73.16.113.171 - - [25/Jun/2019:10:38:04 -0900] "GET
/api/tools/toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1/build?version=0.1&__identifer=x7nwf73vi1b&tool_version=0.1
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:38:05 -0900] "GET /api/webhooks HTTP/1.0" 200
-
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:38:08 -0900] "POST
/api/tools/toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1/build
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
galaxy.tools DEBUG 2019-06-25 10:38:10,307 Validated and populated state for
tool request (38.814 ms)
galaxy.tools.actions INFO 2019-06-25 10:38:10,380 Handled output named
output_confusion for tool
toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1
(37.131 ms)
galaxy.tools.actions INFO 2019-06-25 10:38:10,402 Handled output named
output_prf for tool
toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1
(21.811 ms)
galaxy.tools.actions INFO 2019-06-25 10:38:10,420 Handled output named
output_roc for tool
toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1
(17.491 ms)
galaxy.tools.actions INFO 2019-06-25 10:38:10,441 Added output datasets to
history (21.286 ms)
galaxy.tools.actions INFO 2019-06-25 10:38:10,443 Setup for job
Job[unflushed,tool_id=toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1]
complete, ready to be enqueued (1.959 ms)
galaxy.util.handlers DEBUG 2019-06-25 10:38:10,443
(Job[unflushed,tool_id=toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1])
Selected handler 'main' by random choice from handler tag '_default_'
galaxy.util.handlers INFO 2019-06-25 10:38:10,506 Flushed transaction for
Job[id=1512,tool_id=toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1]
(62.218 ms)
galaxy.util.handlers INFO 2019-06-25 10:38:10,506
(Job[id=1512,tool_id=toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1])
Handler 'main' assigned using 'db-preassign' assignment method
galaxy.tools.execute DEBUG 2019-06-25 10:38:10,506 Tool
[toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1]
created job [1512] (175.969 ms)
galaxy.tools.execute DEBUG 2019-06-25 10:38:10,514 Executed 1 job(s) for tool
toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1
request: (206.577 ms)
73.16.113.171 - - [25/Jun/2019:10:38:10 -0900] "POST /api/tools HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:38:10 -0900] "GET /api/webhooks HTTP/1.0" 200
-
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
galaxy.jobs.mapper DEBUG 2019-06-25 10:38:10,812 (1512) Mapped job to
destination id: local
galaxy.jobs.handler DEBUG 2019-06-25 10:38:10,859 (1512) Dispatching to local
runner
galaxy.jobs DEBUG 2019-06-25 10:38:10,911 (1512) Persisting job destination
(destination id: local)
galaxy.jobs DEBUG 2019-06-25 10:38:10,914 (1512) Working directory for job is:
/home/galaxy/galaxy/database/jobs_directory/001/1512
galaxy.jobs.runners DEBUG 2019-06-25 10:38:10,941 Job [1512] queued (81.315 ms)
galaxy.jobs.handler INFO 2019-06-25 10:38:10,961 (1512) Job dispatched
73.16.113.171 - - [25/Jun/2019:10:38:10 -0900] "GET
/api/histories/80cd097337880ba6/contents?details=347a23c1eeb904d6%2C507570fa0cf6094f%2Ce46d913b9d31b8bb%2Ca8e3e6b9bab391cb%2C6d859447875f8a96%2C4c9fabe2147a5cf5%2C0cc55343e470d0e1&order=hid&v=dev&q=update_time-ge&q=deleted&q=purged&qv=2019-06-25T19%3A34%3A26.000Z&qv=False&qv=False
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
galaxy.tools.deps DEBUG 2019-06-25 10:38:11,158 Using dependency pandas version
0.22.0 of type conda
galaxy.tools.deps DEBUG 2019-06-25 10:38:11,158 Using dependency scikit-learn
version 0.19.1 of type conda
galaxy.tools.deps.conda_util DEBUG 2019-06-25 10:38:11,159 Executing command:
/home/galaxy/galaxy/database/dependencies/_conda/bin/conda list --name
__pandas@0.22.0 --export >
'./database/tmp/jobdepsX2AH_ma5cc10bd2db8c3cc09fcfb66383a0dbdb32360bb1ee566b16b33514ebbfb623e/__pandas@0.22.0'
galaxy.tools.deps.conda_util DEBUG 2019-06-25 10:38:11,570 Executing command:
/home/galaxy/galaxy/database/dependencies/_conda/bin/conda create -y --quiet
--override-channels --channel iuc --channel conda-forge --channel bioconda
--channel defaults --unknown --use-index-cache --prefix
/home/galaxy/galaxy/database/jobs_directory/001/1512/conda-env --file
./database/tmp/jobdepsX2AH_ma5cc10bd2db8c3cc09fcfb66383a0dbdb32360bb1ee566b16b33514ebbfb623e/__pandas@0.22.0
73.16.113.171 - - [25/Jun/2019:10:38:16 -0900] "GET
