing installation: pika 0.11.0
build	09-Jul-2018 11:44:36	    Uninstalling pika-0.11.0:
build	09-Jul-2018 11:44:38	      Successfully uninstalled pika-0.11.0
build	09-Jul-2018 11:44:38	  Running setup.py install for pika: started
build	09-Jul-2018 11:44:39	    Running setup.py install for pika: finished with status 'done'
build	09-Jul-2018 11:44:39	  Running setup.py install for pymongo: started
build	09-Jul-2018 11:44:39	    Running setup.py install for pymongo: finished with status 'done'
build	09-Jul-2018 11:44:39	  Running setup.py install for pytz: started
build	09-Jul-2018 11:44:39	    Running setup.py install for pytz: finished with status 'done'
build	09-Jul-2018 11:44:39	  Found existing installation: requests 2.18.4
build	09-Jul-2018 11:44:39	    Uninstalling requests-2.18.4:
build	09-Jul-2018 11:44:43	      Successfully uninstalled requests-2.18.4
build	09-Jul-2018 11:44:43	  Running setup.py install for xlrd: started
build	09-Jul-2018 11:44:43	    Running setup.py install for xlrd: finished with status 'done'
build	09-Jul-2018 11:44:43	Successfully installed openpyxl-1.6.2 pika-0.9.14 pymongo-3.2.1 pytz-2014.3 requests-2.2.1 xlrd-0.9.3
build	09-Jul-2018 11:44:45	Removing intermediate container c09d72100142
build	09-Jul-2018 11:44:45	 ---> c2ad0ae8bf05
build	09-Jul-2018 11:44:45	Step 8/11 : USER clowder
build	09-Jul-2018 11:44:45	 ---> Running in edaa8d3bba8e
build	09-Jul-2018 11:44:46	Removing intermediate container edaa8d3bba8e
build	09-Jul-2018 11:44:46	 ---> 4ad833c7560d
build	09-Jul-2018 11:44:46	Step 9/11 : COPY entrypoint.sh *.py *.json /home/clowder/
build	09-Jul-2018 11:44:47	 ---> a633a5b844f9
build	09-Jul-2018 11:44:47	Step 10/11 : ENTRYPOINT ["/home/clowder/entrypoint.sh"]
build	09-Jul-2018 11:44:47	 ---> Running in 0577b6e33b0b
build	09-Jul-2018 11:44:47	Removing intermediate container 0577b6e33b0b
build	09-Jul-2018 11:44:47	 ---> 52b61bfc7a38
build	09-Jul-2018 11:44:47	Step 11/11 : CMD ["extractor"]
build	09-Jul-2018 11:44:48	 ---> Running in ed2501471227
build	09-Jul-2018 11:44:48	Removing intermediate container ed2501471227
build	09-Jul-2018 11:44:48	 ---> 29db2ee255be
build	09-Jul-2018 11:44:48	Successfully built 29db2ee255be
build	09-Jul-2018 11:44:48	Successfully tagged 19346:latest
build	09-Jul-2018 11:44:48	The push refers to repository [docker.io/clowder/extractors-msc-chemcbc]
build	09-Jul-2018 11:44:48	75b56e63c0cd: Preparing
build	09-Jul-2018 11:44:48	b259f232cd2f: Preparing
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build	09-Jul-2018 11:44:48	a2022691bf95: Waiting
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build	09-Jul-2018 11:44:49	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:44:50	a3df3c1c9126: Pushed
build	09-Jul-2018 11:44:50	f96e6b25195f: Layer already exists
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build	09-Jul-2018 11:44:50	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:44:50	ae620432889d: Layer already exists
build	09-Jul-2018 11:44:50	a2022691bf95: Layer already exists
build	09-Jul-2018 11:44:51	4bec2fd74c2d: Pushed
build	09-Jul-2018 11:44:51	75b56e63c0cd: Pushed
build	09-Jul-2018 11:44:51	b259f232cd2f: Pushed
build	09-Jul-2018 11:44:54	browndog_v0.2.0: digest: sha256:06cb9403340bf244bc752c89f3e0fd879709e32da8405b839f0e14461dcdff63 size: 3031
build	09-Jul-2018 11:44:54	The push refers to repository [docker.io/clowder/extractors-msc-chemcbc]
build	09-Jul-2018 11:44:54	75b56e63c0cd: Preparing
build	09-Jul-2018 11:44:54	b259f232cd2f: Preparing
build	09-Jul-2018 11:44:54	4bec2fd74c2d: Preparing
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build	09-Jul-2018 11:44:54	c56153825175: Preparing
build	09-Jul-2018 11:44:54	ae620432889d: Preparing
