diff --git a/docs/_build/doctrees/environment.pickle b/docs/_build/doctrees/environment.pickle
index 7f820f04..085e2913 100644
Binary files a/docs/_build/doctrees/environment.pickle and b/docs/_build/doctrees/environment.pickle differ
diff --git a/docs/_build/doctrees/tools/indexing.doctree b/docs/_build/doctrees/tools/indexing.doctree
index 9e55c97d..7f20e03e 100644
Binary files a/docs/_build/doctrees/tools/indexing.doctree and b/docs/_build/doctrees/tools/indexing.doctree differ
diff --git a/docs/_build/doctrees/tools/metadata.doctree b/docs/_build/doctrees/tools/metadata.doctree
index 9f17431f..b81b5035 100644
Binary files a/docs/_build/doctrees/tools/metadata.doctree and b/docs/_build/doctrees/tools/metadata.doctree differ
diff --git a/docs/_build/html/searchindex.js b/docs/_build/html/searchindex.js
index 2a10143a..a8747b79 100644
--- a/docs/_build/html/searchindex.js
+++ b/docs/_build/html/searchindex.js
@@ -1 +1 @@
-Search.setIndex({"alltitles": {"DRS Download Tools": [[10, "module-gen3.tools.download.drs_download"]], "Download": [[11, "module-gen3.tools.indexing.download_manifest"]], "Gen3 Auth Helper": [[0, "gen3-auth-helper"]], "Gen3 File Class": [[1, "gen3-file-class"]], "Gen3 Index Class": [[3, "gen3-index-class"]], "Gen3 Jobs Class": [[4, "gen3-jobs-class"]], "Gen3 Metadata Class": [[5, "gen3-metadata-class"]], "Gen3 Object Class": [[6, "gen3-object-class"]], "Gen3 Query Class": [[7, "gen3-query-class"]], "Gen3 Submission Class": [[8, "gen3-submission-class"]], "Gen3 Tools": [[9, "gen3-tools"]], "Gen3 Workspace Storage": [[13, "gen3-workspace-storage"]], "Index": [[11, "module-gen3.tools.indexing.index_manifest"]], "Indexing Tools": [[11, "indexing-tools"]], "Indices and tables": [[2, "indices-and-tables"]], "Ingest": [[12, "module-gen3.tools.metadata.ingest_manifest"]], "Metadata Tools": [[12, "metadata-tools"]], "Verify": [[11, "module-gen3.tools.indexing.verify_manifest"]], "Welcome to Gen3 SDK\u2019s documentation!": [[2, "welcome-to-gen3-sdk-s-documentation"]]}, "docnames": ["auth", "file", "index", "indexing", "jobs", "metadata", "object", "query", "submission", "tools", "tools/drs_pull", "tools/indexing", "tools/metadata", "wss"], "envversion": {"sphinx": 61, "sphinx.domains.c": 3, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 9, "sphinx.domains.index": 1, "sphinx.domains.javascript": 3, "sphinx.domains.math": 2, "sphinx.domains.python": 4, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx.ext.viewcode": 1}, "filenames": ["auth.rst", "file.rst", "index.rst", "indexing.rst", "jobs.rst", "metadata.rst", "object.rst", "query.rst", "submission.rst", "tools.rst", "tools/drs_pull.rst", "tools/indexing.rst", "tools/metadata.rst", "wss.rst"], "indexentries": {"_manager (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable._manager", false]], "access_methods (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.access_methods", false]], "acls (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.ACLS", false]], "async_create() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_create", false]], "async_create_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_create_aliases", false]], "async_create_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_create_record", false]], "async_delete_alias() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_delete_alias", false]], "async_delete_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_delete_aliases", false]], "async_download_object_manifest() (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.async_download_object_manifest", false]], "async_get() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_get", false]], "async_get_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_get_aliases", false]], "async_get_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_get_record", false]], "async_get_records_from_checksum() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_get_records_from_checksum", false]], "async_get_records_on_page() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_get_records_on_page", false]], "async_get_with_params() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_get_with_params", false]], "async_ingest_metadata_manifest() (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.async_ingest_metadata_manifest", false]], "async_query_urls() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_query_urls", false]], "async_query_urls_from_indexd() (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.async_query_urls_from_indexd", false]], "async_run_job_and_wait() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.async_run_job_and_wait", false]], "async_update() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_update", false]], "async_update_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_update_aliases", false]], "async_update_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_update_record", false]], "async_verify_object_manifest() (in module gen3.tools.indexing.verify_manifest)": [[11, "gen3.tools.indexing.verify_manifest.async_verify_object_manifest", false]], "auth_provider (gen3.metadata.gen3metadata attribute)": [[5, "gen3.metadata.Gen3Metadata.auth_provider", false]], "authz (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.AUTHZ", false]], "batch_create() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.batch_create", false]], "cache_hosts_wts_tokens() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.cache_hosts_wts_tokens", false]], "children (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.children", false]], "column_to_use_as_guid (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.COLUMN_TO_USE_AS_GUID", false]], "commons_url (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.commons_url", false]], "copy() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.copy", false]], "create() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.create", false]], "create_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.create_aliases", false]], "create_blank() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.create_blank", false]], "create_index_key_path() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.create_index_key_path", false]], "create_job() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.create_job", false]], "create_new_version() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.create_new_version", false]], "create_object_list() (gen3.tools.download.drs_download.manifest static method)": [[10, "gen3.tools.download.drs_download.Manifest.create_object_list", false]], "create_program() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.create_program", false]], "create_project() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.create_project", false]], "create_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.create_record", false]], "created_time (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.created_time", false]], "curl() (gen3.auth.gen3auth method)": [[0, "gen3.auth.Gen3Auth.curl", false]], "current_dir (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.CURRENT_DIR", false]], "current_dir (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.CURRENT_DIR", false]], "current_dir (in module gen3.tools.indexing.verify_manifest)": [[11, "gen3.tools.indexing.verify_manifest.CURRENT_DIR", false]], "delete() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.delete", false]], "delete_alias() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.delete_alias", false]], "delete_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.delete_aliases", false]], "delete_all_guids() (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.delete_all_guids", false]], "delete_file() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.delete_file", false]], "delete_file_locations() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.delete_file_locations", false]], "delete_index_key_path() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.delete_index_key_path", false]], "delete_node() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_node", false]], "delete_nodes() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_nodes", false]], "delete_object() (gen3.object.gen3object method)": [[6, "gen3.object.Gen3Object.delete_object", false]], "delete_program() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_program", false]], "delete_project() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_project", false]], "delete_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.delete_record", false]], "delete_record() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_record", false]], "delete_records() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_records", false]], "download() (gen3.tools.download.drs_download.downloadable method)": [[10, "gen3.tools.download.drs_download.Downloadable.download", false]], "download() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.download", false]], "download() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.download", false]], "download_files_in_drs_manifest() (in module gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.download_files_in_drs_manifest", false]], "download_single() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.download_single", false]], "download_url() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.download_url", false]], "downloadable (class in gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.Downloadable", false]], "downloadmanager (class in gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.DownloadManager", false]], "downloadstatus (class in gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.DownloadStatus", false]], "end_time (gen3.tools.download.drs_download.downloadstatus attribute)": [[10, "gen3.tools.download.drs_download.DownloadStatus.end_time", false]], "endpoint (gen3.metadata.gen3metadata attribute)": [[5, "gen3.metadata.Gen3Metadata.endpoint", false]], "export_node() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.export_node", false]], "export_record() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.export_record", false]], "file_name (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.file_name", false]], "file_name (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.file_name", false]], "file_size (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.file_size", false]], "file_size (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.file_size", false]], "gen3.tools": [[9, "module-gen3.tools", false]], "gen3.tools.download.drs_download": [[10, "module-gen3.tools.download.drs_download", false]], "gen3.tools.indexing.download_manifest": [[11, "module-gen3.tools.indexing.download_manifest", false]], "gen3.tools.indexing.index_manifest": [[11, "module-gen3.tools.indexing.index_manifest", false]], "gen3.tools.indexing.verify_manifest": [[11, "module-gen3.tools.indexing.verify_manifest", false]], "gen3.tools.metadata.ingest_manifest": [[12, "module-gen3.tools.metadata.ingest_manifest", false]], "gen3auth (class in gen3.auth)": [[0, "gen3.auth.Gen3Auth", false]], "gen3file (class in gen3.file)": [[1, "gen3.file.Gen3File", false]], "gen3index (class in gen3.index)": [[3, "gen3.index.Gen3Index", false]], "gen3jobs (class in gen3.jobs)": [[4, "gen3.jobs.Gen3Jobs", false]], "gen3metadata (class in gen3.metadata)": [[5, "gen3.metadata.Gen3Metadata", false]], "gen3object (class in gen3.object)": [[6, "gen3.object.Gen3Object", false]], "gen3query (class in gen3.query)": [[7, "gen3.query.Gen3Query", false]], "gen3submission (class in gen3.submission)": [[8, "gen3.submission.Gen3Submission", false]], "gen3wsstorage (class in gen3.wss)": [[13, "gen3.wss.Gen3WsStorage", false]], "get() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get", false]], "get() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.get", false]], "get_access_token() (gen3.auth.gen3auth method)": [[0, "gen3.auth.Gen3Auth.get_access_token", false]], "get_access_token_from_wts() (gen3.auth.gen3auth method)": [[0, "gen3.auth.Gen3Auth.get_access_token_from_wts", false]], "get_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.get_aliases", false]], "get_all_records() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_all_records", false]], "get_dictionary_all() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_dictionary_all", false]], "get_dictionary_node() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_dictionary_node", false]], "get_fresh_token() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.get_fresh_token", false]], "get_graphql_schema() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_graphql_schema", false]], "get_guids_prefix() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_guids_prefix", false]], "get_index_key_paths() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.get_index_key_paths", false]], "get_latest_version() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_latest_version", false]], "get_output() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.get_output", false]], "get_presigned_url() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.get_presigned_url", false]], "get_programs() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_programs", false]], "get_project_dictionary() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_project_dictionary", false]], "get_project_manifest() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_project_manifest", false]], "get_projects() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_projects", false]], "get_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_record", false]], "get_record_doc() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_record_doc", false]], "get_records() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_records", false]], "get_records_on_page() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_records_on_page", false]], "get_stats() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_stats", false]], "get_status() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.get_status", false]], "get_urls() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_urls", false]], "get_valid_guids() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_valid_guids", false]], "get_version() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_version", false]], "get_version() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.get_version", false]], "get_version() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.get_version", false]], "get_versions() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_versions", false]], "get_with_params() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_with_params", false]], "graphql_query() (gen3.query.gen3query