/api/histories/80cd097337880ba6/contents?details=347a23c1eeb904d6%2C507570fa0cf6094f%2Ce46d913b9d31b8bb%2Ca8e3e6b9bab391cb%2C6d859447875f8a96%2C4c9fabe2147a5cf5%2C0cc55343e470d0e1&order=hid&v=dev&q=update_time-ge&q=deleted&q=purged&qv=2019-06-25T19%3A38%3A10.000Z&qv=False&qv=False
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
Package plan for installation in environment
/home/galaxy/galaxy/database/jobs_directory/001/1512/conda-env:
The following NEW packages will be INSTALLED:
blas: 1.0-mkl conda-forge
ca-certificates: 2018.11.29-ha4d7672_0 conda-forge
certifi: 2018.11.29-py36_1000 conda-forge
intel-openmp: 2019.1-144
libffi: 3.2.1-hf484d3e_1005 conda-forge
libgcc-ng: 7.3.0-hdf63c60_0 conda-forge
libgfortran-ng: 7.2.0-hdf63c60_3 conda-forge
libstdcxx-ng: 7.3.0-hdf63c60_0 conda-forge
mkl: 2019.1-144
mkl_fft: 1.0.10-py36h14c3975_1 conda-forge
mkl_random: 1.0.2-py36h637b7d7_2 conda-forge
ncurses: 6.1-hf484d3e_1002 conda-forge
numpy: 1.15.4-py36h7e9f1db_0
numpy-base: 1.15.4-py36hde5b4d6_0
openssl: 1.0.2p-h14c3975_1002 conda-forge
pandas: 0.22.0-py36_1 conda-forge
pip: 19.0.2-py36_0 conda-forge
python: 3.6.7-hd21baee_1001 conda-forge
python-dateutil: 2.8.0-py_0 conda-forge
pytz: 2018.9-py_0 conda-forge
readline: 7.0-hf8c457e_1001 conda-forge
setuptools: 40.8.0-py36_0 conda-forge
six: 1.12.0-py36_1000 conda-forge
sqlite: 3.26.0-h67949de_1000 conda-forge
tk: 8.6.9-h84994c4_1000 conda-forge
wheel: 0.33.0-py36_0 conda-forge
xz: 5.2.4-h14c3975_1001 conda-forge
zlib: 1.2.11-h14c3975_1004 conda-forge
CondaError: CondaHTTPError: HTTP 404 NOT FOUND for url
<https://conda.anaconda.org/conda-forge/linux-64/libgcc-ng-7.3.0-hdf63c60_0.tar.bz2>
Elapsed: 00:00.027142
CF-RAY: 4ec966a46e12a60d-IND
An HTTP error occurred when trying to retrieve this URL.
HTTP errors are often intermittent, and a simple retry will get you on your way.
CondaError: CondaHTTPError: HTTP 404 NOT FOUND for url
<https://conda.anaconda.org/conda-forge/linux-64/libgcc-ng-7.3.0-hdf63c60_0.tar.bz2>
Elapsed: 00:00.048632
CF-RAY: 4ec966a4cfeda607-IND
An HTTP error occurred when trying to retrieve this URL.
HTTP errors are often intermittent, and a simple retry will get you on your way.
CondaError: CondaHTTPError: HTTP 404 NOT FOUND for url
<https://conda.anaconda.org/conda-forge/linux-64/libgcc-ng-7.3.0-hdf63c60_0.tar.bz2>
Elapsed: 00:00.042120
CF-RAY: 4ec966a5180ea607-IND
An HTTP error occurred when trying to retrieve this URL.
HTTP errors are often intermittent, and a simple retry will get you on your way.
galaxy.tools.deps.conda_util DEBUG 2019-06-25 10:38:18,447 Executing command:
/home/galaxy/galaxy/database/dependencies/_conda/bin/conda clean --tarballs -y
Cache location: /home/galaxy/galaxy/database/dependencies/_conda/pkgs
Will remove the following tarballs:
/home/galaxy/galaxy/database/dependencies/_conda/pkgs
-----------------------------------------------------
intel-openmp-2019.1-144.tar.bz2 885 KB
ca-certificates-2018.11.29-ha4d7672_0.tar.bz2 143 KB
---------------------------------------------------
Total: 1.0 MB
Removed intel-openmp-2019.1-144.tar.bz2
Removed ca-certificates-2018.11.29-ha4d7672_0.tar.bz2
galaxy.jobs.runners ERROR 2019-06-25 10:38:18,875 (1512) Failure preparing job
Traceback (most recent call last):
File "/home/galaxy/galaxy/lib/galaxy/jobs/runners/__init__.py", line 223, in
prepare_job
modify_command_for_container=modify_command_for_container
File "/home/galaxy/galaxy/lib/galaxy/jobs/runners/__init__.py", line 257, in
build_command_line
container=container
File "/home/galaxy/galaxy/lib/galaxy/jobs/command_factory.py", line 69, in
build_command
__handle_dependency_resolution(commands_builder, job_wrapper,
remote_command_params)
File "/home/galaxy/galaxy/lib/galaxy/jobs/command_factory.py", line 162, in
__handle_dependency_resolution
if local_dependency_resolution and job_wrapper.dependency_shell_commands:
File "/home/galaxy/galaxy/lib/galaxy/jobs/__init__.py", line 737, in
dependency_shell_commands
job_directory=self.working_directory
File "/home/galaxy/galaxy/lib/galaxy/tools/__init__.py", line 1584, in
build_dependency_shell_commands
tool_instance=self
File "/home/galaxy/galaxy/lib/galaxy/tools/deps/__init__.py", line 127, in
dependency_shell_commands
return [dependency.shell_commands() for dependency in ordered_dependencies
if not isinstance(dependency, ContainerDependency)]
File "/home/galaxy/galaxy/lib/galaxy/tools/deps/resolvers/conda.py", line
468, in shell_commands
self.build_environment()
File "/home/galaxy/galaxy/lib/galaxy/tools/deps/resolvers/conda.py", line
463, in build_environment
raise DependencyException("Conda dependency seemingly installed but failed
to build job environment.")
