============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================

Coverage.py warning: No data was collected. (no-data-collected)

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================

Coverage.py warning: No data was collected. (no-data-collected)

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================

Coverage.py warning: No data was collected. (no-data-collected)

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================

Coverage.py warning: No data was collected. (no-data-collected)

This program will guide you through creating a new package.
Creating private remote Git repository "KarrLab/test_a" on GitHub and cloning this repository to "/tmp/tmpsb3kgfbh/test_a"
Visit "https://codeclimate.com/dashboard" and click on the "KarrLab" organization.
Click the "Add a repository" button
Click the "Sync now" button
Click the "Add Repo" button for the "test_a" repository
Click the "Repo Settings" link
Cick the "Test coverage" menu item
Cick the "Badges" menu item
Visit "https://coveralls.io"
Click the "ADD REPOS" button
Click the "SYNC REPOS" button
Search for the "KarrLab/test_a" repository and click its "OFF" button
Click the details button for the "KarrLab/test_a" repository
Click the "Settings" menu item
Click the "README BADGE" EMBED" button
Visit "https://circleci.com/add-projects/gh/KarrLab"
Search for the "test_a" repository and click its "Set Up Project" button
Click the "Start building" button. Note, the first CircleCI build will fail because no code has yet been pushed.
Click the "Project settings" icon
Click the "API permissions" menu item
Click the "Create Token" button
Select "All", enter a label, and click the "Add Token" button
Visit "https://pypi.org/manage/project/test_a/releases/0.0.1"
Use the "Options" button to delete the file
Enter the project name "test-a"
Click the "Delete file" button
Click the "Collaborators" button
Use the webform to add "karrlab" as an owner
This program will guide you through creating a new package.
Creating public remote Git repository "KarrLab/test_b" on GitHub and cloning this repository to "/tmp/tmpsb3kgfbh/test_b"
Visit "https://codeclimate.com/dashboard" and click on the "Open source" organization.
Click the "Add a repository" button
Click the "Sync now" button
Click the "Add Repo" button for the "test_b" repository
Click the "Repo Settings" link
Cick the "Test coverage" menu item
Cick the "Badges" menu item
Visit "https://coveralls.io"
Click the "ADD REPOS" button
Click the "SYNC REPOS" button
Search for the "KarrLab/test_b" repository and click its "OFF" button
Click the details button for the "KarrLab/test_b" repository
Click the "Settings" menu item
Visit "https://circleci.com/add-projects/gh/KarrLab"
Search for the "test_b" repository and click its "Set Up Project" button
Click the "Start building" button. Note, the first CircleCI build will fail because no code has yet been pushed.
Click the "Project settings" icon
Click the "Checkout SSH keys" button
Click the "Authorize with GitHub" button
Click the "Create and add ... user key" button
Visit "https://readthedocs.org/dashboard/import/?"
Click the "refresh" icon
Find the "test_b" repository and click its "+" button
Click the "Next" button
Click the "Admin" menu item
Click the "Advanced settings" menu item
Set the "Requirements file" to "docs/requirements.rtd.txt"
Set the "Python configuration file" to "docs/conf.py"
Set the "Python interpreter" to "CPython 3.x"
Click the "Maintainers" menu item
Add "karr-lab-daemon" to the maintainers
Click the "Notifications" menu item
Add your email address and click submit
Add "jonrkarr@gmail.com" and click submit
Visit "https://pypi.org/manage/project/test_b/releases/0.0.1"
Use the "Options" button to delete the file
Enter the project name "test-b"
Click the "Delete file" button
Click the "Collaborators" button
Use the webform to add "karrlab" as an owner
This program will guide you through creating a new package.
Creating public remote Git repository "KarrLab/test_c" on GitHub and cloning this repository to "/tmp/tmpsb3kgfbh/test_c"
Visit "https://codeclimate.com/dashboard" and click on the "Open source" organization.
Click the "Add a repository" button
Click the "Sync now" button
Click the "Add Repo" button for the "test_c" repository
Click the "Repo Settings" link
Cick the "Test coverage" menu item
Cick the "Badges" menu item
Visit "https://coveralls.io"
Click the "ADD REPOS" button
Click the "SYNC REPOS" button
Search for the "KarrLab/test_c" repository and click its "OFF" button
Click the details button for the "KarrLab/test_c" repository
Click the "Settings" menu item
Visit "https://circleci.com/add-projects/gh/KarrLab"
Search for the "test_c" repository and click its "Set Up Project" button
Click the "Start building" button. Note, the first CircleCI build will fail because no code has yet been pushed.
Visit "https://readthedocs.org/dashboard/import/?"
Click the "refresh" icon
Find the "test_c" repository and click its "+" button
Click the "Next" button
Click the "Admin" menu item
Click the "Advanced settings" menu item
Set the "Requirements file" to "docs/requirements.rtd.txt"
Set the "Python configuration file" to "docs/conf.py"
Set the "Python interpreter" to "CPython 3.x"
Click the "Maintainers" menu item
Add "karr-lab-daemon" to the maintainers
Click the "Notifications" menu item
Add your email address and click submit
Add "jonrkarr@gmail.com" and click submit
Visit "https://pypi.org/manage/project/test_c/releases/0.0.1"
Use the "Options" button to delete the file
Enter the project name "test-c"
Click the "Delete file" button
Click the "Collaborators" button
Use the webform to add "karrlab" as an owner

usage: karr_lab_build_utils docker [-h]
                                   {remove-container,run-tests-in-container,install-package-to-container,create-container}
                                   ...