build	09-Jul-2018 11:44:54	a2022691bf95: Preparing
build	09-Jul-2018 11:44:54	59669fcdd5eb: Waiting
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build	09-Jul-2018 11:44:54	f2297bdfc824: Waiting
build	09-Jul-2018 11:44:54	0fbe2bcb1bf9: Waiting
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build	09-Jul-2018 11:44:55	f2297bdfc824: Layer already exists
build	09-Jul-2018 11:44:55	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:44:55	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:44:55	0fbe2bcb1bf9: Layer already exists
build	09-Jul-2018 11:44:55	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:44:55	c56153825175: Layer already exists
build	09-Jul-2018 11:44:55	a2022691bf95: Layer already exists
build	09-Jul-2018 11:44:55	ae620432889d: Layer already exists
build	09-Jul-2018 11:44:55	browndog_v0.3.0: digest: sha256:06cb9403340bf244bc752c89f3e0fd879709e32da8405b839f0e14461dcdff63 size: 3031
build	09-Jul-2018 11:44:55	The push refers to repository [docker.io/clowder/extractors-msc-chemcbc]
build	09-Jul-2018 11:44:55	75b56e63c0cd: Preparing
build	09-Jul-2018 11:44:55	b259f232cd2f: Preparing
build	09-Jul-2018 11:44:55	4bec2fd74c2d: Preparing
build	09-Jul-2018 11:44:55	a3df3c1c9126: Preparing
build	09-Jul-2018 11:44:55	0cdb02ac1d86: Preparing
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build	09-Jul-2018 11:44:55	59669fcdd5eb: Preparing
build	09-Jul-2018 11:44:55	7f7a065d245a: Preparing
build	09-Jul-2018 11:44:55	f96e6b25195f: Preparing
build	09-Jul-2018 11:44:55	c56153825175: Preparing
build	09-Jul-2018 11:44:55	ae620432889d: Preparing
build	09-Jul-2018 11:44:55	a2022691bf95: Preparing
build	09-Jul-2018 11:44:55	7f7a065d245a: Waiting
build	09-Jul-2018 11:44:55	f96e6b25195f: Waiting
build	09-Jul-2018 11:44:55	c56153825175: Waiting
build	09-Jul-2018 11:44:55	f2297bdfc824: Waiting
build	09-Jul-2018 11:44:55	59669fcdd5eb: Waiting
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build	09-Jul-2018 11:44:55	ae620432889d: Waiting
build	09-Jul-2018 11:44:55	a2022691bf95: Waiting
build	09-Jul-2018 11:44:56	b259f232cd2f: Layer already exists
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build	09-Jul-2018 11:44:56	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:44:56	f2297bdfc824: Layer already exists
build	09-Jul-2018 11:44:56	c56153825175: Layer already exists
build	09-Jul-2018 11:44:56	ae620432889d: Layer already exists
build	09-Jul-2018 11:44:56	a2022691bf95: Layer already exists
build	09-Jul-2018 11:44:56	latest: digest: sha256:06cb9403340bf244bc752c89f3e0fd879709e32da8405b839f0e14461dcdff63 size: 3031
build	09-Jul-2018 11:44:57	Untagged: 19346:latest
build	09-Jul-2018 11:44:57	Sending build context to Docker daemon  198.1kB
build	09-Jul-2018 11:44:57	
build	09-Jul-2018 11:44:57	Step 1/11 : FROM clowder/pyclowder:1
build	09-Jul-2018 11:44:57	 ---> d1a9e970ed30
build	09-Jul-2018 11:44:57	Step 2/11 : MAINTAINER Yan Zhao <yanzhao3@illinois.edu>
build	09-Jul-2018 11:44:57	 ---> Using cache
build	09-Jul-2018 11:44:57	 ---> ccdf0a6fab71
build	09-Jul-2018 11:44:57	Step 3/11 : ENV RABBITMQ_URI=""     RABBITMQ_EXCHANGE="clowder"     RABBITMQ_VHOST="%2F"     RABBITMQ_QUEUE="ncsa.msc.MonitorExtractor"     MONGO_URI=""    DB_USERNAME=""    DB_PASSWORD=""    MAIN_SCRIPT="extractor-Monitor.py"
build	09-Jul-2018 11:44:57	 ---> Running in 9181307c392b
build	09-Jul-2018 11:44:57	Removing intermediate container 9181307c392b
build	09-Jul-2018 11:44:57	 ---> fc4668749e19
build	09-Jul-2018 11:44:57	Step 4/11 : USER root
build	09-Jul-2018 11:44:57	 ---> Running in b1354241e093
build	09-Jul-2018 11:44:58	Removing intermediate container b1354241e093
build	09-Jul-2018 11:44:58	 ---> 251ff968fcc5
build	09-Jul-2018 11:44:58	Step 5/11 : COPY requirements.txt /home/clowder/
