Pytest added for function get_cromwell_status#123
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@egenc it failed for me due to the use of Bad Request
Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com>
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* feat: add `--request-interval` parameter (#93) * feat(parameters): add parameter for customization. See #90 * docs: add documentation in changelog and readme * bump: increse minor version 1.0.0 to 1.1.0 * refactor: replace command line option from cromwell with constant variable * docs: update about request interval option * refactor: add control expression to not surpass wait time * refactor: change variable to the constant for Cromwell jobs * Adds ssl verification control (#103) * Docs patch for SSL functionality (#106) * Update README.md Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Update README.md Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Change default cost limit 30 $ (#102) * Add new cost limit as default 30$ * CHANGELOG updated * VERSION updated * Update cloudos/__main__.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * version update * Update README.md * version bump to 1.2.1 Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Christina Chatzipantsiou <38183826+cgpu@users.noreply.github.com> Co-authored-by: dapineyro <dapineyro.dev@gmail.com> * Feat: make --wdl-importsFile optional (#98) * fix BadRequestException #84 * make wdl-importsfile optional * update docs * simplify code * simplify code 2 * simplify code 3 * simplify code 4 * small doc change * fix repo for projects * Update to prepare a release * Adds api key support for cromwell (#104) * fix BadRequestException #84 * make wdl-importsfile optional * update docs * simplify code * simplify code 2 * simplify code 3 * simplify code 4 * small doc change * fix repo for projects * Use API key when no cromwell key is available * Adds click support * small help change * Updates docs * Minor doc changes * Remove cromwell_token * Pytests added for _create_cromwell_header function (#114) * Pytests added for _create_cromwell_header function * unused code removed * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * new folder for cloudos tests * init Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: add tests for 'get_job_list' (#116) * test: add tests for 'get_job_list' * refactor: add new assert statement * refactor: apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * style: move to proper folder * style: update tests/test_clos/test_get_job_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Fix: resolve JSON error in error message handling (#124) * fix error messages * Bump version to v1.3.1 * correct pytests using BadRequestException * Pytest for BadRequestException Class (#126) * pytest for BadRequestException * renamed function * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * requested changes * test moved to folder Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function project_id (#120) * pytest for function project_id * script updated * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * module docstring added * Update test_project_id.py * requested changes * Update tests/test_clos/test_project_id.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function detect_workflow (#119) * proper json added * pytest function added * script updated for proper workflow name * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * import added * module docstring * Update tests/test_clos/test_detect_workflow.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * pytest added for output workflow_id (#121) * pytest added for output workflow_id * Object Class is modified to Job * values are masked * json update, assert update * module docstring added * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest workflow (#132) * pytest added for output workflow_id * Object Class is modified to Job * values are masked * json update, assert update * module docstring added * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function process_workflow_list (#118) * Pytest for process_workflow_list added * file moved to test_clos folder * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * updated functions * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * code improvement * Update tests/test_clos/test_process_workflow_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Update tests/test_clos/test_process_workflow_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: adds tests for 'get_workflow_list' (#117) * test: add tests for 'get_workflow_list' method * refactor: apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: update bad request code and workflows .json * move test to proper folder * style: remove comment line * test: add workflows .json file Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for TimeOutException Class (#127) * pytest timeoutexception * descr update * Update test_timeout_exception.py * test moved to folder Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> * Pytest for send_job (#129) * Pytest for send_job * code improvment * update * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function get_cromwell_status (#123) * Pytest added for function get_cromwell_status * code layout fix * Update test_get_cromwell_status.py * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function ssl_selector (#122) * Pytest added for function ssl_selector * code improvements * test added for check ssl cert is a file * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes are made * blank Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest for cromwell_switch (#128) * Pytest for cromwell_switch * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function get_job_status (#125) * pytest get_job_status * naming * out message fix * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * proper request json added * print removed * job status assertion update * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Fix: adapt to new projects api (#135) * fix the new api while maintaining backwards compatibility * update docs * update README.md date * remove cb (#136) --------- Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Christina Chatzipantsiou <38183826+cgpu@users.noreply.github.com> Co-authored-by: egenc <erdal.genc09@gmail.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local>
