SuccessConsole Output

Started by upstream project "container-midcor" build number 55
originally caused by:
 Started by GitHub push by seliv55
[EnvInject] - Loading node environment variables.
Building remotely on docker-packer-ansible (ansible docker) in workspace /home/ubuntu/workspace/test-container-midcor
[EnvInject] - Injecting environment variables from a build step.
[EnvInject] - Injecting as environment variables the properties content 
POD_PREFIX=midcor
TEST_CMD=runTest1.sh
CONTAINER=container-registry.phenomenal-h2020.eu/phnmnl/midcor:latest

[EnvInject] - Variables injected successfully.
[test-container-midcor] $ /bin/bash -xe /tmp/jenkins837796374518772048.sh
+ wget https://raw.githubusercontent.com/phnmnl/jenkins-scripts/feature/addHelmTesting/helm-k8s-test-runner/runWithHelm.sh
--2018-08-11 07:40:50--  https://raw.githubusercontent.com/phnmnl/jenkins-scripts/feature/addHelmTesting/helm-k8s-test-runner/runWithHelm.sh
Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 151.101.0.133, 151.101.64.133, 151.101.128.133, ...
Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|151.101.0.133|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: 844 [text/plain]
Saving to: ‘runWithHelm.sh.10’

     0K                                                       100%  172M=0s

2018-08-11 07:40:50 (172 MB/s) - ‘runWithHelm.sh.10’ saved [844/844]

+ /bin/bash runWithHelm.sh
NAME:   midcor-gtlz2
LAST DEPLOYED: Sat Aug 11 07:40:51 2018
NAMESPACE: default
STATUS: DEPLOYED

RESOURCES:
==> v1/Pod
NAME          READY  STATUS   RESTARTS  AGE
midcor-gtlz2  0/1    Pending  0         0s


Waiting for container to be started...
Sleeping for 10 seconds
Hit:1 http://archive.ubuntu.com/ubuntu xenial InRelease
Hit:2 http://archive.ubuntu.com/ubuntu xenial-updates InRelease
Hit:3 http://archive.ubuntu.com/ubuntu xenial-backports InRelease
Hit:4 http://cloud.r-project.org/bin/linux/ubuntu xenial/ InRelease
Hit:5 http://security.ubuntu.com/ubuntu xenial-security InRelease
Reading package lists...
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
  wget
The following packages will be upgraded:
  ca-certificates
1 upgraded, 1 newly installed, 0 to remove and 69 not upgraded.
Need to get 467 kB of archives.
After this operation, 845 kB of additional disk space will be used.
Get:1 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 ca-certificates all 20170717~16.04.1 [168 kB]
Get:2 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 wget amd64 1.17.1-1ubuntu1.4 [299 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 467 kB in 0s (8397 kB/s)
(Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 10462 files and directories currently installed.)
Preparing to unpack .../ca-certificates_20170717~16.04.1_all.deb ...
Unpacking ca-certificates (20170717~16.04.1) over (20160104ubuntu1) ...
Selecting previously unselected package wget.
Preparing to unpack .../wget_1.17.1-1ubuntu1.4_amd64.deb ...
Unpacking wget (1.17.1-1ubuntu1.4) ...
Setting up ca-certificates (20170717~16.04.1) ...
debconf: unable to initialize frontend: Dialog
debconf: (TERM is not set, so the dialog frontend is not usable.)
debconf: falling back to frontend: Readline
debconf: unable to initialize frontend: Readline
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.)
debconf: falling back to frontend: Teletype
Setting up wget (1.17.1-1ubuntu1.4) ...
Processing triggers for ca-certificates (20170717~16.04.1) ...
Updating certificates in /etc/ssl/certs...
17 added, 42 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
--2018-08-11 07:41:06--  https://drive.google.com/uc?export=download&id=0B1lAg6jyw6lvSUlxd0Y2TVY0eWM
Resolving drive.google.com (drive.google.com)... 216.58.201.14, 2a00:1450:4009:805::200e
Connecting to drive.google.com (drive.google.com)|216.58.201.14|:443... connected.
HTTP request sent, awaiting response... 302 Moved Temporarily
Location: https://doc-00-3o-docs.googleusercontent.com/docs/securesc/ha0ro937gcuc7l7deffksulhg5h7mbp1/ejquik36iqur2hnn7d3p6saaoncie60e/1533967200000/00891727719170633312/*/0B1lAg6jyw6lvSUlxd0Y2TVY0eWM?e=download [following]
Warning: wildcards not supported in HTTP.
--2018-08-11 07:41:07--  https://doc-00-3o-docs.googleusercontent.com/docs/securesc/ha0ro937gcuc7l7deffksulhg5h7mbp1/ejquik36iqur2hnn7d3p6saaoncie60e/1533967200000/00891727719170633312/*/0B1lAg6jyw6lvSUlxd0Y2TVY0eWM?e=download
Resolving doc-00-3o-docs.googleusercontent.com (doc-00-3o-docs.googleusercontent.com)... 216.58.201.1, 2a00:1450:4009:805::2001
Connecting to doc-00-3o-docs.googleusercontent.com (doc-00-3o-docs.googleusercontent.com)|216.58.201.1|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: 42658 (42K) [text/csv]
Saving to: 'midcor_outin_input.csv'