build	09-Jul-2018 11:44:58	 ---> 33c4364e257c
build	09-Jul-2018 11:44:58	Step 6/11 : RUN pip install --upgrade pip
build	09-Jul-2018 11:44:59	 ---> Running in 59faf23c8563
build	09-Jul-2018 11:45:00	Collecting pip
build	09-Jul-2018 11:45:00	  Downloading https://files.pythonhosted.org/packages/0f/74/ecd13431bcc456ed390b44c8a6e917c1820365cbebcb6a8974d1cd045ab4/pip-10.0.1-py2.py3-none-any.whl (1.3MB)
build	09-Jul-2018 11:45:00	Installing collected packages: pip
build	09-Jul-2018 11:45:00	  Found existing installation: pip 8.1.1
build	09-Jul-2018 11:45:00	    Not uninstalling pip at /usr/lib/python2.7/dist-packages, outside environment /usr
build	09-Jul-2018 11:45:01	Successfully installed pip-10.0.1
build	09-Jul-2018 11:45:02	Removing intermediate container 59faf23c8563
build	09-Jul-2018 11:45:02	 ---> 98181b1188a0
build	09-Jul-2018 11:45:02	Step 7/11 : RUN pip install -r /home/clowder/requirements.txt
build	09-Jul-2018 11:45:03	 ---> Running in e43beeb371bc
build	09-Jul-2018 11:45:03	Requirement already satisfied: argparse==1.2.1 in /usr/lib/python2.7 (from -r /home/clowder/requirements.txt (line 1)) (1.2.1)
build	09-Jul-2018 11:45:03	Collecting openpyxl==1.6.2 (from -r /home/clowder/requirements.txt (line 2))
build	09-Jul-2018 11:45:03	  Downloading https://files.pythonhosted.org/packages/96/53/3782b6cc03500c0949a7ba9dba0c70da95d63d0ed4a04446123987ff983f/openpyxl-1.6.2.tar.gz (199kB)
build	09-Jul-2018 11:45:04	Collecting pika==0.9.14 (from -r /home/clowder/requirements.txt (line 3))
build	09-Jul-2018 11:45:04	  Downloading https://files.pythonhosted.org/packages/2b/5b/4c5b6eafc63e0985b926267579a1e2534af70df0a45932f0c23fcc5f1b88/pika-0.9.14.tar.gz (72kB)
build	09-Jul-2018 11:45:04	Collecting pymongo==3.2.1 (from -r /home/clowder/requirements.txt (line 4))
build	09-Jul-2018 11:45:04	  Downloading https://files.pythonhosted.org/packages/d7/94/9aa9ddd3e885caa307c0db8af5a1f5d266d3db44e1ae89bd4e14841ab8d0/pymongo-3.2.1.tar.gz (647kB)
build	09-Jul-2018 11:45:05	Collecting pytz==2014.3 (from -r /home/clowder/requirements.txt (line 5))
build	09-Jul-2018 11:45:05	  Downloading https://files.pythonhosted.org/packages/e2/8d/af599c0388f46775c6b039d8b9c4acda2f6ef86787312a35291fff4cb7ca/pytz-2014.3.tar.bz2 (158kB)
build	09-Jul-2018 11:45:05	Collecting requests==2.2.1 (from -r /home/clowder/requirements.txt (line 6))
build	09-Jul-2018 11:45:06	  Downloading https://files.pythonhosted.org/packages/7d/15/6efffc6aee666e1456852c2bf1d483b46bf971a2d509b35a98fc3eae1c60/requests-2.2.1-py2.py3-none-any.whl (625kB)
build	09-Jul-2018 11:45:06	Requirement already satisfied: wsgiref==0.1.2 in /usr/lib/python2.7 (from -r /home/clowder/requirements.txt (line 7)) (0.1.2)
build	09-Jul-2018 11:45:06	Collecting xlrd==0.9.3 (from -r /home/clowder/requirements.txt (line 8))
build	09-Jul-2018 11:45:06	  Downloading https://files.pythonhosted.org/packages/b1/13/6fbcb55fef0b34c70cb3753741eaafc0e91553a1318653587a7d145caf15/xlrd-0.9.3.tar.gz (178kB)
build	09-Jul-2018 11:45:06	Installing collected packages: openpyxl, pika, pymongo, pytz, requests, xlrd
build	09-Jul-2018 11:45:06	  Running setup.py install for openpyxl: started
build	09-Jul-2018 11:45:06	    Running setup.py install for openpyxl: finished with status 'done'
build	09-Jul-2018 11:45:06	  Found existing installation: pika 0.11.0
build	09-Jul-2018 11:45:06	    Uninstalling pika-0.11.0:
build	09-Jul-2018 11:45:08	      Successfully uninstalled pika-0.11.0
build	09-Jul-2018 11:45:08	  Running setup.py install for pika: started
build	09-Jul-2018 11:45:08	    Running setup.py install for pika: finished with status 'done'
build	09-Jul-2018 11:45:08	  Running setup.py install for pymongo: started