dapineyro
added a commit
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Mar 8, 2023
* feat: add `--request-interval` parameter (#93) * feat(parameters): add parameter for customization. See #90 * docs: add documentation in changelog and readme * bump: increse minor version 1.0.0 to 1.1.0 * refactor: replace command line option from cromwell with constant variable * docs: update about request interval option * refactor: add control expression to not surpass wait time * refactor: change variable to the constant for Cromwell jobs * Adds ssl verification control (#103) * Docs patch for SSL functionality (#106) * Update README.md Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Update README.md Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Change default cost limit 30 $ (#102) * Add new cost limit as default 30$ * CHANGELOG updated * VERSION updated * Update cloudos/__main__.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * version update * Update README.md * version bump to 1.2.1 Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Christina Chatzipantsiou <38183826+cgpu@users.noreply.github.com> Co-authored-by: dapineyro <dapineyro.dev@gmail.com> * Feat: make --wdl-importsFile optional (#98) * fix BadRequestException #84 * make wdl-importsfile optional * update docs * simplify code * simplify code 2 * simplify code 3 * simplify code 4 * small doc change * fix repo for projects * Update to prepare a release * Adds api key support for cromwell (#104) * fix BadRequestException #84 * make wdl-importsfile optional * update docs * simplify code * simplify code 2 * simplify code 3 * simplify code 4 * small doc change * fix repo for projects * Use API key when no cromwell key is available * Adds click support * small help change * Updates docs * Minor doc changes * Remove cromwell_token * Pytests added for _create_cromwell_header function (#114) * Pytests added for _create_cromwell_header function * unused code removed * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * new folder for cloudos tests * init Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: add tests for 'get_job_list' (#116) * test: add tests for 'get_job_list' * refactor: add new assert statement * refactor: apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * style: move to proper folder * style: update tests/test_clos/test_get_job_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Fix: resolve JSON error in error message handling (#124) * fix error messages * Bump version to v1.3.1 * correct pytests using BadRequestException * Pytest for BadRequestException Class (#126) * pytest for BadRequestException * renamed function * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * requested changes * test moved to folder Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function project_id (#120) * pytest for function project_id * script updated * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * module docstring added * Update test_project_id.py * requested changes * Update tests/test_clos/test_project_id.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function detect_workflow (#119) * proper json added * pytest function added * script updated for proper workflow name * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * import added * module docstring * Update tests/test_clos/test_detect_workflow.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * pytest added for output workflow_id (#121) * pytest added for output workflow_id * Object Class is modified to Job * values are masked * json update, assert update * module docstring added * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest workflow (#132) * pytest added for output workflow_id * Object Class is modified to Job * values are masked * json update, assert update * module docstring added * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function process_workflow_list (#118) * Pytest for process_workflow_list added * file moved to test_clos folder * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * updated functions * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * code improvement * Update tests/test_clos/test_process_workflow_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Update tests/test_clos/test_process_workflow_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: adds tests for 'get_workflow_list' (#117) * test: add tests for 'get_workflow_list' method * refactor: apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: update bad request code and workflows .json * move test to proper folder * style: remove comment line * test: add workflows .json file Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for TimeOutException Class (#127) * pytest timeoutexception * descr update * Update test_timeout_exception.py * test moved to folder Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> * Pytest for send_job (#129) * Pytest for send_job * code improvment * update * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function get_cromwell_status (#123) * Pytest added for function get_cromwell_status * code layout fix * Update test_get_cromwell_status.py * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function ssl_selector (#122) * Pytest added for function ssl_selector * code improvements * test added for check ssl cert is a file * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes are made * blank Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest for cromwell_switch (#128) * Pytest for cromwell_switch * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function get_job_status (#125) * pytest get_job_status * naming * out message fix * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * proper request json added * print removed * job status assertion update * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Fix: adapt to new projects api (#135) * fix the new api while maintaining backwards compatibility * update docs * update README.md date * remove cb (#136) * Fix: preparation for new `jobs` api endpoint spec (#138) * patch for the new api spec * update docs * update docs 2 * modify test data * fix test data * fix test data 2 --------- Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Christina Chatzipantsiou <38183826+cgpu@users.noreply.github.com> Co-authored-by: egenc <erdal.genc09@gmail.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local>