     0K .......... .......... .......... .......... .         100% 4.15M=0.01s

2018-08-11 07:41:07 (4.15 MB/s) - 'midcor_outin_input.csv' saved [42658/42658]

[1] "1 D-Ribose"
[1] "RibNat1_01.CDF   len= 0"
[1] "2 Glycogen"
[1] "GlycCom1_01.CDF   len= 0"
[1] "3 L-Glutamate"
[1] "4 L-Lactate"
[1] "LacNat1_01.CDF   len= 0"
             V1    V2              V3                 V4        V5
1 Raw Data File cells tracer molecule labelled positions abundance
                          V6                         V7
1 Parameter Value[injection] Parameter Value[Replicate]
                             V8              V9              V10
1 Factor Value[Incubation time] Metabolite name CHEBI identifier
                                                      V11
1 atomic positions to the parent molecule/metabolite name
                                              V12            V13           V14
1 Empirical formula derivatized molecule/fragment retention(min) m/z monitored
               V15          V16                                         V17
1 signal intensity isotopologue isotologue abundance relative concentration
[1] "correction of raw MID finished"
--2018-08-11 07:41:07--  https://drive.google.com/uc?export=download&id=0B1lAg6jyw6lvSmt5c2d2V19mbWs
Resolving drive.google.com (drive.google.com)... 216.58.201.14, 2a00:1450:4009:805::200e
Connecting to drive.google.com (drive.google.com)|216.58.201.14|:443... connected.
HTTP request sent, awaiting response... 302 Moved Temporarily
Location: https://doc-0s-3o-docs.googleusercontent.com/docs/securesc/ha0ro937gcuc7l7deffksulhg5h7mbp1/nqqp4n47b3qecta8rro1pdd52d744f59/1533967200000/00891727719170633312/*/0B1lAg6jyw6lvSmt5c2d2V19mbWs?e=download [following]
Warning: wildcards not supported in HTTP.
--2018-08-11 07:41:08--  https://doc-0s-3o-docs.googleusercontent.com/docs/securesc/ha0ro937gcuc7l7deffksulhg5h7mbp1/nqqp4n47b3qecta8rro1pdd52d744f59/1533967200000/00891727719170633312/*/0B1lAg6jyw6lvSmt5c2d2V19mbWs?e=download
Resolving doc-0s-3o-docs.googleusercontent.com (doc-0s-3o-docs.googleusercontent.com)... 216.58.201.1, 2a00:1450:4009:805::2001
Connecting to doc-0s-3o-docs.googleusercontent.com (doc-0s-3o-docs.googleusercontent.com)|216.58.201.1|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: 155936 (152K) [text/csv]
Saving to: 'multipeak.csv'

     0K .......... .......... .......... .......... .......... 32% 5.41M 0s
    50K .......... .......... .......... .......... .......... 65% 7.18M 0s
   100K .......... .......... .......... .......... .......... 98% 26.4M 0s
   150K ..                                                    100%  102M=0.02s

2018-08-11 07:41:08 (8.40 MB/s) - 'multipeak.csv' saved [155936/155936]

[1] "1 Aspartate"
[1] "BEAS2B_COLD_1_02.CDF    len= 1"
[1] "2 Citrate"
[1] "BEAS2B_COLD_1_02.CDF    len= 1"
[1] "3 Glucose"
[1] "Glc_BEAS2B_24h_COLD_03.CDF    len= 1"
[1] "4 Glutamate2-4"
[1] "Glu_BEAS2B_24h_COLD_1_02.CDF    len= 1"
[1] "5 Glutamate2-5"
[1] "Glu_BEAS2B_24h_COLD_1_02.CDF    len= 1"
[1] "6 Lactate"
[1] "Lac_BEAS2B_24h_COLD_02.CDF    len= 1"
[1] "7 Malate"
[1] "BEAS2B_COLD_1_02.CDF    len= 1"
[1] "8 Ribose"
[1] "Rib_BEAS2B_24h_COLD_1_02.CDF    len= 1"
             V1    V2              V3                 V4        V5
1 Raw Data File cells tracer molecule labelled positions abundance
                          V6                         V7
1 Parameter Value[injection] Parameter Value[Replicate]
                             V8              V9              V10
1 Factor Value[Incubation time] Metabolite name CHEBI identifier
                                                      V11
1 atomic positions to the parent molecule/metabolite name
                                              V12            V13           V14
1 Empirical formula derivatized molecule/fragment retention(min) m/z monitored
               V15          V16                                         V17
1 signal intensity isotopologue isotologue abundance relative concentration
[1] "correction of raw MID finished"
midcor runs with test data without error codes, all expected files created.
release "midcor-gtlz2" deleted
Pod finished without error codes
Finished: SUCCESS