build	09-Jul-2018 11:45:09	    Running setup.py install for pymongo: finished with status 'done'
build	09-Jul-2018 11:45:09	  Running setup.py install for pytz: started
build	09-Jul-2018 11:45:09	    Running setup.py install for pytz: finished with status 'done'
build	09-Jul-2018 11:45:09	  Found existing installation: requests 2.18.4
build	09-Jul-2018 11:45:09	    Uninstalling requests-2.18.4:
build	09-Jul-2018 11:45:12	      Successfully uninstalled requests-2.18.4
build	09-Jul-2018 11:45:12	  Running setup.py install for xlrd: started
build	09-Jul-2018 11:45:12	    Running setup.py install for xlrd: finished with status 'done'
build	09-Jul-2018 11:45:12	Successfully installed openpyxl-1.6.2 pika-0.9.14 pymongo-3.2.1 pytz-2014.3 requests-2.2.1 xlrd-0.9.3
build	09-Jul-2018 11:45:14	Removing intermediate container e43beeb371bc
build	09-Jul-2018 11:45:14	 ---> 1adade7b5441
build	09-Jul-2018 11:45:14	Step 8/11 : USER clowder
build	09-Jul-2018 11:45:14	 ---> Running in 81b6b3ef3a2c
build	09-Jul-2018 11:45:14	Removing intermediate container 81b6b3ef3a2c
build	09-Jul-2018 11:45:14	 ---> 387c6b6e4dca
build	09-Jul-2018 11:45:14	Step 9/11 : COPY entrypoint.sh *.py *.json /home/clowder/
build	09-Jul-2018 11:45:15	 ---> 8e54799664d2
build	09-Jul-2018 11:45:15	Step 10/11 : ENTRYPOINT ["/home/clowder/entrypoint.sh"]
build	09-Jul-2018 11:45:16	 ---> Running in d2a51ae90212
build	09-Jul-2018 11:45:17	Removing intermediate container d2a51ae90212
build	09-Jul-2018 11:45:17	 ---> 221501942fc2
build	09-Jul-2018 11:45:17	Step 11/11 : CMD ["extractor"]
build	09-Jul-2018 11:45:17	 ---> Running in c2ac4137e350
build	09-Jul-2018 11:45:17	Removing intermediate container c2ac4137e350
build	09-Jul-2018 11:45:17	 ---> 2aae9b011ed9
build	09-Jul-2018 11:45:17	Successfully built 2aae9b011ed9
build	09-Jul-2018 11:45:18	Successfully tagged 19346:latest
build	09-Jul-2018 11:45:18	The push refers to repository [docker.io/clowder/extractors-msc-monitor]
build	09-Jul-2018 11:45:18	cd59d3df6ad5: Preparing
build	09-Jul-2018 11:45:18	2df3ce8facb5: Preparing
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build	09-Jul-2018 11:45:20	2df3ce8facb5: Pushed
build	09-Jul-2018 11:45:21	9384ea267435: Pushed
build	09-Jul-2018 11:45:23	browndog_v0.2.0: digest: sha256:291b1bef8dee8f5c89ffedfd1622c0ae11de21b3fc44dc7f3f2e1ed6eba6276a size: 3031
build	09-Jul-2018 11:45:23	The push refers to repository [docker.io/clowder/extractors-msc-monitor]
build	09-Jul-2018 11:45:23	cd59d3df6ad5: Preparing
build	09-Jul-2018 11:45:23	2df3ce8facb5: Preparing
build	09-Jul-2018 11:45:23	9384ea267435: Preparing
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build	09-Jul-2018 11:45:23	f2297bdfc824: Waiting
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build	09-Jul-2018 11:45:23	7f7a065d245a: Preparing
build	09-Jul-2018 11:45:23	f96e6b25195f: Preparing
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build	09-Jul-2018 11:45:23	ae620432889d: Preparing
build	09-Jul-2018 11:45:23	a2022691bf95: Preparing
build	09-Jul-2018 11:45:23	c56153825175: Waiting
build	09-Jul-2018 11:45:23	59669fcdd5eb: Waiting
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build	09-Jul-2018 11:45:24	a2022691bf95: Layer already exists
build	09-Jul-2018 11:45:25	browndog_v0.3.0: digest: sha256:291b1bef8dee8f5c89ffedfd1622c0ae11de21b3fc44dc7f3f2e1ed6eba6276a size: 3031
build	09-Jul-2018 11:45:25	The push refers to repository [docker.io/clowder/extractors-msc-monitor]
build	09-Jul-2018 11:45:25	cd59d3df6ad5: Preparing
build	09-Jul-2018 11:45:25	2df3ce8facb5: Preparing
build	09-Jul-2018 11:45:25	9384ea267435: Preparing
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build	09-Jul-2018 11:45:25	0cdb02ac1d86: Preparing