Docker utilities

optional arguments:
  -h, --help            show this help message and exit

sub-commands:
  {remove-container,run-tests-in-container,install-package-to-container,create-container}
    remove-container    Remove a Docker container
    run-tests-in-container
                        Run tests in a Docker container
    install-package-to-container
                        Copy and install a package to a Docker container
    create-container    Create a Docker container for running tests

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Requirement already satisfied: jinja2 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 11)) (2.10.3)
Requirement already satisfied: mock in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 12)) (3.0.5)
Requirement already satisfied: natsort in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 13)) (6.2.0)
Requirement already satisfied: networkx in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 14)) (2.4)
Requirement already satisfied: nose in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 15)) (1.3.7)
Requirement already satisfied: pip>=19.3 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 16)) (19.3.1)
Requirement already satisfied: pip_check_reqs>=2.0.3 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 17)) (2.0.3)
Requirement already satisfied: pkg_utils[all] in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 18)) (0.0.5)
Requirement already satisfied: pygithub in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 19)) (1.45)
Requirement already satisfied: pylint>=2.1.1 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 20)) (2.4.4)
Requirement already satisfied: pypandoc in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 21)) (1.4)
Requirement already satisfied: pytest in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 22)) (5.3.2)
Requirement already satisfied: python_dateutil in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 23)) (2.8.0)
Requirement already satisfied: pyyaml>=5.1 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 24)) (5.3)
Requirement already satisfied: quilt3>=3.1.3 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 25)) (3.1.8)
Requirement already satisfied: requests in /usr/local/lib/python3.7/site-packages/requests-2.22.0-py3.7.egg (from -r /tmp/tmpawv9hydu.txt (line 26)) (2.22.0)
Requirement already satisfied: setuptools>=40.0.0 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 27)) (44.0.0)
Requirement already satisfied: sphinx>=1.8 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 28)) (2.3.1)
Requirement already satisfied: sphinx_fontawesome in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 29)) (0.0.6)
Requirement already satisfied: sphinx_rtd_theme>=0.4.2 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 30)) (0.4.3)
Requirement already satisfied: sphinxcontrib_addmetahtml>=0.1.1 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 31)) (0.1.1)
Requirement already satisfied: sphinxcontrib_bibtex in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 32)) (1.0.0)
Requirement already satisfied: sphinxcontrib_googleanalytics>=0.1.1 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 33)) (0.1.1)
Requirement already satisfied: sphinxcontrib_spelling in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 34)) (4.3.0)
Requirement already satisfied: sphinxprettysearchresults in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 35)) (0.3.5)
Requirement already satisfied: twine in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 36)) (3.1.1)
Requirement already satisfied: wc_utils[all] in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 37)) (0.0.15)
Requirement already satisfied: wheel in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 38)) (0.33.6)
Requirement already satisfied: whichcraft in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 39)) (0.6.1)
Requirement already satisfied: capturer in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpawv9hydu.txt (line 40)) (2.4)
Requirement already satisfied: contextlib2 in /usr/local/lib/python3.7/site-packages (from abduct->-r /tmp/tmpawv9hydu.txt (line 1)) (0.6.0.post1)
Requirement already satisfied: six in /usr/local/lib/python3.7/site-packages/six-1.12.0-py3.7.egg (from attrdict->-r /tmp/tmpawv9hydu.txt (line 2)) (1.12.0)
Requirement already satisfied: docopt>=0.6.1 in /usr/local/lib/python3.7/site-packages (from coveralls->-r /tmp/tmpawv9hydu.txt (line 7)) (0.6.2)
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Requirement already satisfied: MarkupSafe>=0.23 in /usr/local/lib/python3.7/site-packages (from jinja2->-r /tmp/tmpawv9hydu.txt (line 11)) (1.1.1)
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Requirement already satisfied: configparser in /usr/local/lib/python3.7/site-packages (from pkg_utils[all]->-r /tmp/tmpawv9hydu.txt (line 18)) (4.0.2)
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Requirement already satisfied: sphinxcontrib_bibtex in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpr6asia15.txt (line 32)) (1.0.0)
Requirement already satisfied: sphinxcontrib_googleanalytics>=0.1.1 in /usr/local/lib/python3.7/site-packages (from -r /tmp/tmpr6asia15.txt (line 33)) (0.1.1)
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Requirement already satisfied: docopt>=0.6.1 in /usr/local/lib/python3.7/site-packages (from coveralls->-r /tmp/tmpr6asia15.txt (line 7)) (0.6.2)
Requirement already satisfied: gitdb2>=2.0.0 in /usr/local/lib/python3.7/site-packages (from gitpython->-r /tmp/tmpr6asia15.txt (line 9)) (2.0.6)
Requirement already satisfied: MarkupSafe>=0.23 in /usr/local/lib/python3.7/site-packages (from jinja2->-r /tmp/tmpr6asia15.txt (line 11)) (1.1.1)
Requirement already satisfied: decorator>=4.3.0 in /usr/local/lib/python3.7/site-packages (from networkx->-r /tmp/tmpr6asia15.txt (line 14)) (4.4.1)
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Requirement already satisfied: configparser in /usr/local/lib/python3.7/site-packages (from pkg_utils[all]->-r /tmp/tmpr6asia15.txt (line 18)) (4.0.2)
Requirement already satisfied: requirements-parser>=0.2.0 in /usr/local/lib/python3.7/site-packages (from pkg_utils[all]->-r /tmp/tmpr6asia15.txt (line 18)) (0.2.0)
Requirement already satisfied: deprecated in /usr/local/lib/python3.7/site-packages (from pygithub->-r /tmp/tmpr6asia15.txt (line 19)) (1.2.7)
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Requirement already satisfied: attrs>=17.4.0 in /usr/local/lib/python3.7/site-packages (from pytest->-r /tmp/tmpr6asia15.txt (line 22)) (19.3.0)
Requirement already satisfied: pluggy<1.0,>=0.12 in /usr/local/lib/python3.7/site-packages (from pytest->-r /tmp/tmpr6asia15.txt (line 22)) (0.13.1)
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WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.

