{"id":21950,"name":"automation","description":"Modular, Scalable Phenomic Data Processing Pipelines","url":"https://github.com/phytooracle/automation","last_synced_at":"2025-09-05T01:13:02.799Z","repository":{"id":37080176,"uuid":"383604727","full_name":"phytooracle/automation","owner":"phytooracle","description":"Modular, Scalable Phenomic Data Processing Pipelines","archived":false,"fork":false,"pushed_at":"2025-08-26T21:14:20.000Z","size":2066,"stargazers_count":5,"open_issues_count":2,"forks_count":4,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-08-27T04:52:55.709Z","etag":null,"topics":["distributed-computing","hpc","lettuce","makeflow","phenomics","phenotyping","pipeline","plant","plant-phenotyping","python","sorghum","workqueue"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/phytooracle.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":"CODE_OF_CONDUCT.md","threat_model":null,"audit":null,"citation":"CITATION.cff","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2021-07-06T21:44:58.000Z","updated_at":"2025-08-26T21:14:23.000Z","dependencies_parsed_at":"2023-02-18T21:15:44.921Z","dependency_job_id":"b22bb547-2ff6-4fa5-abdb-1fe62d58d65a","html_url":"https://github.com/phytooracle/automation","commit_stats":{"total_commits":1636,"total_committers":28,"mean_commits":58.42857142857143,"dds":0.2237163814180929,"last_synced_commit":"5b580903eddb9d0b3ba94b2c8f9a856e32f5baff"},"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/phytooracle/automation","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/phytooracle%2Fautomation","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/phytooracle%2Fautomation/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/phytooracle%2Fautomation/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/phytooracle%2Fautomation/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/phytooracle","download_url":"https://codeload.github.com/phytooracle/automation/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/phytooracle%2Fautomation/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273695982,"owners_count":25151642,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-09-04T02:00:08.968Z","response_time":61,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"owner":{"login":"phytooracle","name":"PhytoOracle","uuid":"70173404","kind":"organization","description":"Code for extracting phenotypic insights from plant phenomics data. Developed by Drs. Duke Pauli \u0026 Eric Lyons labs at the University of Arizona","email":"phytooracle@gmail.com","website":null,"location":"Tucson, AZ","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/70173404?v=4","repositories_count":17,"last_synced_at":"2023-03-04T04:20:09.867Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/phytooracle","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-14T09:28:04.871Z","updated_at":"2023-03-04T04:20:09.919Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/phytooracle","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/phytooracle/repositories"},"packages":[],"commits":{"id":1365849,"full_name":"phytooracle/automation","default_branch":"main","committers":[{"name":"Emmanuel Gonzalez","email":"emmanuelgonzalez@email.arizona.edu","login":null,"count":1270},{"name":"Jeffrey Demieville","email":"117323141+jeffreydemieville","login":"jeffreydemieville","count":112},{"name":"Nathanial Hendler","email":"equant@lpl.arizona.edu","login":null,"count":70},{"name":"emilyc02","email":"89756402+emilyc02","login":"emilyc02","count":39},{"name":"Travis-Simmons","email":"920117874@student.ccga.edu","login":null,"count":37},{"name":"beyzabozdag","email":"nbeyzabozdag@gmail.com","login":null,"count":34},{"name":"equant","email":"nathanhendler@gmail.com","login":null,"count":19},{"name":"reys7899","email":"60049746+reys7899","login":"reys7899","count":9},{"name":"jep236","email":"46064388+jep236","login":"jep236","count":7},{"name":"Aditya Kumar","email":"67184967+Zeussssssss","login":"Zeussssssss","count":6},{"name":"Emmanuel Gonzalez","email":"emmanuelgonzalez@gpu06.cyverse.org","login":null,"count":6},{"name":"Sarthak","email":"sarthakbawal@gmail.com","login":null,"count":5},{"name":"PAULI-LAB","email":"pauli-lab@PAULI-LABs-MacBook-Air.local","login":null,"count":3},{"name":"James