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build	09-Jul-2018 11:45:25	c56153825175: Preparing
build	09-Jul-2018 11:45:25	ae620432889d: Preparing
build	09-Jul-2018 11:45:25	a2022691bf95: Preparing
build	09-Jul-2018 11:45:25	f2297bdfc824: Waiting
build	09-Jul-2018 11:45:25	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:45:25	59669fcdd5eb: Waiting
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build	09-Jul-2018 11:45:25	a2022691bf95: Waiting
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build	09-Jul-2018 11:45:26	c56153825175: Layer already exists
build	09-Jul-2018 11:45:26	a2022691bf95: Layer already exists
build	09-Jul-2018 11:45:26	ae620432889d: Layer already exists
build	09-Jul-2018 11:45:26	latest: digest: sha256:291b1bef8dee8f5c89ffedfd1622c0ae11de21b3fc44dc7f3f2e1ed6eba6276a size: 3031
build	09-Jul-2018 11:45:26	Untagged: 19346:latest
build	09-Jul-2018 11:45:26	Sending build context to Docker daemon   12.1MB
build	09-Jul-2018 11:45:26	
build	09-Jul-2018 11:45:26	Step 1/11 : FROM clowder/pyclowder:1
build	09-Jul-2018 11:45:26	 ---> d1a9e970ed30
build	09-Jul-2018 11:45:26	Step 2/11 : MAINTAINER Yan Zhao <yanzhao3@illinois.edu>
build	09-Jul-2018 11:45:26	 ---> Using cache
build	09-Jul-2018 11:45:26	 ---> ccdf0a6fab71
build	09-Jul-2018 11:45:26	Step 3/11 : ENV RABBITMQ_URI=""     RABBITMQ_EXCHANGE="clowder"     RABBITMQ_VHOST="%2F"     RABBITMQ_QUEUE="ncsa.msc.PhenotypeExtractor"     MONGO_URI=""    DB_USERNAME=""    DB_PASSWORD=""    MAIN_SCRIPT="extractor-Phenotype.py"
build	09-Jul-2018 11:45:27	 ---> Running in e2efb0a755e8
build	09-Jul-2018 11:45:27	Removing intermediate container e2efb0a755e8
build	09-Jul-2018 11:45:27	 ---> 558f3d3db7fc
build	09-Jul-2018 11:45:27	Step 4/11 : USER root
build	09-Jul-2018 11:45:27	 ---> Running in 41f75121f271
build	09-Jul-2018 11:45:28	Removing intermediate container 41f75121f271
build	09-Jul-2018 11:45:28	 ---> 39da5a5f0fe5
build	09-Jul-2018 11:45:28	Step 5/11 : COPY requirements.txt /home/clowder/
build	09-Jul-2018 11:45:28	 ---> 97e083db01c9
build	09-Jul-2018 11:45:28	Step 6/11 : RUN pip install --upgrade pip
build	09-Jul-2018 11:45:29	 ---> Running in c43ce1757b7a
build	09-Jul-2018 11:45:31	Collecting pip
build	09-Jul-2018 11:45:31	  Downloading https://files.pythonhosted.org/packages/0f/74/ecd13431bcc456ed390b44c8a6e917c1820365cbebcb6a8974d1cd045ab4/pip-10.0.1-py2.py3-none-any.whl (1.3MB)
build	09-Jul-2018 11:45:31	Installing collected packages: pip
build	09-Jul-2018 11:45:31	  Found existing installation: pip 8.1.1
build	09-Jul-2018 11:45:31	    Not uninstalling pip at /usr/lib/python2.7/dist-packages, outside environment /usr
build	09-Jul-2018 11:45:32	Successfully installed pip-10.0.1
build	09-Jul-2018 11:45:34	Removing intermediate container c43ce1757b7a
build	09-Jul-2018 11:45:34	 ---> 4b38123ff639
build	09-Jul-2018 11:45:34	Step 7/11 : RUN pip install -r /home/clowder/requirements.txt
build	09-Jul-2018 11:45:34	 ---> Running in a55481cd3c86
build	09-Jul-2018 11:45:35	Requirement already satisfied: argparse==1.2.1 in /usr/lib/python2.7 (from -r /home/clowder/requirements.txt (line 1)) (1.2.1)
build	09-Jul-2018 11:45:35	Collecting openpyxl==1.6.2 (from -r /home/clowder/requirements.txt (line 2))
build	09-Jul-2018 11:45:35	  Downloading https://files.pythonhosted.org/packages/96/53/3782b6cc03500c0949a7ba9dba0c70da95d63d0ed4a04446123987ff983f/openpyxl-1.6.2.tar.gz (199kB)
build	09-Jul-2018 11:45:36	Collecting pika==0.9.14 (from -r /home/clowder/requirements.txt (line 3))
build	09-Jul-2018 11:45:36	  Downloading https://files.pythonhosted.org/packages/2b/5b/4c5b6eafc63e0985b926267579a1e2534af70df0a45932f0c23fcc5f1b88/pika-0.9.14.tar.gz (72kB)
build	09-Jul-2018 11:45:36	Collecting pymongo==3.2.1 (from -r /home/clowder/requirements.txt (line 4))
