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June 19, 2018 14:37
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failed planemo test with TEMP with a space in it
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$ export TEMP='/tmp/foo bar' | |
$ mkdir /tmp/foo\ bar | |
$ planemo test picard_FastqToSam.xml | |
git --git-dir /home/pvh/.planemo/gx_repo fetch >/dev/null 2>&1 | |
cd /tmp/foo bar/tmpWFLz4i; git clone --branch 'master' '/home/pvh/.planemo/gx_repo' 'galaxy-dev'; cd galaxy-dev; if [ -d .venv ] || [ -f dist-eggs.ini ]; then GALAXY_VIRTUAL_ENV=.venv; else GALAXY_VIRTUAL_ENV=/home/pvh/.planemo/gx_venv; fi; export GALAXY_VIRTUAL_ENV; if [ ! -e $GALAXY_VIRTUAL_ENV ]; then /home/pvh/.virtualenvs/planemo/bin/virtualenv -p /home/pvh/.virtualenvs/planemo/bin/python2.7 $GALAXY_VIRTUAL_ENV; fi; [ -e $GALAXY_VIRTUAL_ENV ] && . $GALAXY_VIRTUAL_ENV/bin/activate; COMMON_STARTUP_ARGS=; $(grep -q 'skip-venv' run_tests.sh) && COMMON_STARTUP_ARGS="--dev-wheels"; export COMMON_STARTUP_ARGS; echo "Set COMMON_STARTUP_ARGS to ${COMMON_STARTUP_ARGS}"; ./scripts/common_startup.sh ${COMMON_STARTUP_ARGS} | |
/bin/sh: 1: cd: can't cd to /tmp/foo | |
Cloning into 'galaxy-dev'... | |
done. | |
Set COMMON_STARTUP_ARGS to --dev-wheels | |
Initializing config/migrated_tools_conf.xml from migrated_tools_conf.xml.sample | |
Initializing config/shed_tool_conf.xml from shed_tool_conf.xml.sample | |
Initializing config/shed_tool_data_table_conf.xml from shed_tool_data_table_conf.xml.sample | |
Initializing config/shed_data_manager_conf.xml from shed_data_manager_conf.xml.sample | |
Initializing tool-data/shared/ucsc/builds.txt from builds.txt.sample | |
Initializing tool-data/shared/ucsc/manual_builds.txt from manual_builds.txt.sample | |
Initializing static/welcome.html from welcome.html.sample | |
Activating virtualenv at /home/pvh/.planemo/gx_venv | |
Requirement already satisfied: pip>=8.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages | |
You are using pip version 9.0.3, however version 10.0.1 is available. | |
You should consider upgrading via the 'pip install --upgrade pip' command. | |
Requirement already satisfied: numpy==1.9.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 4)) | |
Requirement already satisfied: bx-python==0.7.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 5)) | |
Requirement already satisfied: MarkupSafe==1.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 6)) | |
Requirement already satisfied: PyYAML==3.12 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 7)) | |
Requirement already satisfied: SQLAlchemy==1.0.15 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 8)) | |
Requirement already satisfied: sqlalchemy-utils==0.32.19 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 9)) | |
Requirement already satisfied: mercurial==3.7.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 10)) | |
Requirement already satisfied: pycrypto==2.6.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 11)) | |
Requirement already satisfied: uWSGI==2.0.15 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 12)) | |
Requirement already satisfied: pysam==0.14 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 14)) | |
Requirement already satisfied: bz2file==0.98 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 21)) | |
Requirement already satisfied: ipaddress==1.0.18 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 22)) | |
Requirement already satisfied: boltons==17.1.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 23)) | |
Requirement already satisfied: Paste==2.0.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 24)) | |
Requirement already satisfied: PasteDeploy==1.5.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 25)) | |
Requirement already satisfied: docutils==0.14 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 26)) | |
Requirement already satisfied: repoze.lru==0.6 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 27)) | |
Requirement already satisfied: Routes==2.4.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 28)) | |
Requirement already satisfied: WebOb==1.4.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 29)) | |
Requirement already satisfied: WebHelpers==1.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 30)) | |
Requirement already satisfied: Mako==1.0.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 31)) | |
Requirement already satisfied: pytz==2017.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 32)) | |
Requirement already satisfied: Babel==2.5.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 33)) | |
Requirement already satisfied: Beaker==1.7.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 34)) | |
Requirement already satisfied: dictobj==0.3.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 35)) | |
Requirement already satisfied: nose==1.3.7 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 36)) | |
Requirement already satisfied: Parsley==1.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 37)) | |
Requirement already satisfied: six==1.11.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 38)) | |
Requirement already satisfied: Whoosh==2.7.4 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 39)) | |
Requirement already satisfied: galaxy_sequence_utils==1.0.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 40)) | |
Requirement already satisfied: h5py==2.7.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 41)) | |
Requirement already satisfied: packaging==16.8 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 42)) | |
Requirement already satisfied: pykwalify==1.6.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 45)) | |
Requirement already satisfied: python-dateutil==2.5.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 46)) | |