DependencyException: Conda dependency seemingly installed but failed to build
job environment.
galaxy.tools.error_reports DEBUG 2019-06-25 10:38:19,413 Bug report plugin
<galaxy.tools.error_reports.plugins.sentry.SentryPlugin object at
0x7feb19a88d10> generated response None
galaxy.tools.error_reports DEBUG 2019-06-25 10:38:19,413 Bug report plugin
<galaxy.tools.error_reports.plugins.sentry.SentryPlugin object at
0x7feb19a88d10> generated response None
galaxy.tools.error_reports DEBUG 2019-06-25 10:38:19,413 Bug report plugin
<galaxy.tools.error_reports.plugins.sentry.SentryPlugin object at
0x7feb19a88d10> generated response None
galaxy.model.metadata DEBUG 2019-06-25 10:38:19,417 Cleaning up external
metadata files
73.16.113.171 - - [25/Jun/2019:10:38:21 -0900] "GET
/api/histories/80cd097337880ba6/contents?details=347a23c1eeb904d6%2C507570fa0cf6094f%2Ce46d913b9d31b8bb%2Ca8e3e6b9bab391cb%2C6d859447875f8a96%2C4c9fabe2147a5cf5%2C0cc55343e470d0e1&order=hid&v=dev&q=update_time-ge&q=deleted&q=purged&qv=2019-06-25T19%3A38%3A16.000Z&qv=False&qv=False
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:38:21 -0900] "GET
/api/histories/80cd097337880ba6?keys=size%2Cnon_ready_jobs%2Ccontents_active%2Chid_counter
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:38:25 -0900] "GET
/api/histories/80cd097337880ba6/contents/datasets/a21e7961042e63e2 HTTP/1.0"
200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=x7nwf73vi1b";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:38:27 -0900] "GET
/api/datasets/a21e7961042e63e2 HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/datasets/error?dataset_id=a21e7961042e63e2&__identifer=k3y1wqdi6mf";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:38:27 -0900] "GET
/api/jobs/38ef4c04be0d2623?full=True HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/datasets/error?dataset_id=a21e7961042e63e2&__identifer=k3y1wqdi6mf";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:39:28 -0900] "GET
/api/tools/toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_nn_classifier/sklearn_nn_classifier/1.0/build?version=1.0&__identifer=7g948yueclv&tool_version=1.0
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fsklearn_nn_classifier%2Fsklearn_nn_classifier%2F1.0&version=1.0&__identifer=7g948yueclv";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:39:29 -0900] "GET /api/webhooks HTTP/1.0" 200
-
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fsklearn_nn_classifier%2Fsklearn_nn_classifier%2F1.0&version=1.0&__identifer=7g948yueclv";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:39:29 -0900] "GET
/api/tools/toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_nn_classifier/sklearn_nn_classifier/1.0/citations
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fsklearn_nn_classifier%2Fsklearn_nn_classifier%2F1.0&version=1.0&__identifer=7g948yueclv";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:39:44 -0900] "GET
/api/tools/toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1/build?version=0.1&__identifer=c9ee3f84pku&tool_version=0.1
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=c9ee3f84pku";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:39:44 -0900] "GET /api/webhooks HTTP/1.0" 200
-
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=c9ee3f84pku";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"
73.16.113.171 - - [25/Jun/2019:10:39:48 -0900] "POST
/api/tools/toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1/build
HTTP/1.0" 200 -
"http://jetstream.lappsgrid.org/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.1&version=0.1&__identifer=c9ee3f84pku";
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_14_5) AppleWebKit/605.1.15 (KHTML,
like Gecko) Version/12.1.1 Safari/605.1.15"___________________________________________________________
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