build	09-Jul-2018 11:45:36	  Downloading https://files.pythonhosted.org/packages/d7/94/9aa9ddd3e885caa307c0db8af5a1f5d266d3db44e1ae89bd4e14841ab8d0/pymongo-3.2.1.tar.gz (647kB)
build	09-Jul-2018 11:45:37	Collecting pytz==2014.3 (from -r /home/clowder/requirements.txt (line 5))
build	09-Jul-2018 11:45:37	  Downloading https://files.pythonhosted.org/packages/e2/8d/af599c0388f46775c6b039d8b9c4acda2f6ef86787312a35291fff4cb7ca/pytz-2014.3.tar.bz2 (158kB)
build	09-Jul-2018 11:45:37	Collecting requests==2.2.1 (from -r /home/clowder/requirements.txt (line 6))
build	09-Jul-2018 11:45:37	  Downloading https://files.pythonhosted.org/packages/7d/15/6efffc6aee666e1456852c2bf1d483b46bf971a2d509b35a98fc3eae1c60/requests-2.2.1-py2.py3-none-any.whl (625kB)
build	09-Jul-2018 11:45:38	Requirement already satisfied: wsgiref==0.1.2 in /usr/lib/python2.7 (from -r /home/clowder/requirements.txt (line 7)) (0.1.2)
build	09-Jul-2018 11:45:38	Collecting xlrd==0.9.3 (from -r /home/clowder/requirements.txt (line 8))
build	09-Jul-2018 11:45:38	  Downloading https://files.pythonhosted.org/packages/b1/13/6fbcb55fef0b34c70cb3753741eaafc0e91553a1318653587a7d145caf15/xlrd-0.9.3.tar.gz (178kB)
build	09-Jul-2018 11:45:38	Installing collected packages: openpyxl, pika, pymongo, pytz, requests, xlrd
build	09-Jul-2018 11:45:38	  Running setup.py install for openpyxl: started
build	09-Jul-2018 11:45:38	    Running setup.py install for openpyxl: finished with status 'done'
build	09-Jul-2018 11:45:38	  Found existing installation: pika 0.11.0
build	09-Jul-2018 11:45:38	    Uninstalling pika-0.11.0:
build	09-Jul-2018 11:45:40	      Successfully uninstalled pika-0.11.0
build	09-Jul-2018 11:45:40	  Running setup.py install for pika: started
build	09-Jul-2018 11:45:40	    Running setup.py install for pika: finished with status 'done'
build	09-Jul-2018 11:45:40	  Running setup.py install for pymongo: started
build	09-Jul-2018 11:45:41	    Running setup.py install for pymongo: finished with status 'done'
build	09-Jul-2018 11:45:41	  Running setup.py install for pytz: started
build	09-Jul-2018 11:45:41	    Running setup.py install for pytz: finished with status 'done'
build	09-Jul-2018 11:45:41	  Found existing installation: requests 2.18.4
build	09-Jul-2018 11:45:41	    Uninstalling requests-2.18.4:
build	09-Jul-2018 11:45:45	      Successfully uninstalled requests-2.18.4
build	09-Jul-2018 11:45:45	  Running setup.py install for xlrd: started
build	09-Jul-2018 11:45:45	    Running setup.py install for xlrd: finished with status 'done'
build	09-Jul-2018 11:45:45	Successfully installed openpyxl-1.6.2 pika-0.9.14 pymongo-3.2.1 pytz-2014.3 requests-2.2.1 xlrd-0.9.3
build	09-Jul-2018 11:45:47	Removing intermediate container a55481cd3c86
build	09-Jul-2018 11:45:47	 ---> 51134a2f6b58
build	09-Jul-2018 11:45:47	Step 8/11 : USER clowder
build	09-Jul-2018 11:45:47	 ---> Running in 535737cea8f8
build	09-Jul-2018 11:45:48	Removing intermediate container 535737cea8f8
build	09-Jul-2018 11:45:48	 ---> 6124617cbab0
build	09-Jul-2018 11:45:48	Step 9/11 : COPY entrypoint.sh *.py *.json /home/clowder/
build	09-Jul-2018 11:45:49	 ---> 02bdb20a2891
build	09-Jul-2018 11:45:49	Step 10/11 : ENTRYPOINT ["/home/clowder/entrypoint.sh"]
build	09-Jul-2018 11:45:49	 ---> Running in 0b7f92cd83e4
build	09-Jul-2018 11:45:49	Removing intermediate container 0b7f92cd83e4
build	09-Jul-2018 11:45:49	 ---> 44f7962bb406
build	09-Jul-2018 11:45:49	Step 11/11 : CMD ["extractor"]
build	09-Jul-2018 11:45:50	 ---> Running in 37c98fb9f022
build	09-Jul-2018 11:45:50	Removing intermediate container 37c98fb9f022
build	09-Jul-2018 11:45:50	 ---> 79a5f4fed249
build	09-Jul-2018 11:45:50	Successfully built 79a5f4fed249