Requirement already satisfied: docopt==0.6.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 47)) | |
Requirement already satisfied: Cheetah==2.4.4 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 50)) | |
Requirement already satisfied: Markdown==2.6.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 51)) | |
Requirement already satisfied: requests==2.18.4 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 54)) | |
Requirement already satisfied: certifi==2017.7.27.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 55)) | |
Requirement already satisfied: urllib3==1.22 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 56)) | |
Requirement already satisfied: chardet==3.0.4 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 57)) | |
Requirement already satisfied: idna==2.6 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 58)) | |
Requirement already satisfied: bioblend==0.7.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 61)) | |
Requirement already satisfied: boto==2.38.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 62)) | |
Requirement already satisfied: requests-toolbelt==0.8.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 63)) | |
Requirement already satisfied: kombu==3.0.30 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 67)) | |
Requirement already satisfied: amqp==1.4.8 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 68)) | |
Requirement already satisfied: anyjson==0.3.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 69)) | |
Requirement already satisfied: psutil==4.1.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 72)) | |
Requirement already satisfied: pulsar-galaxy-lib==0.8.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 73)) | |
Requirement already satisfied: sqlalchemy-migrate==0.11.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 76)) | |
Requirement already satisfied: decorator==4.0.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 77)) | |
Requirement already satisfied: Tempita==0.5.3dev in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 78)) | |
Requirement already satisfied: sqlparse==0.1.16 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 79)) | |
Requirement already satisfied: pbr==3.1.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 80)) | |
Requirement already satisfied: svgwrite==1.1.6 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 83)) | |
Requirement already satisfied: pyparsing==2.1.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 84)) | |
Requirement already satisfied: Fabric==1.13.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 87)) | |
Requirement already satisfied: paramiko==2.2.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 88)) | |
Requirement already satisfied: ecdsa==0.13 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 89)) | |
Requirement already satisfied: python-genomespaceclient==0.1.8 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r requirements.txt (line 92)) | |
Requirement already satisfied: funcsigs==1.0.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 1)) | |
Requirement already satisfied: recommonmark==0.4.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 2)) | |
Requirement already satisfied: snowballstemmer==1.2.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 3)) | |
Requirement already satisfied: nosehtml==0.4.4 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 4)) | |
Requirement already satisfied: pygments==2.2.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 5)) | |
Requirement already satisfied: watchdog==0.8.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 6)) | |
Requirement already satisfied: lxml==4.1.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 7)) | |
Requirement already satisfied: selenium==3.6.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 10)) | |
Requirement already satisfied: commonmark==0.5.4 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 11)) | |
Requirement already satisfied: typing==3.6.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 13)) | |
Requirement already satisfied: mock==2.0.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 15)) | |
Requirement already satisfied: testfixtures==5.3.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 16)) | |
Requirement already satisfied: imagesize==0.7.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 17)) | |
Requirement already satisfied: alabaster==0.7.10 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 18)) | |
Requirement already satisfied: argh==0.26.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 20)) | |
Requirement already satisfied: jinja2==2.9.6 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 23)) | |
Requirement already satisfied: twill==0.9.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 24)) | |
Requirement already satisfied: pygithub3==0.5.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 25)) | |
Requirement already satisfied: sphinx==1.6.5 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 27)) | |
Requirement already satisfied: sphinxcontrib-websupport==1.0.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 29)) | |
Requirement already satisfied: pathtools==0.1.2 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 30)) | |
Requirement already satisfied: sphinx-rtd-theme==0.2.4 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 31)) | |
Requirement already satisfied: nodeenv==1.2.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from -r ./lib/galaxy/dependencies/dev-requirements.txt (line 36)) | |
Requirement already satisfied: PasteScript in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from pulsar-galaxy-lib==0.8.0->-r requirements.txt (line 73)) | |