dapineyro
added a commit
that referenced
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May 5, 2023
* feat: add `--request-interval` parameter (#93) * feat(parameters): add parameter for customization. See #90 * docs: add documentation in changelog and readme * bump: increse minor version 1.0.0 to 1.1.0 * refactor: replace command line option from cromwell with constant variable * docs: update about request interval option * refactor: add control expression to not surpass wait time * refactor: change variable to the constant for Cromwell jobs * Adds ssl verification control (#103) * Docs patch for SSL functionality (#106) * Update README.md Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Update README.md Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Change default cost limit 30 $ (#102) * Add new cost limit as default 30$ * CHANGELOG updated * VERSION updated * Update cloudos/__main__.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * version update * Update README.md * version bump to 1.2.1 Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Christina Chatzipantsiou <38183826+cgpu@users.noreply.github.com> Co-authored-by: dapineyro <dapineyro.dev@gmail.com> * Feat: make --wdl-importsFile optional (#98) * fix BadRequestException #84 * make wdl-importsfile optional * update docs * simplify code * simplify code 2 * simplify code 3 * simplify code 4 * small doc change * fix repo for projects * Update to prepare a release * Adds api key support for cromwell (#104) * fix BadRequestException #84 * make wdl-importsfile optional * update docs * simplify code * simplify code 2 * simplify code 3 * simplify code 4 * small doc change * fix repo for projects * Use API key when no cromwell key is available * Adds click support * small help change * Updates docs * Minor doc changes * Remove cromwell_token * Pytests added for _create_cromwell_header function (#114) * Pytests added for _create_cromwell_header function * unused code removed * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * new folder for cloudos tests * init Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: add tests for 'get_job_list' (#116) * test: add tests for 'get_job_list' * refactor: add new assert statement * refactor: apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * style: move to proper folder * style: update tests/test_clos/test_get_job_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Fix: resolve JSON error in error message handling (#124) * fix error messages * Bump version to v1.3.1 * correct pytests using BadRequestException * Pytest for BadRequestException Class (#126) * pytest for BadRequestException * renamed function * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * requested changes * test moved to folder Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function project_id (#120) * pytest for function project_id * script updated * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * module docstring added * Update test_project_id.py * requested changes * Update tests/test_clos/test_project_id.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function detect_workflow (#119) * proper json added * pytest function added * script updated for proper workflow name * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * import added * module docstring * Update tests/test_clos/test_detect_workflow.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * pytest added for output workflow_id (#121) * pytest added for output workflow_id * Object Class is modified to Job * values are masked * json update, assert update * module docstring added * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest workflow (#132) * pytest added for output workflow_id * Object Class is modified to Job * values are masked * json update, assert update * module docstring added * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function process_workflow_list (#118) * Pytest for process_workflow_list added * file moved to test_clos folder * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * updated functions * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * code improvement * Update tests/test_clos/test_process_workflow_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Update tests/test_clos/test_process_workflow_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: adds tests for 'get_workflow_list' (#117) * test: add tests for 'get_workflow_list' method * refactor: apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: update bad request code and workflows .json * move test to proper folder * style: remove comment line * test: add workflows .json file Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for TimeOutException Class (#127) * pytest timeoutexception * descr update * Update test_timeout_exception.py * test moved to folder Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> * Pytest for send_job (#129) * Pytest for send_job * code improvment * update * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function get_cromwell_status (#123) * Pytest added for function get_cromwell_status * code layout fix * Update test_get_cromwell_status.py * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function ssl_selector (#122) * Pytest added for function ssl_selector * code improvements * test added for check ssl cert is a file * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes are made * blank Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest for cromwell_switch (#128) * Pytest for cromwell_switch * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function get_job_status (#125) * pytest get_job_status * naming * out message fix * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * proper request json added * print removed * job status assertion update * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Fix: adapt to new projects api (#135) * fix the new api while maintaining backwards compatibility * update docs * update README.md date * remove cb (#136) * Fix: preparation for new `jobs` api endpoint spec (#138) * patch for the new api spec * update docs * update docs 2 * modify test data * fix test data * fix test data 2 * Feat: adds ci tests (#142) * adding pytest * update setup * update setup 2 * update setup 3 * update setup 3 * adding job list * fix name * adds job run * adds job status * adds job status 2 * adds job status 2 * some debugging code * fix job status * adds workflow list * adding a job name * adding a job name 2 * point to staging * point to staging 2 * point to staging 3 * point to staging 4 * point to staging 5 * point to staging 6 * point to staging 7 * point to staging 8 * point to staging 9 * point to staging 10 * Feat: adds response pagination support for job list endpoint (#144) * implementing new feat * fix multiple spaces * typos * including review suggestions * fix pytests * Feat: adds commitizen (#145) * remove version from README.md * docs: add commitizen support * changelog * Feat: adds projects list (#146) * feat: add project list * bump: version 2.1.0 → 2.2.0 * update docs * add tests * adds ci test * update tests 2 * minor fixes * adapt to different responses * improve docstring * fix README.md * more docstring fixes * Feat: adds workflows --curated (#148) * first implementation + fix job list * adds parameters * fix pytests * remove curated-with-defaults * update docs * add ci test * small doc fixes * improve docstring * Feat: adds run-curated-examples command (#149) * first working prototype * implement first wait-completion * prettify the output * adding fixes * fix pytests * add new pytest * adding ci test * feat: add run-curated-examples command * bump: version 2.2.0 → 2.3.0 * updated changelog and version * README.md improvement * fixing pytest name * fix docstring typo * Feat: adds queue command (#151) * main.py CLI command implementation * first working implementation * fix api call * update docs * add pytests * feat: add queue list command * bump: version 2.3.0 → 2.4.0 * update changelog * update ci.yml * Feat: adds job queue support to batch runs (#152) * main.py CLI command implementation * first working implementation * fix api call * update docs * add pytests * feat: add queue list command * bump: version 2.3.0 → 2.4.0 * update changelog * update ci.yml * first implementation * improve messages * update pytest * fix pytest * update CI * update README.md * update README.md 2 * update README.md 3 * update README.md 4 * update README.md 5 * feat: adds job queue support to batch runs * bump: version 2.4.0 → 2.5.0 * update changelog * changing python requeriment to 3.7 * testing 3.7 with pytest --------- Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Christina Chatzipantsiou <38183826+cgpu@users.noreply.github.com> Co-authored-by: egenc <erdal.genc09@gmail.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local>
dapineyro
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* feat: add `--request-interval` parameter (#93) * feat(parameters): add parameter for customization. See #90 * docs: add documentation in changelog and readme * bump: increse minor version 1.0.0 to 1.1.0 * refactor: replace command line option from cromwell with constant variable * docs: update about request interval option * refactor: add control expression to not surpass wait time * refactor: change variable to the constant for Cromwell jobs * Adds ssl verification control (#103) * Docs patch for SSL functionality (#106) * Update README.md Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Update README.md Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Change default cost limit 30 $ (#102) * Add new cost limit as default 30$ * CHANGELOG updated * VERSION updated * Update cloudos/__main__.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * version update * Update README.md * version bump to 1.2.1 Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Christina Chatzipantsiou <38183826+cgpu@users.noreply.github.com> Co-authored-by: dapineyro <dapineyro.dev@gmail.com> * Feat: make --wdl-importsFile optional (#98) * fix BadRequestException #84 * make wdl-importsfile optional * update docs * simplify code * simplify code 2 * simplify code 3 * simplify code 4 * small doc change * fix repo for projects * Update to prepare a release * Adds api key support for cromwell (#104) * fix BadRequestException #84 * make wdl-importsfile optional * update docs * simplify code * simplify code 2 * simplify code 3 * simplify code 4 * small doc change * fix repo for projects * Use API key when no cromwell key is available * Adds click support * small help change * Updates docs * Minor doc changes * Remove cromwell_token * Pytests added for _create_cromwell_header function (#114) * Pytests added for _create_cromwell_header function * unused code removed * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * new folder for cloudos tests * init Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: add tests for 'get_job_list' (#116) * test: add tests for 'get_job_list' * refactor: add new assert statement * refactor: apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * style: move to proper folder * style: update tests/test_clos/test_get_job_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Fix: resolve JSON error in error message handling (#124) * fix error messages * Bump version to v1.3.1 * correct pytests using BadRequestException * Pytest for BadRequestException Class (#126) * pytest for BadRequestException * renamed function * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * requested changes * test moved to folder Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function project_id (#120) * pytest for function project_id * script updated * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * module docstring added * Update test_project_id.py * requested changes * Update tests/test_clos/test_project_id.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function detect_workflow (#119) * proper json added * pytest function added * script updated for proper workflow name * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * import added * module docstring * Update tests/test_clos/test_detect_workflow.