build	09-Jul-2018 11:45:50	Successfully tagged 19346:latest
build	09-Jul-2018 11:45:50	The push refers to repository [docker.io/clowder/extractors-msc-phenotype]
build	09-Jul-2018 11:45:50	63c49a1f8c3a: Preparing
build	09-Jul-2018 11:45:50	638823b48516: Preparing
build	09-Jul-2018 11:45:50	175cbf9c6c23: Preparing
build	09-Jul-2018 11:45:50	49dd70d030b7: Preparing
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build	09-Jul-2018 11:45:50	7f7a065d245a: Preparing
build	09-Jul-2018 11:45:50	f96e6b25195f: Preparing
build	09-Jul-2018 11:45:50	f2297bdfc824: Waiting
build	09-Jul-2018 11:45:50	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:45:50	59669fcdd5eb: Waiting
build	09-Jul-2018 11:45:50	7f7a065d245a: Waiting
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build	09-Jul-2018 11:45:50	ae620432889d: Preparing
build	09-Jul-2018 11:45:50	a2022691bf95: Preparing
build	09-Jul-2018 11:45:50	f96e6b25195f: Waiting
build	09-Jul-2018 11:45:50	c56153825175: Waiting
build	09-Jul-2018 11:45:50	a2022691bf95: Waiting
build	09-Jul-2018 11:45:50	ae620432889d: Waiting
build	09-Jul-2018 11:45:51	0cdb02ac1d86: Layer already exists
build	09-Jul-2018 11:45:51	f2297bdfc824: Layer already exists
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build	09-Jul-2018 11:45:51	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:45:52	63c49a1f8c3a: Pushed
build	09-Jul-2018 11:45:52	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:45:52	49dd70d030b7: Pushed
build	09-Jul-2018 11:45:52	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:45:52	c56153825175: Layer already exists
build	09-Jul-2018 11:45:52	ae620432889d: Layer already exists
build	09-Jul-2018 11:45:53	a2022691bf95: Layer already exists
build	09-Jul-2018 11:45:53	638823b48516: Pushed
build	09-Jul-2018 11:45:53	175cbf9c6c23: Pushed
build	09-Jul-2018 11:45:56	browndog_v0.2.0: digest: sha256:790141cca1a6d9acb7cbfaf464b7cffe8a2ac98ab6a3ef28bd1a0774418f9b5a size: 3031
build	09-Jul-2018 11:45:57	The push refers to repository [docker.io/clowder/extractors-msc-phenotype]
build	09-Jul-2018 11:45:57	63c49a1f8c3a: Preparing
build	09-Jul-2018 11:45:57	638823b48516: Preparing
build	09-Jul-2018 11:45:57	175cbf9c6c23: Preparing
build	09-Jul-2018 11:45:57	49dd70d030b7: Preparing
build	09-Jul-2018 11:45:57	0cdb02ac1d86: Preparing
build	09-Jul-2018 11:45:57	f2297bdfc824: Preparing
build	09-Jul-2018 11:45:57	0fbe2bcb1bf9: Preparing
build	09-Jul-2018 11:45:57	59669fcdd5eb: Preparing
build	09-Jul-2018 11:45:57	7f7a065d245a: Preparing
build	09-Jul-2018 11:45:57	f96e6b25195f: Preparing
build	09-Jul-2018 11:45:57	c56153825175: Preparing
build	09-Jul-2018 11:45:57	ae620432889d: Preparing
build	09-Jul-2018 11:45:57	a2022691bf95: Preparing
build	09-Jul-2018 11:45:57	f2297bdfc824: Waiting
build	09-Jul-2018 11:45:57	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:45:57	59669fcdd5eb: Waiting
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build	09-Jul-2018 11:45:57	a2022691bf95: Waiting
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build	09-Jul-2018 11:45:57	0cdb02ac1d86: Layer already exists
build	09-Jul-2018 11:45:57	49dd70d030b7: Layer already exists
build	09-Jul-2018 11:45:57	63c49a1f8c3a: Layer already exists
build	09-Jul-2018 11:45:57	638823b48516: Layer already exists
build	09-Jul-2018 11:45:57	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:45:57	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:45:57	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:45:57	f2297bdfc824: Layer already exists
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build	09-Jul-2018 11:45:58	a2022691bf95: Layer already exists
build	09-Jul-2018 11:45:58	c56153825175: Layer already exists