Requirement already satisfied: pynacl>=1.0.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from paramiko==2.2.1->-r requirements.txt (line 88)) | |
Requirement already satisfied: pyasn1>=0.1.7 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from paramiko==2.2.1->-r requirements.txt (line 88)) | |
Requirement already satisfied: bcrypt>=3.1.3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from paramiko==2.2.1->-r requirements.txt (line 88)) | |
Requirement already satisfied: cryptography>=1.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from paramiko==2.2.1->-r requirements.txt (line 88)) | |
Requirement already satisfied: boto3 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from python-genomespaceclient==0.1.8->-r requirements.txt (line 92)) | |
Requirement already satisfied: python-swiftclient in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from python-genomespaceclient==0.1.8->-r requirements.txt (line 92)) | |
Requirement already satisfied: setuptools in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from sphinx==1.6.5->-r ./lib/galaxy/dependencies/dev-requirements.txt (line 27)) | |
Requirement already satisfied: cffi>=1.4.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from pynacl>=1.0.1->paramiko==2.2.1->-r requirements.txt (line 88)) | |
Requirement already satisfied: enum34; python_version < "3" in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from cryptography>=1.1->paramiko==2.2.1->-r requirements.txt (line 88)) | |
Requirement already satisfied: asn1crypto>=0.21.0 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from cryptography>=1.1->paramiko==2.2.1->-r requirements.txt (line 88)) | |
Requirement already satisfied: jmespath<1.0.0,>=0.7.1 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from boto3->python-genomespaceclient==0.1.8->-r requirements.txt (line 92)) | |
Requirement already satisfied: s3transfer<0.2.0,>=0.1.10 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from boto3->python-genomespaceclient==0.1.8->-r requirements.txt (line 92)) | |
Requirement already satisfied: botocore<1.10.0,>=1.9.16 in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from boto3->python-genomespaceclient==0.1.8->-r requirements.txt (line 92)) | |
Requirement already satisfied: futures>=3.0; python_version == "2.7" or python_version == "2.6" in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from python-swiftclient->python-genomespaceclient==0.1.8->-r requirements.txt (line 92)) | |
Requirement already satisfied: pycparser in /home/pvh/.planemo/gx_venv/lib/python2.7/site-packages (from cffi>=1.4.1->pynacl>=1.0.1->paramiko==2.2.1->-r requirements.txt (line 88)) | |
You are using pip version 9.0.3, however version 10.0.1 is available. | |
You should consider upgrading via the 'pip install --upgrade pip' command. | |
Testing using galaxy_root /tmp/foo bar/tmpWFLz4i/galaxy-dev | |
Testing tools with command [cd /tmp/foo bar/tmpWFLz4i/galaxy-dev; if [ -d .venv ] || [ -f dist-eggs.ini ]; then GALAXY_VIRTUAL_ENV=.venv; else GALAXY_VIRTUAL_ENV=/home/pvh/.planemo/gx_venv; fi; export GALAXY_VIRTUAL_ENV; if [ ! -e $GALAXY_VIRTUAL_ENV ]; then /home/pvh/.virtualenvs/planemo/bin/virtualenv -p /home/pvh/.virtualenvs/planemo/bin/python2.7 $GALAXY_VIRTUAL_ENV; fi; [ -e $GALAXY_VIRTUAL_ENV ] && . $GALAXY_VIRTUAL_ENV/bin/activate; sh run_tests.sh $COMMON_STARTUP_ARGS --report_file /home/pvh/Documents/code/SANBI/pvh-forks/tools-iuc/tools/picard/tool_test_output.html --xunit_report_file /tmp/foo bar/tmpWFLz4i/xunit.xml --structured_data_report_file /home/pvh/Documents/code/SANBI/pvh-forks/tools-iuc/tools/picard/tool_test_output.json functional.test_toolbox] | |
/bin/sh: 1: cd: can't cd to /tmp/foo | |
sh: 0: Can't open run_tests.sh | |
Cannot locate xUnit report [/tmp/foo bar/tmpWFLz4i/xunit.xml] for tests - required to build planemo report and summarize tests. | |
Traceback (most recent call last): | |
File "/home/pvh/.virtualenvs/planemo/bin/planemo", line 11, in <module> | |
sys.exit(planemo()) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/click/core.py", line 722, in __call__ | |
return self.main(*args, **kwargs) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/click/core.py", line 697, in main | |
rv = self.invoke(ctx) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/click/core.py", line 1066, in invoke | |
return _process_result(sub_ctx.command.invoke(sub_ctx)) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/click/core.py", line 895, in invoke | |
return ctx.invoke(self.callback, **ctx.params) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/click/core.py", line 535, in invoke | |
return callback(*args, **kwargs) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/click/decorators.py", line 64, in new_func | |
return ctx.invoke(f, obj, *args[1:], **kwargs) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/click/core.py", line 535, in invoke | |
return callback(*args, **kwargs) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/planemo/cli.py", line 178, in handle_blended_options | |
return f(*args, **kwds) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/planemo/commands/cmd_test.py", line 76, in cli | |
return_value = run_in_config(ctx, config, **kwds) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/planemo/galaxy/test/actions.py", line 100, in run_in_config | |
_check_test_outputs(xunit_report_file_tracker, structured_report_file_tracker) | |
File "/home/pvh/.virtualenvs/planemo/local/lib/python2.7/site-packages/planemo/galaxy/test/actions.py", line 281, in _check_test_outputs | |
raise Exception(message) | |
Exception: Cannot locate xUnit report [/tmp/foo bar/tmpWFLz4i/xunit.xml] for tests - required to build planemo report and summarize tests. |
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