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WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.

project/tests/test_core.py:718: Test requires Docker and Docker isnt installed. See installation instructions at `https://docs.karrlab.org/intro_to_wc_modeling/latest/installation.html`

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================
************* Module karr_lab_build_utils.core
 karr_lab_build_utils/core.py:1119: warning (W0613, unused-argument, BuildHelper._get_test_cases) Unused argument 'with_xunit'
 karr_lab_build_utils/core.py:1119: warning (W0613, unused-argument, BuildHelper._get_test_cases) Unused argument 'exit_on_failure'
 karr_lab_build_utils/core.py:1155: warning (W0612, unused-variable, BuildHelper._get_test_cases) Unused variable 'files'
 karr_lab_build_utils/core.py:1292: warning (W0612, unused-variable, BuildHelper.install_package_to_docker_container) Unused variable 'rel_filenames'
 karr_lab_build_utils/core.py:1678: warning (W0612, unused-variable, BuildHelper.get_test_results_status) Unused variable 'upstream_build_num'
 karr_lab_build_utils/core.py:35: warning (W0611, unused-import, ) Unused import json
 karr_lab_build_utils/core.py:54: warning (W0611, unused-import, ) Unused import _pytest
 ************* Module karr_lab_build_utils.__main__
 karr_lab_build_utils/__main__.py:191: warning (W0612, unused-variable, DownloadInstallPackageConfigFilesController._default) Unused variable 'args'
 karr_lab_build_utils/__main__.py:10: warning (W0611, unused-import, ) Unused BuildHelperError imported from karr_lab_build_utils.core
 karr_lab_build_utils/__main__.py:13: warning (W0611, unused-import, ) Unused import sys
 ************* Module karr_lab_build_utils.config.core
 karr_lab_build_utils/config/core.py:9: warning (W0611, unused-import, ) Unused import configobj
 Creating file docs/source/karr_lab_build_utils.rst.
Creating file docs/source/karr_lab_build_utils.config.rst.
Creating file docs/source/modules.rst.
Running Sphinx v2.3.1
Initializing Spelling Checker
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generating indices...  genindex py-modindexdone
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build succeeded, 7 warnings.

The HTML pages are in docs/_build/html.
Running Sphinx v2.3.1
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build succeeded, 7 warnings.