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * pytest added for output workflow_id (#121) * pytest added for output workflow_id * Object Class is modified to Job * values are masked * json update, assert update * module docstring added * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest workflow (#132) * pytest added for output workflow_id * Object Class is modified to Job * values are masked * json update, assert update * module docstring added * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function process_workflow_list (#118) * Pytest for process_workflow_list added * file moved to test_clos folder * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * updated functions * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * code improvement * Update tests/test_clos/test_process_workflow_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Update tests/test_clos/test_process_workflow_list.py Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: adds tests for 'get_workflow_list' (#117) * test: add tests for 'get_workflow_list' method * refactor: apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * test: update bad request code and workflows .json * move test to proper folder * style: remove comment line * test: add workflows .json file Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for TimeOutException Class (#127) * pytest timeoutexception * descr update * Update test_timeout_exception.py * test moved to folder Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> * Pytest for send_job (#129) * Pytest for send_job * code improvment * update * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function get_cromwell_status (#123) * Pytest added for function get_cromwell_status * code layout fix * Update test_get_cromwell_status.py * Apply suggestions from code review Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> * Pytest added for function ssl_selector (#122) * Pytest added for function ssl_selector * code improvements * test added for check ssl cert is a file * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * requested changes are made * blank Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest for cromwell_switch (#128) * Pytest for cromwell_switch * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Pytest added for function get_job_status (#125) * pytest get_job_status * naming * out message fix * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * proper request json added * print removed * job status assertion update * Apply suggestions from code review Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local> Co-authored-by: dapineyro <45285897+dapineyro@users.noreply.github.com> * Fix: adapt to new projects api (#135) * fix the new api while maintaining backwards compatibility * update docs * update README.md date * remove cb (#136) * Fix: preparation for new `jobs` api endpoint spec (#138) * patch for the new api spec * update docs * update docs 2 * modify test data * fix test data * fix test data 2 * Feat: adds ci tests (#142) * adding pytest * update setup * update setup 2 * update setup 3 * update setup 3 * adding job list * fix name * adds job run * adds job status * adds job status 2 * adds job status 2 * some debugging code * fix job status * adds workflow list * adding a job name * adding a job name 2 * point to staging * point to staging 2 * point to staging 3 * point to staging 4 * point to staging 5 * point to staging 6 * point to staging 7 * point to staging 8 * point to staging 9 * point to staging 10 * Feat: adds response pagination support for job list endpoint (#144) * implementing new feat * fix multiple spaces * typos * including review suggestions * fix pytests * Feat: adds commitizen (#145) * remove version from README.md * docs: add commitizen support * changelog * Feat: adds projects list (#146) * feat: add project list * bump: version 2.1.0 → 2.2.0 * update docs * add tests * adds ci test * update tests 2 * minor fixes * adapt to different responses * improve docstring * fix README.md * more docstring fixes * Feat: adds workflows --curated (#148) * first implementation + fix job list * adds parameters * fix pytests * remove curated-with-defaults * update docs * add ci test * small doc fixes * improve docstring * Feat: adds run-curated-examples command (#149) * first working prototype * implement first wait-completion * prettify the output * adding fixes * fix pytests * add new pytest * adding ci test * feat: add run-curated-examples command * bump: version 2.2.0 → 2.3.0 * updated changelog and version * README.md improvement * fixing pytest name * fix docstring typo * Feat: adds queue command (#151) * main.py CLI command implementation * first working implementation * fix api call * update docs * add pytests * feat: add queue list command * bump: version 2.3.0 → 2.4.0 * update changelog * update ci.yml * Feat: adds job queue support to batch runs (#152) * main.py CLI command implementation * first working implementation * fix api call * update docs * add pytests * feat: add queue list command * bump: version 2.3.0 → 2.4.0 * update changelog * update ci.yml * first implementation * improve messages * update pytest * fix pytest * update CI * update README.md * update README.md 2 * update README.md 3 * update README.md 4 * update README.md 5 * feat: adds job queue support to batch runs * bump: version 2.4.0 → 2.5.0 * update changelog * changing python requeriment to 3.7 * testing 3.7 with pytest * Feat: adds Azure support (#156) * add execution platform * add lacking parameter * adding default instance * correct pytest * bump version to 2.6.0 * update README.md * modify run-curated-examples * update docs * correcting ci url * deactivate spot and batch when using azure * fix last change --------- Co-authored-by: Daniel Boloc <danielboloc@users.noreply.github.com> Co-authored-by: Christina Chatzipantsiou <38183826+cgpu@users.noreply.github.com> Co-authored-by: egenc <erdal.genc09@gmail.com> Co-authored-by: Erdal Genc <erdalgenc@Erdals-MacBook-Pro.local>
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Purpose of this PR is to add tests for the function Cloudos.get_cromwell_status in CloudOS.
Test data:
tests/test_data/process_job_list_initial_json.json
Tests are made for checking if the function get_cromwell_status working as intended
To run the test:
Expected Output:
