{"action":"created","issue":{"url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/issues/479","repository_url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema","labels_url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/issues/479/labels{/name}","comments_url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/issues/479/comments","events_url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/issues/479/events","html_url":"https://github.com/HumanCellAtlas/metadata-schema/pull/479","id":348302949,"node_id":"MDExOlB1bGxSZXF1ZXN0MjA2NjgzNzg1","number":479,"title":"[WIP] Release schemas from develop to master","user":{"login":"malloryfreeberg","id":10993501,"node_id":"MDQ6VXNlcjEwOTkzNTAx","avatar_url":"https://avatars2.githubusercontent.com/u/10993501?v=4","gravatar_id":"","url":"https://api.github.com/users/malloryfreeberg","html_url":"https://github.com/malloryfreeberg","followers_url":"https://api.github.com/users/malloryfreeberg/followers","following_url":"https://api.github.com/users/malloryfreeberg/following{/other_user}","gists_url":"https://api.github.com/users/malloryfreeberg/gists{/gist_id}","starred_url":"https://api.github.com/users/malloryfreeberg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/malloryfreeberg/subscriptions","organizations_url":"https://api.github.com/users/malloryfreeberg/orgs","repos_url":"https://api.github.com/users/malloryfreeberg/repos","events_url":"https://api.github.com/users/malloryfreeberg/events{/privacy}","received_events_url":"https://api.github.com/users/malloryfreeberg/received_events","type":"User","site_admin":false},"labels":[{"id":757956924,"node_id":"MDU6TGFiZWw3NTc5NTY5MjQ=","url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/labels/content","name":"content","color":"9e0135","default":false}],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":{"url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/milestones/1","html_url":"https://github.com/HumanCellAtlas/metadata-schema/milestone/1","labels_url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/milestones/1/labels","id":3387366,"node_id":"MDk6TWlsZXN0b25lMzM4NzM2Ng==","number":1,"title":"phase 1","description":"This milestone marks the end of phase 1 completion of ingest to support the pilot launch of the DCP.","creator":{"login":"malloryfreeberg","id":10993501,"node_id":"MDQ6VXNlcjEwOTkzNTAx","avatar_url":"https://avatars2.githubusercontent.com/u/10993501?v=4","gravatar_id":"","url":"https://api.github.com/users/malloryfreeberg","html_url":"https://github.com/malloryfreeberg","followers_url":"https://api.github.com/users/malloryfreeberg/followers","following_url":"https://api.github.com/users/malloryfreeberg/following{/other_user}","gists_url":"https://api.github.com/users/malloryfreeberg/gists{/gist_id}","starred_url":"https://api.github.com/users/malloryfreeberg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/malloryfreeberg/subscriptions","organizations_url":"https://api.github.com/users/malloryfreeberg/orgs","repos_url":"https://api.github.com/users/malloryfreeberg/repos","events_url":"https://api.github.com/users/malloryfreeberg/events{/privacy}","received_events_url":"https://api.github.com/users/malloryfreeberg/received_events","type":"User","site_admin":false},"open_issues":26,"closed_issues":80,"state":"open","created_at":"2018-05-30T13:07:14Z","updated_at":"2018-08-08T13:06:43Z","due_on":"2018-08-31T07:00:00Z","closed_at":null},"comments":2,"created_at":"2018-08-07T12:39:05Z","updated_at":"2018-08-09T12:57:03Z","closed_at":null,"author_association":"MEMBER","pull_request":{"url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/pulls/479","html_url":"https://github.com/HumanCellAtlas/metadata-schema/pull/479","diff_url":"https://github.com/HumanCellAtlas/metadata-schema/pull/479.diff","patch_url":"https://github.com/HumanCellAtlas/metadata-schema/pull/479.patch"},"body":"<!-- Please provide a meaningful title for your PR. Do not keep the default title. -->\r\n<!-- Use the following GitHub keyword if your PR completely resolves an issue: \"Fixes #123\" -->\r\n\r\n<!-- Describe how you tested this PR, and how you will test the feature after it is merged. -->\r\n\r\n<!