The text files are in _build_txt.
************* Module karr_lab_build_utils.core
 karr_lab_build_utils/core.py:1119: warning (W0613, unused-argument, BuildHelper._get_test_cases) Unused argument 'with_xunit'
 karr_lab_build_utils/core.py:1119: warning (W0613, unused-argument, BuildHelper._get_test_cases) Unused argument 'exit_on_failure'
 karr_lab_build_utils/core.py:1155: warning (W0612, unused-variable, BuildHelper._get_test_cases) Unused variable 'files'
 karr_lab_build_utils/core.py:1292: warning (W0612, unused-variable, BuildHelper.install_package_to_docker_container) Unused variable 'rel_filenames'
 karr_lab_build_utils/core.py:1678: warning (W0612, unused-variable, BuildHelper.get_test_results_status) Unused variable 'upstream_build_num'
 karr_lab_build_utils/core.py:35: warning (W0611, unused-import, ) Unused import json
 karr_lab_build_utils/core.py:54: warning (W0611, unused-import, ) Unused import _pytest
 ************* Module karr_lab_build_utils.__main__
 karr_lab_build_utils/__main__.py:191: warning (W0612, unused-variable, DownloadInstallPackageConfigFilesController._default) Unused variable 'args'
 karr_lab_build_utils/__main__.py:10: warning (W0611, unused-import, ) Unused BuildHelperError imported from karr_lab_build_utils.core
 karr_lab_build_utils/__main__.py:13: warning (W0611, unused-import, ) Unused import sys
 ************* Module karr_lab_build_utils.config.core
 karr_lab_build_utils/config/core.py:9: warning (W0611, unused-import, ) Unused import configobj
 Creating file docs/source/karr_lab_build_utils.rst.
Creating file docs/source/karr_lab_build_utils.config.rst.
Creating file docs/source/modules.rst.
Running Sphinx v2.3.1
Initializing Spelling Checker
loading pickled environment... done
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 0 source files that are out of date
updating environment: 0 added, 0 changed, 0 removed
looking for now-outdated files... none found
no targets are out of date.
build succeeded.

The HTML pages are in docs/_build/html.
Running Sphinx v2.3.1
loading translations [en]... done
Initializing Spelling Checker
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build succeeded, 7 warnings.

The text files are in _build_txt.

Coverage.py warning: No data was collected. (no-data-collected)
/root/project/docs/about.rst:2: WARNING: Duplicate explicit target name: "karr lab".
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:18: WARNING: Unexpected indentation.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:19: WARNING: Block quote ends without a blank line; unexpected unindent.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.trigger_tests_of_downstream_dependencies:11: WARNING: Unexpected indentation.
/root/project/docs/source/karr_lab_build_utils.config.rst:5: WARNING: duplicate label submodules, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/source/karr_lab_build_utils.config.rst:17: WARNING: duplicate label module contents, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/tutorial_admins.rst:45: WARNING: Unknown target name: "pylint https://www.pylint.org/".
/root/project/docs/about.rst:2: WARNING: Duplicate explicit target name: "karr lab".
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:18: WARNING: Unexpected indentation.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:19: WARNING: Block quote ends without a blank line; unexpected unindent.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.trigger_tests_of_downstream_dependencies:11: WARNING: Unexpected indentation.
/root/project/docs/source/karr_lab_build_utils.config.rst:5: WARNING: duplicate label submodules, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/source/karr_lab_build_utils.config.rst:17: WARNING: duplicate label module contents, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/tutorial_admins.rst:45: WARNING: Unknown target name: "pylint https://www.pylint.org/".

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================
************* Module karr_lab_build_utils.core
 karr_lab_build_utils/core.py:1119: warning (W0613, unused-argument, BuildHelper._get_test_cases) Unused argument 'with_xunit'
 karr_lab_build_utils/core.py:1119: warning (W0613, unused-argument, BuildHelper._get_test_cases) Unused argument 'exit_on_failure'
 karr_lab_build_utils/core.py:1155: warning (W0612, unused-variable, BuildHelper._get_test_cases) Unused variable 'files'
 karr_lab_build_utils/core.py:1292: warning (W0612, unused-variable, BuildHelper.install_package_to_docker_container) Unused variable 'rel_filenames'
 karr_lab_build_utils/core.py:1678: warning (W0612, unused-variable, BuildHelper.get_test_results_status) Unused variable 'upstream_build_num'
 karr_lab_build_utils/core.py:35: warning (W0611, unused-import, ) Unused import json
 karr_lab_build_utils/core.py:54: warning (W0611, unused-import, ) Unused import _pytest
 ************* Module karr_lab_build_utils.__main__
 karr_lab_build_utils/__main__.py:191: warning (W0612, unused-variable, DownloadInstallPackageConfigFilesController._default) Unused variable 'args'
 karr_lab_build_utils/__main__.py:10: warning (W0611, unused-import, ) Unused BuildHelperError imported from karr_lab_build_utils.core
 karr_lab_build_utils/__main__.py:13: warning (W0611, unused-import, ) Unused import sys
 ************* Module karr_lab_build_utils.config.core
 karr_lab_build_utils/config/core.py:9: warning (W0611, unused-import, ) Unused import configobj
 Creating file docs/source/karr_lab_build_utils.rst.
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Running Sphinx v2.3.1
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build succeeded.

The HTML pages are in docs/_build/html.
Running Sphinx v2.3.1
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build succeeded, 7 warnings.