build	09-Jul-2018 11:45:58	ae620432889d: Layer already exists
build	09-Jul-2018 11:45:58	browndog_v0.3.0: digest: sha256:790141cca1a6d9acb7cbfaf464b7cffe8a2ac98ab6a3ef28bd1a0774418f9b5a size: 3031
build	09-Jul-2018 11:45:58	The push refers to repository [docker.io/clowder/extractors-msc-phenotype]
build	09-Jul-2018 11:45:58	63c49a1f8c3a: Preparing
build	09-Jul-2018 11:45:58	638823b48516: Preparing
build	09-Jul-2018 11:45:58	175cbf9c6c23: Preparing
build	09-Jul-2018 11:45:58	49dd70d030b7: Preparing
build	09-Jul-2018 11:45:58	0cdb02ac1d86: Preparing
build	09-Jul-2018 11:45:58	f2297bdfc824: Preparing
build	09-Jul-2018 11:45:58	0fbe2bcb1bf9: Preparing
build	09-Jul-2018 11:45:58	59669fcdd5eb: Preparing
build	09-Jul-2018 11:45:58	7f7a065d245a: Preparing
build	09-Jul-2018 11:45:58	f96e6b25195f: Preparing
build	09-Jul-2018 11:45:58	c56153825175: Preparing
build	09-Jul-2018 11:45:58	ae620432889d: Preparing
build	09-Jul-2018 11:45:58	a2022691bf95: Preparing
build	09-Jul-2018 11:45:58	59669fcdd5eb: Waiting
build	09-Jul-2018 11:45:58	c56153825175: Waiting
build	09-Jul-2018 11:45:58	ae620432889d: Waiting
build	09-Jul-2018 11:45:58	a2022691bf95: Waiting
build	09-Jul-2018 11:45:58	f96e6b25195f: Waiting
build	09-Jul-2018 11:45:58	7f7a065d245a: Waiting
build	09-Jul-2018 11:45:58	f2297bdfc824: Waiting
build	09-Jul-2018 11:45:58	0fbe2bcb1bf9: Waiting
build	09-Jul-2018 11:45:59	63c49a1f8c3a: Layer already exists
build	09-Jul-2018 11:45:59	49dd70d030b7: Layer already exists
build	09-Jul-2018 11:45:59	175cbf9c6c23: Layer already exists
build	09-Jul-2018 11:45:59	0cdb02ac1d86: Layer already exists
build	09-Jul-2018 11:45:59	638823b48516: Layer already exists
build	09-Jul-2018 11:45:59	f2297bdfc824: Layer already exists
build	09-Jul-2018 11:45:59	0fbe2bcb1bf9: Layer already exists
build	09-Jul-2018 11:45:59	7f7a065d245a: Layer already exists
build	09-Jul-2018 11:45:59	59669fcdd5eb: Layer already exists
build	09-Jul-2018 11:45:59	f96e6b25195f: Layer already exists
build	09-Jul-2018 11:45:59	c56153825175: Layer already exists
build	09-Jul-2018 11:45:59	a2022691bf95: Layer already exists
build	09-Jul-2018 11:45:59	ae620432889d: Layer already exists
build	09-Jul-2018 11:45:59	latest: digest: sha256:790141cca1a6d9acb7cbfaf464b7cffe8a2ac98ab6a3ef28bd1a0774418f9b5a size: 3031
build	09-Jul-2018 11:46:00	Untagged: 19346:latest
simple	09-Jul-2018 11:46:00	Finished task 'docker build' with result: Success
simple	09-Jul-2018 11:46:00	Running post build plugin 'Docker Container Cleanup'
simple	09-Jul-2018 11:46:00	Running post build plugin 'NCover Results Collector'
simple	09-Jul-2018 11:46:00	Running post build plugin 'Clover Results Collector'
simple	09-Jul-2018 11:46:00	Running post build plugin 'npm Cache Cleanup'
simple	09-Jul-2018 11:46:00	Running post build plugin 'Artifact Copier'
simple	09-Jul-2018 11:46:00	Finalising the build...
simple	09-Jul-2018 11:46:00	Stopping timer.
simple	09-Jul-2018 11:46:00	Build CATS-MSC-JOB1-37 completed.
simple	09-Jul-2018 11:46:00	Running on server: post build plugin 'NCover Results Collector'
simple	09-Jul-2018 11:46:00	Running on server: post build plugin 'Build Hanging Detection Configuration'
simple	09-Jul-2018 11:46:00	Running on server: post build plugin 'Clover Delta Calculator'
simple	09-Jul-2018 11:46:00	Running on server: post build plugin 'Maven Dependencies Postprocessor'
simple	09-Jul-2018 11:46:00	All post build plugins have finished
simple	09-Jul-2018 11:46:00	Generating build results summary...
simple	09-Jul-2018 11:46:00	Saving build results to disk...
simple	09-Jul-2018 11:46:00	Logging substituted variables...
simple	09-Jul-2018 11:46:00	Indexing build results...
simple	09-Jul-2018 11:46:00	Finished building CATS-MSC-JOB1-37.