Lee","email":"h38464874b","login":null,"count":2},{"name":"Travis Simmons","email":"travissimmons@wentletrap.hpc.arizona.edu","login":null,"count":2},{"name":"Zeussssssss","email":"adi.kr02@yahoo.in","login":null,"count":2},{"name":"h38464874b","email":"slee1241@arizona.edu","login":null,"count":2},{"name":"Emmanuel Gonzalez","email":"eg@myosotis.localdomain","login":null,"count":1},{"name":"Emmanuel Gonzalez","email":"eg@myosotis","login":null,"count":1},{"name":"Nimet Beyza Bozdag","email":"nbbozdag@wentletrap.hpc.arizona.edu","login":null,"count":1},{"name":"PAULI-LAB","email":"pauli-lab@dhcp-10-132-178-230.uawifi.arizona.edu","login":null,"count":1},{"name":"Travis Simmons","email":"64273464+Travis-Simmons","login":"Travis-Simmons","count":1},{"name":"James Lee","email":"114031878+h38464874b","login":"h38464874b","count":1},{"name":"Travis Simmons","email":"travissimmons@junonia.hpc.arizona.edu","login":null,"count":1},{"name":"Travis Simmons","email":"travissimmons@r1u37n2.puma.hpc.arizona.edu","login":null,"count":1},{"name":"Travis Simmons","email":"travissimmons@r4u29n1.puma.hpc.arizona.edu","login":null,"count":1},{"name":"Travis Simmons","email":"travissimmons@r6u23n1.puma.hpc.arizona.edu","login":null,"count":1},{"name":"emilyc02","email":"emilyc02@email.arizona.edu","login":null,"count":1}],"total_commits":1636,"total_committers":28,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":58.42857142857143,"dds":0.2237163814180929,"past_year_committers":[{"name":"Emmanuel Gonzalez","email":"emmanuelgonzalez@email.arizona.edu","login":null,"count":246},{"name":"Jeffrey Demieville","email":"117323141+jeffreydemieville","login":"jeffreydemieville","count":112},{"name":"emilyc02","email":"89756402+emilyc02","login":"emilyc02","count":39},{"name":"beyzabozdag","email":"nbeyzabozdag@gmail.com","login":null,"count":13},{"name":"reys7899","email":"60049746+reys7899","login":"reys7899","count":9},{"name":"Aditya Kumar","email":"67184967+Zeussssssss","login":"Zeussssssss","count":6},{"name":"Sarthak","email":"sarthakbawal@gmail.com","login":null,"count":4},{"name":"Zeussssssss","email":"adi.kr02@yahoo.in","login":null,"count":2},{"name":"h38464874b","email":"slee1241@arizona.edu","login":null,"count":2},{"name":"James Lee","email":"h38464874b","login":null,"count":1},{"name":"emilyc02","email":"emilyc02@email.arizona.edu","login":null,"count":1},{"name":"James Lee","email":"114031878+h38464874b","login":"h38464874b","count":1},{"name":"jep236","email":"46064388+jep236","login":"jep236","count":1}],"past_year_total_commits":437,"past_year_total_committers":13,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":33.61538461538461,"past_year_dds":0.437070938215103,"last_synced_at":"2024-01-26T15:38:15.225Z","last_synced_commit":"5b580903eddb9d0b3ba94b2c8f9a856e32f5baff","created_at":"2023-09-13T14:23:29.948Z","updated_at":"2024-01-26T15:38:15.225Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/phytooracle%2Fautomation/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-05T00:00:10.343Z","repositories_count":5480019,"commits_count":853389012,"contributors_count":31098138,"owners_count":906558,"icon_url":"https://github.com/github.png","host_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories"}},"issues_stats":{"full_name":"phytooracle/automation","html_url":"https://github.com/phytooracle/automation","last_synced_at":"2025-08-31T15:42:45.830Z","status":null,"issues_count":61,"pull_requests_count":47,"avg_time_to_close_issue":7243949.633333334,"avg_time_to_close_pull_request":1800871.8181818181,"issues_closed_count":60,"pull_requests_closed_count":44,"pull_request_authors_count":6,"issue_authors_count":5,"avg_comments_per_issue":0.7377049180327869,"avg_comments_per_pull_request":0.0425531914893617,"merged_pull_requests_count":40,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":1,"past_year_pull_requests_count":5,"past_year_avg_time_to_close_issue":12179586.0,"past_year_avg_time_to_close_pull_request":2441.25,"past_year_issues_closed_count":1,"past_year_pull_requests_closed_count":4,"past_year_pull_request_authors_count":1,"past_year_issue_authors_count":1,"past_year_avg_comments_per_issue":2.0,"past_year_avg_comments_per_pull_request":0.