The text files are in _build_txt.

Coverage.py warning: No data was collected. (no-data-collected)
/root/project/docs/about.rst:2: WARNING: Duplicate explicit target name: "karr lab".
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:18: WARNING: Unexpected indentation.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:19: WARNING: Block quote ends without a blank line; unexpected unindent.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.trigger_tests_of_downstream_dependencies:11: WARNING: Unexpected indentation.
/root/project/docs/source/karr_lab_build_utils.config.rst:5: WARNING: duplicate label submodules, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/source/karr_lab_build_utils.config.rst:17: WARNING: duplicate label module contents, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/tutorial_admins.rst:45: WARNING: Unknown target name: "pylint https://www.pylint.org/".

Creating file docs/source/karr_lab_build_utils.rst.
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generating indices...  genindex py-modindexdone
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build succeeded, 7 warnings.

The HTML pages are in docs/_build/html.
Running Sphinx v2.3.1
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build succeeded, 7 warnings.

The text files are in _build_txt.
Running Sphinx v2.3.1
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installation.rst:46:Karr:
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source/karr_lab_build_utils.rst:5:Subpackages:
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source/karr_lab_build_utils.rst:15:karr:
source/karr_lab_build_utils.rst:15:utils:
source/karr_lab_build_utils.rst:1:Karr:
source/karr_lab_build_utils.rst:3:Karr:
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source/karr_lab_build_utils.rst:1:Pylint:
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source/karr_lab_build_utils.rst:1:Karr:
source/karr_lab_build_utils.rst:1:webhook:
source/karr_lab_build_utils.rst:5:karrlab:
source/karr_lab_build_utils.rst:23:karr:
source/karr_lab_build_utils.rst:23:utils:
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source/karr_lab_build_utils.rst:3:Karr:
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source/karr_lab_build_utils.rst:8:pytest:
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source/karr_lab_build_utils.rst:74:apidoc:
source/karr_lab_build_utils.rst:146:hostname:
source/karr_lab_build_utils.rst:248:pytest:
source/karr_lab_build_utils.rst:284:apidoc:
source/karr_lab_build_utils.rst:1:Pylint:
source/karr_lab_build_utils.rst:6:Reimported:
source/karr_lab_build_utils.rst:7:init:
source/karr_lab_build_utils.rst:7:py:
source/karr_lab_build_utils.rst:Pylint:
source/karr_lab_build_utils.rst:Pylist:
source/karr_lab_build_utils.rst:rcfile:
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source/karr_lab_build_utils.rst:1:acyclic:
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source/karr_lab_build_utils.rst:1:webhook:
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source/karr_lab_build_utils.rst:9:karrlab:
source/karr_lab_build_utils.rst:14:karrlab:
source/karr_lab_build_utils.rst:str:
source/karr_lab_build_utils.rst:5:Karr:
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source/karr_lab_build_utils.config.rst:8:karr:
source/karr_lab_build_utils.config.rst:8:utils:
source/karr_lab_build_utils.config.rst:8:config:
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tutorial_developers.rst:110:subdirectory:
tutorial_developers.rst:110:subdirectory:

Spelling checker messages written to /root/project/docs/_build/spelling/output.txt
build succeeded, 8 warnings.
Creating file docs/source/karr_lab_build_utils.rst.
Creating file docs/source/karr_lab_build_utils.config.rst.
Creating file docs/source/modules.rst.
Running Sphinx v2.3.1
Initializing Spelling Checker
loading pickled environment... done
building [mo]: targets for 0 po files that are out of date
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looking for now-outdated files... none found
no targets are out of date.
build succeeded.

The HTML pages are in docs/_build/html.
Running Sphinx v2.3.1
loading translations [en]... done
Initializing Spelling Checker
building [mo]: all of 0 po files
building [text]: all source files
updating environment: [new config] 8 added, 0 changed, 0 removed
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build succeeded, 7 warnings.

The text files are in _build_txt.

/root/project/docs/about.rst:2: WARNING: Duplicate explicit target name: "karr lab".
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:18: WARNING: Unexpected indentation.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:19: WARNING: Block quote ends without a blank line; unexpected unindent.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.trigger_tests_of_downstream_dependencies:11: WARNING: Unexpected indentation.
/root/project/docs/source/karr_lab_build_utils.config.rst:5: WARNING: duplicate label submodules, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/source/karr_lab_build_utils.config.rst:17: WARNING: duplicate label module contents, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/tutorial_admins.rst:45: WARNING: Unknown target name: "pylint https://www.pylint.org/".
/root/project/docs/about.rst:2: WARNING: Duplicate explicit target name: "karr lab".
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:18: WARNING: Unexpected indentation.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.do_post_test_tasks:19: WARNING: Block quote ends without a blank line; unexpected unindent.
/root/project/karr_lab_build_utils/core.py:docstring of karr_lab_build_utils.core.BuildHelper.trigger_tests_of_downstream_dependencies:11: WARNING: Unexpected indentation.
/root/project/docs/source/karr_lab_build_utils.config.rst:5: WARNING: duplicate label submodules, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/source/karr_lab_build_utils.config.rst:17: WARNING: duplicate label module contents, other instance in /root/project/docs/source/karr_lab_build_utils.rst
/root/project/docs/tutorial_admins.rst:45: WARNING: Unknown target name: "pylint https://www.pylint.org/".