-- If this PR updates the metadata schema, add a note describing the feature which will be added to the changelog. \r\nIndicate whether the update is to something Added, Changed, Removed, Fixed, Deprecated, or Securit. \r\nUncomment the heading below:\r\n### Release notes -->\r\n**New schemas**\r\n- module/process/sequencing/10x\r\n- system/links\r\n- type/file/supplementary_file\r\n- type/process/analysis/analysis_process\r\n\r\n**Changed schemas**\r\n- module/process/sequencing/smartseq2 -> module/process/sequencing/plate_based_sequencing\r\n- bundle/ingest_audit -> system/provenance\r\n\r\n**Removed schemas**\r\n- bundle/*\r\n\r\n**New fields**\r\n- module/biomaterial/growth_conditions: feeder_layer_type\r\n- module/project/contact: corresponding_contributor\r\n- type/*: provenance\r\n- type/file/sequence_file: technical_replicate_group\r\n- type/biomaterial/cell_suspension: plate_based_sequencing\r\n- type/protocol/sequencing/sequencing_protocol: 10x\r\n- type/protocol/biomaterial_collection/ipsc_induction_protocol: ipsc_induction_factors\r\n\r\n**Changed fields**\r\n- core/process/process_core: operator_identity -> operator\r\n- core/project/project_core: project_shortname -> project_short_name\r\n- module/biomaterial/familial_relationship: is_child_of -> parent\r\n- module/biomaterial/familial_relationship: is_parent_of -> child\r\n- module/biomaterial/familial_relationship: is_sibling_of -> sibling\r\n- type/biomaterial/donor_organism: biological_sex -> sex\r\n- module/process/sequencing/plate_based_sequencing: well_name -> well_id\r\n- system/provenance: submissionDate -> submission_date\r\n- system/provenance: updateDate -> update_date\r\n- type/protocol/sequencing/sequencing_protocol: paired_ends -> paired_end\r\n- type/protocol/biomaterial_collection/dissociation_protocol: nucleic_acid_source -> type/protocol/sequencing/library_preparation_protocol: nucleic_acid_source\r\n- type/protocol/analysis/analysis_protocol -> type/process/analysis/analysis_process: inputs, reference_bundle, tasks, timestamp_stop_utc, input_bundles, outputs, timestamp_start_utc, analysis_run_type\r\n\r\n**Removed fields**\r\n- module/process/sequencing/smartseq2: well_row\r\n- module/process/sequencing/smartseq2: well_column\r\n\r\n**Change requirement status**\r\n- module/project/contact: institution -> REQUIRED\r\n- module/project/contact: email -> NOT REQUIRED\r\n\r\n**Updates to schema documentation (examples, user-friendly names, descriptions)**\r\n\r\n**Updates to documentation in docs/ folder**\r\n\r\n**Updates to example spreadsheets/JSON in examples/ folder**\r\n\r\n**Updates to GitHub issue templates**\r\n\r\n**Updates to repo test scripts/files**"},"comment":{"url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/issues/comments/411747979","html_url":"https://github.com/HumanCellAtlas/metadata-schema/pull/479#issuecomment-411747979","issue_url":"https://api.github.com/repos/HumanCellAtlas/metadata-schema/issues/479","id":411747979,"node_id":"MDEyOklzc3VlQ29tbWVudDQxMTc0Nzk3OQ==","user":{"login":"malloryfreeberg","id":10993501,"node_id":"MDQ6VXNlcjEwOTkzNTAx","avatar_url":"https://avatars2.githubusercontent.com/u/10993501?v=4","gravatar_id":"","url":"https://api.github.com/users/malloryfreeberg","html_url":"https://github.com/malloryfreeberg","followers_url":"https://api.github.com/users/malloryfreeberg/followers","following_url":"https://api.github.com/users/malloryfreeberg/following{/other_user}","gists_url":"https://api.github.com/users/malloryfreeberg/gists{/gist_id}","starred_url":"https://api.github.com/users/malloryfreeberg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/malloryfreeberg/subscriptions","organizations_url":"https://api.github.com/users/malloryfreeberg/orgs","repos_url":"https://api.github.com/users/malloryfreeberg/repos","events_url":"https://api.github.com/users/malloryfreeberg/events{/privacy}","received_events_url":"https://api.github.com/users/malloryfreeberg/received_events","type":"User","site_admin":false},"created_at":"2018-08-09T12:57:03Z","updated_at":"2018-08-09T12:57:03Z","author_association":"MEMBER","body":"Because we're not continuing with the integration and staging environments moving forward, and I don't think any components other than ingest actually point to integration/staging. The DCP needs to decide before Aug 31 whether all components' envs will point to master, or whether component envs point to the corresponding envs."}}
{"actor":{"display_login":"malloryfreeberg"}}