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":4,"created_at":"2023-09-13T14:24:05.990Z","updated_at":"2025-08-31T15:42:45.831Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/phytooracle%2Fautomation","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/phytooracle%2Fautomation/issues","issue_labels_count":{"enhancement":25,"bug":19,"wontfix":19,"Season 11":14,"yaml":11,"help wanted":10,"S11_postprocessing":9,"RFC":7,"cctools":4,"3D":4,"Season 12":3,"Season 10":2,"slack":2,"psii":2,"question":1,"level_0":1},"pull_request_labels_count":{"enhancement":1,"Season 12":1,"Season 11":1,"yaml":1},"issue_author_associations_count":{"CONTRIBUTOR":37,"MEMBER":24},"pull_request_author_associations_count":{"MEMBER":28,"CONTRIBUTOR":19},"issue_authors":{"equant":25,"emmanuelgonz":23,"Travis-Simmons":11,"beyzabozdag":1,"jeffreydemieville":1},"pull_request_authors":{"emmanuelgonz":22,"jeffreydemieville":7,"equant":7,"Travis-Simmons":5,"beyzabozdag":4,"emilyc02":2},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-02T00:00:07.986Z","repositories_count":10042729,"issues_count":30645220,"pull_requests_count":91402388,"authors_count":10443886,"icon_url":"https://github.com/github.png","host_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories","owners_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/owners","authors_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors"},"past_year_issue_labels_count":{},"past_year_pull_request_labels_count":{},"past_year_issue_author_associations_count":{"MEMBER":1},"past_year_pull_request_author_associations_count":{"MEMBER":5},"past_year_issue_authors":{"jeffreydemieville":1},"past_year_pull_request_authors":{"jeffreydemieville":5},"maintainers":[{"login":"emmanuelgonz","count":45,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/emmanuelgonz"},{"login":"jeffreydemieville","count":7,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/jeffreydemieville"}],"active_maintainers":[{"login":"jeffreydemieville","count":6,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/jeffreydemieville"}]},"events":{"total":{"IssuesEvent":3,"WatchEvent":1,"DeleteEvent":4,"IssueCommentEvent":4,"PushEvent":66,"PullRequestReviewEvent":3,"PullRequestReviewCommentEvent":2,"PullRequestEvent":10,"CreateEvent":3},"last_year":{"IssuesEvent":3,"WatchEvent":1,"DeleteEvent":4,"IssueCommentEvent":4,"PushEvent":66,"PullRequestReviewEvent":3,"PullRequestReviewCommentEvent":2,"PullRequestEvent":10,"CreateEvent":3}},"keywords":["distributed-computing","hpc","lettuce","makeflow","phenomics","phenotyping","pipeline","plant","plant-phenotyping","python","sorghum","workqueue"],"dependencies":[{"ecosystem":"pypi","filepath":"requirements.txt","sha":null,"kind":"manifest","created_at":"2022-07-12T16:13:45.141Z","updated_at":"2022-07-12T16:13:45.141Z","repository_link":"https://github.com/phytooracle/automation/blob/main/requirements.txt","dependencies":[{"id":165442176,"package_name":"typing_extensions","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":165442178,"package_name":"pyyaml","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"docker","filepath":"Dockerfile","sha":null,"kind":"manifest","created_at":"2023-02-01T03:15:33.705Z","updated_at":"2023-02-01T03:15:33.705Z","repository_link":"https://github.com/phytooracle/automation/blob/main/Dockerfile","dependencies":[{"id":7287978541,"package_name":"ubuntu","ecosystem":"docker","requirements":"18.04","direct":true,"kind":"build","optional":false}]}],"score":5.278114659230517,"created_at":"2025-09-04T15:50:53.484Z","updated_at":"2025-10-07T08:10:30.612Z","avatar_url":"https://github.com/phytooracle.png","language":"Python","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":[],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/21950","html_url":"https://science.ecosyste.ms/projects/21950","bibtex_url":"https://science.ecosyste.ms/projects/21950/export.bibtex","apalike_url":"https://science.ecosyste.ms/projects/21950/export.apalike"}