Creating file docs/source/karr_lab_build_utils.rst.
Creating file docs/source/karr_lab_build_utils.config.rst.
Creating file docs/source/modules.rst.

Exception occurred:
  File "/usr/local/lib/python3.7/site-packages/mock/mock.py", line 1143, in _mock_call
    raise effect
Exception: Test exception
The full traceback has been saved in /tmp/sphinx-err-noqwbujq.log, if you want to report the issue to the developers.
Please also report this if it was a user error, so that a better error message can be provided next time.
A bug report can be filed in the tracker at <https://github.com/sphinx-doc/sphinx/issues>. Thanks!

usage: karr_lab_build_utils [-h] [-d] [-q] [-v]
                            {upload-package-to-pypi,find-unused-requirements,find-missing-requirements,analyze-package,visualize-package-dependencies,are-package-dependencies-acyclic,compile-downstream-dependencies,make-documentation,upload-coverage-report-to-code-climate,upload-coverage-report-to-coveralls,archive-coverage-report,combine-coverage-reports,make-and-archive-reports,do-post-test-tasks,create-code-climate-github-webhook,delete-circleci-environment-variable,set-circleci-environment-variable,get-circleci-environment-variables,follow-circleci-build,docker,run-tests,download-install-package-config-files,create-documentation-template,setup-repository,create-repository,create-package,archive-test-report,install-requirements,upgrade-karr-lab-packages}
                            ...

Karr Lab build utilities

optional arguments:
  -h, --help            show this help message and exit
  -d, --debug           full application debug mode
  -q, --quiet           suppress all console output
  -v, --version         show program's version number and exit

sub-commands:
  {upload-package-to-pypi,find-unused-requirements,find-missing-requirements,analyze-package,visualize-package-dependencies,are-package-dependencies-acyclic,compile-downstream-dependencies,make-documentation,upload-coverage-report-to-code-climate,upload-coverage-report-to-coveralls,archive-coverage-report,combine-coverage-reports,make-and-archive-reports,do-post-test-tasks,create-code-climate-github-webhook,delete-circleci-environment-variable,set-circleci-environment-variable,get-circleci-environment-variables,follow-circleci-build,docker,run-tests,download-install-package-config-files,create-documentation-template,setup-repository,create-repository,create-package,archive-test-report,install-requirements,upgrade-karr-lab-packages}
    upload-package-to-pypi
                        Upload package to PyPI
    find-unused-requirements
                        Finding unused requirements for a package.
    find-missing-requirements
                        Finding missing requirements for a package.
    analyze-package     Perform static analyses of a package using Pylint
    visualize-package-dependencies
                        Visualize downstream package dependencies as a graph
    are-package-dependencies-acyclic
                        Check if the package dependencies are acyclic so they
                        are supported by CircleCI
    compile-downstream-dependencies
                        Compile the downstream dependencies of a package by
                        analyzing the requirements files of other packages
    make-documentation  Make HTML documentation. Optionally, spell check
                        documentation.
    upload-coverage-report-to-code-climate
                        Upload coverage report to Code Climate
    upload-coverage-report-to-coveralls
                        Upload coverage report to Coveralls
    archive-coverage-report
                        Archive coverage report
    combine-coverage-reports
                        Combine coverage reports (.coverage.*) into a single
                        file (.coverage)
    make-and-archive-reports
                        Make and archive reports
    do-post-test-tasks  Do all post-test tasks for CircleCI
    create-code-climate-github-webhook
                        Create Code Climate GitHub webhook for the current
                        repository
    delete-circleci-environment-variable
                        Delete a CircleCI environment variable for a
                        repository
    set-circleci-environment-variable
                        Set a CircleCI environment variable for a repository
    get-circleci-environment-variables
                        Get the CircleCI environment variables for a
                        repository and their partial values
    follow-circleci-build
                        Follow a CircleCI build for a repository
    docker              Docker utilities
    run-tests           Run unit tests located at `test_path`
    download-install-package-config-files
                        Download and install configuration files from GitHub
                        configuration repository
    create-documentation-template
                        Create a Sphinx documentation template for a package
    setup-repository    Setup a local Git repository with the default
                        directory structure
    create-repository   Create a GitHub repository and clone the repository
                        locally
    create-package      - Create local and remote Git repositories; - Setup
                        the directory structure of the repository; - Add the
                        repository to CircleCI, Coveralls, Code Climate, Read
                        the Docs, and code.karrlab.org; - Update the
                        downstream dependencies of the packages dependencies
    archive-test-report
                        Archive test report
    install-requirements
                        Install requirements
    upgrade-karr-lab-packages
                        Upgrade the packages from the Karr Lab's GitHub
                        organization

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
---------- generated xml file: /tmp/tmpwrpmucwx/latest.0-1.3.7.6.xml -----------
========================= 1 passed, 1 warning in 0.02s =========================
============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
---------- generated xml file: /tmp/tmpwrpmucwx/latest.0-1.3.7.6.xml -----------
========================= 1 passed, 1 warning in 0.01s =========================
============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================
============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================

Coverage.py warning: No data was collected. (no-data-collected)
Coverage.py warning: No data was collected. (no-data-collected)
Coverage.py warning: No data was collected. (no-data-collected)
.
----------------------------------------------------------------------
Ran 1 test in 0.002s

OK
Coverage.py warning: No data was collected. (no-data-collected)
Coverage.py warning: No data was collected. (no-data-collected)

project/tests/test_core.py:2773: Test requires the CircleCI command line utility (local executor) and this isnt installed. See installation instructions at `https://docs.karrlab.org/intro_to_wc_modeling/latest/installation.html`.

project/tests/test_core.py:2785: Test requires the CircleCI command line utility (local executor) and this isnt installed. See installation instructions at `https://docs.karrlab.org/intro_to_wc_modeling/latest/installation.html`.

project/tests/test_core.py:740: Test requires Docker and Docker isnt installed. See installation instructions at `https://docs.karrlab.org/intro_to_wc_modeling/latest/installation.html`

project/tests/test_core.py:629: Todo

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

============================== 1 passed in 0.02s ===============================

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .

============================== 1 passed in 0.02s ===============================

.
----------------------------------------------------------------------
Ran 1 test in 0.001s

OK

Collecting pkg-utils[all]
  Cloning https://github.com/KarrLab/pkg_utils.git to /tmp/pip-install-q9g0zg__/pkg-utils
Collecting wc-utils[all]
  Cloning https://github.com/KarrLab/wc_utils.git to /tmp/pip-install-q9g0zg__/wc-utils
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Building wheels for collected packages: pkg-utils, wc-utils
  Building wheel for pkg-utils (setup.py): started
  Building wheel for pkg-utils (setup.py): finished with status 'done'
  Created wheel for pkg-utils: filename=pkg_utils-0.0.5-py2.py3-none-any.whl size=7558 sha256=87a59903b74b0eb1ac6f5f373df6b1ab7bfb2fc713b063808b84f5299df36e46
  Stored in directory: /tmp/pip-ephem-wheel-cache-6wmmet79/wheels/57/3a/20/6f82ae6d2e86c270594fde48c8eb5bd0f1c901e3afc411cd4f
  Building wheel for wc-utils (setup.py): started
  Building wheel for wc-utils (setup.py): finished with status 'done'
  Created wheel for wc-utils: filename=wc_utils-0.0.15-py2.py3-none-any.whl size=68255 sha256=c15183d1d8c0343388c6ea15bb74f7a99c66d97fe21518e5043b8ea928f967fe
  Stored in directory: /tmp/pip-ephem-wheel-cache-6wmmet79/wheels/33/7d/4c/660999fd6582d65839f94335bf2e65501591e27798b0871c35
Successfully built pkg-utils wc-utils
Installing collected packages: pkg-utils, wc-utils
  Found existing installation: pkg-utils 0.0.5
    Uninstalling pkg-utils-0.0.5:
      Successfully uninstalled pkg-utils-0.0.5
  Found existing installation: wc-utils 0.0.15
    Uninstalling wc-utils-0.0.15:
      Successfully uninstalled wc-utils-0.0.15
Successfully installed pkg-utils-0.0.5 wc-utils-0.0.15
Collecting pkg-utils[all]
  Cloning https://github.com/KarrLab/pkg_utils.git to /tmp/pip-install-om_8tp9e/pkg-utils
Collecting wc-utils[all]
  Cloning https://github.com/KarrLab/wc_utils.git to /tmp/pip-install-om_8tp9e/wc-utils
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Requirement already satisfied, skipping upgrade: MarkupSafe>=0.23 in /usr/local/lib/python3.7/site-packages (from Jinja2>=2.3->sphinx>=1.8->pkg-utils[all]) (1.1.1)
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Requirement already satisfied, skipping upgrade: decorator>=4.3.0 in /usr/local/lib/python3.7/site-packages (from networkx~=2.3->pronto>=1->wc-utils[all]) (4.4.1)
Requirement already satisfied, skipping upgrade: smmap2>=2.0.0 in /usr/local/lib/python3.7/site-packages (from gitdb2>=2.0.0->gitpython->wc-utils[all]) (2.0.5)
Requirement already satisfied, skipping upgrade: wrapt<2,>=1.10 in /usr/local/lib/python3.7/site-packages (from deprecated->pygithub->wc-utils[all]) (1.11.2)
Requirement already satisfied, skipping upgrade: ruamel.yaml.clib>=0.1.2; platform_python_implementation == "CPython" and python_version < "3.8" in /usr/local/lib/python3.7/site-packages (from ruamel.yaml>=0.15.78->quilt3>=3.1.5->wc-utils[all]) (0.2.0)
Requirement already satisfied, skipping upgrade: click>=5.1 in /usr/local/lib/python3.7/site-packages (from flask->quilt3>=3.1.5->wc-utils[all]) (7.0)
Requirement already satisfied, skipping upgrade: itsdangerous>=0.24 in /usr/local/lib/python3.7/site-packages (from flask->quilt3>=3.1.5->wc-utils[all]) (1.1.0)
Requirement already satisfied, skipping upgrade: Werkzeug>=0.15 in /usr/local/lib/python3.7/site-packages (from flask->quilt3>=3.1.5->wc-utils[all]) (0.16.0)
Building wheels for collected packages: pkg-utils, wc-utils
  Building wheel for pkg-utils (setup.py): started
  Building wheel for pkg-utils (setup.py): finished with status 'done'
  Created wheel for pkg-utils: filename=pkg_utils-0.0.5-py2.py3-none-any.whl size=7558 sha256=97dc265754be96216f1a4c447b16eac86691fd9967d0bcad5a9436559f063209
  Stored in directory: /tmp/pip-ephem-wheel-cache-os40zscp/wheels/57/3a/20/6f82ae6d2e86c270594fde48c8eb5bd0f1c901e3afc411cd4f
  Building wheel for wc-utils (setup.py): started
  Building wheel for wc-utils (setup.py): finished with status 'done'
  Created wheel for wc-utils: filename=wc_utils-0.0.15-py2.py3-none-any.whl size=68255 sha256=2fd64d5ad6a3237d474c7987be8fe06edd65cae50398a3a750061998bd535561
  Stored in directory: /tmp/pip-ephem-wheel-cache-os40zscp/wheels/33/7d/4c/660999fd6582d65839f94335bf2e65501591e27798b0871c35
Successfully built pkg-utils wc-utils
Installing collected packages: pkg-utils, wc-utils
  Found existing installation: pkg-utils 0.0.5
    Uninstalling pkg-utils-0.0.5:
      Successfully uninstalled pkg-utils-0.0.5
  Found existing installation: wc-utils 0.0.15
    Uninstalling wc-utils-0.0.15:
      Successfully uninstalled wc-utils-0.0.15
Successfully installed pkg-utils-0.0.5 wc-utils-0.0.15

  Running command git clone -q https://github.com/KarrLab/pkg_utils.git /tmp/pip-install-q9g0zg__/pkg-utils
  Running command git clone -q https://github.com/KarrLab/wc_utils.git /tmp/pip-install-q9g0zg__/wc-utils
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
  Running command git clone -q https://github.com/KarrLab/pkg_utils.git /tmp/pip-install-om_8tp9e/pkg-utils
  Running command git clone -q https://github.com/KarrLab/wc_utils.git /tmp/pip-install-om_8tp9e/wc-utils
WARNING: You are using pip version 19.3.1; however, version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================

Coverage.py warning: No data was collected. (no-data-collected)

============================= test session starts ==============================
platform linux -- Python 3.7.6, pytest-5.3.2, py-1.8.1, pluggy-0.13.1
rootdir: /root, inifile: pytest.ini
collected 1 item

tests/test_core.py .                                                     [100%]

=============================== warnings summary ===============================
/usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436
  /usr/local/lib/python3.7/site-packages/_pytest/junitxml.py:436: PytestDeprecationWarning: The 'junit_family' default value will change to 'xunit2' in pytest 6.0.
  Add 'junit_family=legacy' to your pytest.ini file to silence this warning and make your suite compatible.
    _issue_warning_captured(deprecated.JUNIT_XML_DEFAULT_FAMILY, config.hook, 2)

-- Docs: https://docs.pytest.org/en/latest/warnings.html
----- generated xml file: /root/project/tests/reports/latest.0-1.3.7.6.xml -----
========================= 1 passed, 1 warning in 0.02s =========================

Coverage.py warning: No data was collected. (no-data-collected)

project/tests/test_core.py:766: Test requires Docker and Docker isnt installed. See installation instructions at `https://docs.karrlab.org/intro_to_wc_modeling/latest/installation.html`

project/tests/test_core.py:777: Test requires Docker and Docker isnt installed. See installation instructions at `https://docs.karrlab.org/intro_to_wc_modeling/latest/installation.html`