method)": [[7, "gen3.query.Gen3Query.graphql_query", false]], "guid (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.GUID", false]], "guid_type_for_indexed_file_object (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.GUID_TYPE_FOR_INDEXED_FILE_OBJECT", false]], "guid_type_for_non_indexed_file_object (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.GUID_TYPE_FOR_NON_INDEXED_FILE_OBJECT", false]], "hostname (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.hostname", false]], "index_object_manifest() (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.index_object_manifest", false]], "indexd_record_page_size (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.INDEXD_RECORD_PAGE_SIZE", false]], "is_healthy() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.is_healthy", false]], "is_healthy() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.is_healthy", false]], "is_healthy() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.is_healthy", false]], "list_access_in_drs_manifest() (in module gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.list_access_in_drs_manifest", false]], "list_drs_object() (in module gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.list_drs_object", false]], "list_files_in_drs_manifest() (in module gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.list_files_in_drs_manifest", false]], "list_jobs() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.list_jobs", false]], "load() (gen3.tools.download.drs_download.manifest static method)": [[10, "gen3.tools.download.drs_download.Manifest.load", false]], "load_manifest() (gen3.tools.download.drs_download.manifest static method)": [[10, "gen3.tools.download.drs_download.Manifest.load_manifest", false]], "ls() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.ls", false]], "ls_path() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.ls_path", false]], "manifest (class in gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.Manifest", false]], "max_concurrent_requests (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.MAX_CONCURRENT_REQUESTS", false]], "max_concurrent_requests (in module gen3.tools.indexing.verify_manifest)": [[11, "gen3.tools.indexing.verify_manifest.MAX_CONCURRENT_REQUESTS", false]], "max_concurrent_requests (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.MAX_CONCURRENT_REQUESTS", false]], "md5 (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.MD5", false]], "md5sum (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.md5sum", false]], "module": [[9, "module-gen3.tools", false], [10, "module-gen3.tools.download.drs_download", false], [11, "module-gen3.tools.indexing.download_manifest", false], [11, "module-gen3.tools.indexing.index_manifest", false], [11, "module-gen3.tools.indexing.verify_manifest", false], [12, "module-gen3.tools.metadata.ingest_manifest", false]], "object_id (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.object_id", false]], "object_id (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.object_id", false]], "object_type (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.object_type", false]], "open_project() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.open_project", false]], "pprint() (gen3.tools.download.drs_download.downloadable method)": [[10, "gen3.tools.download.drs_download.Downloadable.pprint", false]], "prev_guid (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.PREV_GUID", false]], "query() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.query", false]], "query() (gen3.query.gen3query method)": [[7, "gen3.query.Gen3Query.query", false]], "query() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.query", false]], "query_urls() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.query_urls", false]], "raw_data_download() (gen3.query.gen3query method)": [[7, "gen3.query.Gen3Query.raw_data_download", false]], "refresh_access_token() (gen3.auth.gen3auth method)": [[0, "gen3.auth.Gen3Auth.refresh_access_token", false]], "resolve_objects() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.resolve_objects", false]], "rm() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.rm", false]], "rm_path() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.rm_path", false]], "size (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.SIZE", false]], "start_time (gen3.tools.download.drs_download.downloadstatus attribute)": [[10, "gen3.tools.download.drs_download.DownloadStatus.start_time", false]], "status (gen3.tools.download.drs_download.downloadstatus attribute)": [[10, "gen3.tools.download.drs_download.DownloadStatus.status", false]], "submit_file() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.submit_file", false]], "submit_record() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.submit_record", false]], "threadcontrol (class in gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.ThreadControl", false]], "tmp_folder (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.TMP_FOLDER", false]], "update() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.update", false]], "update_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.update_aliases", false]], "update_blank() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.update_blank", false]], "update_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.update_record", false]], "updated_time (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.updated_time", false]], "upload() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.upload", false]], "upload_file() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.upload_file", false]], "upload_file_to_guid() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.upload_file_to_guid", false]], "upload_url() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.upload_url", false]], "urls (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.URLS", false]], "user_access() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.user_access", false]]}, "objects": {"gen3": [[9, 3, 0, "-", "tools"]], "gen3.auth": [[0, 0, 1, "", "Gen3Auth"]], "gen3.auth.Gen3Auth": [[0, 1, 1, "", "curl"], [0, 1, 1, "", "get_access_token"], [0, 1, 1, "", "get_access_token_from_wts"], [0, 1, 1, "", "refresh_access_token"]], "gen3.file": [[1, 0, 1, "", "Gen3File"]], "gen3.file.Gen3File": [[1, 1, 1, "", "delete_file"], [1, 1, 1, "", "delete_file_locations"], [1, 1, 1, "", "download_single"], [1, 1, 1, "", "get_presigned_url"], [1, 1, 1, "", "upload_file"], [1, 1, 1, "", "upload_file_to_guid"]], "gen3.index": [[3, 0, 1, "", "Gen3Index"]], "gen3.index.Gen3Index": [[3, 1, 1, "", "async_create_record"], [3, 1, 1, "", "async_get_record"], [3, 1, 1, "", "async_get_records_from_checksum"], [3, 1, 1, "", "async_get_records_on_page"], [3, 1, 1, "", "async_get_with_params"], [3, 1, 1, "", "async_query_urls"], [3, 1, 1, "", "async_update_record"], [3, 1, 1, "", "create_blank"], [3, 1, 1, "", "create_new_version"], [3, 1, 1, "", "create_record"], [3, 1, 1, "", "delete_record"], [3, 1, 1, "", "get"], [3, 1, 1, "", "get_all_records"], [3, 1, 1, "", "get_guids_prefix"], [3, 1, 1, "", "get_latest_version"], [3, 1, 1, "", "get_record"], [3, 1, 1, "", "get_record_doc"], [3, 1, 1, "", "get_records"], [3, 1, 1, "", "get_records_on_page"], [3, 1, 1, "", "get_stats"], [3, 1, 1, "", "get_urls"], [3, 1, 1, "", "get_valid_guids"], [3, 1, 1, "", "get_version"], [3, 1, 1, "", "get_versions"], [3, 1, 1, "", "get_with_params"], [3, 1, 1, "", "is_healthy"], [3, 1, 1, "", "query_urls"], [3, 1, 1, "", "update_blank"], [3, 1, 1, "", "update_record"]], "gen3.jobs": [[4, 0, 1, "", "Gen3Jobs"]], "gen3.jobs.Gen3Jobs": [[4, 1, 1, "", "async_run_job_and_wait"], [4, 1, 1, "", "create_job"], [4, 1, 1, "", "get_output"], [4, 1, 1, "", "get_status"], [4, 1, 1, "", "get_version"], [4, 1, 1, "", "is_healthy"], [4, 1, 1, "", "list_jobs"]], "gen3.metadata": [[5, 0, 1, "", "Gen3Metadata"]], "gen3.metadata.Gen3Metadata": [[5, 1, 1, "", "async_create"], [5, 1, 1, "", "async_create_aliases"], [5, 1, 1, "", "async_delete_alias"], [5, 1, 1, "", "async_delete_aliases"], [5, 1, 1, "", "async_get"], [5, 1, 1, "", "async_get_aliases"], [5, 1, 1, "", "async_update"], [5, 1, 1, "", "async_update_aliases"], [5, 2, 1, "", "auth_provider"], [5, 1, 1, "", "batch_create"], [5, 1, 1, "", "create"], [5, 1, 1, "", "create_aliases"], [5, 1, 1, "", "create_index_key_path"], [5, 1, 1, "", "delete"], [5, 1, 1, "", "delete_alias"], [5, 1, 1, "", "delete_aliases"], [5, 1, 1, "", "delete_index_key_path"], [5, 2, 1, "", "endpoint"], [5, 1, 1, "", "get"], [5, 1, 1, "", "get_aliases"], [5, 1, 1, "", "get_index_key_paths"], [5, 1, 1, "", "get_version"], [5, 1, 1, "", "is_healthy"], [5, 1, 1, "", "query"], [5, 1, 1, "", "update"], [5, 1, 1, "", "update_aliases"]], "gen3.object": [[6, 0, 1, "", "Gen3Object"]], "gen3.object.Gen3Object": [[6, 1, 1, "", "delete_object"]], "gen3.query": [[7, 0, 1, "", "Gen3Query"]], "gen3.query.Gen3Query": [[7, 1, 1, "", "graphql_query"], [7, 1, 1, "", "query"], [7, 1, 1, "", "raw_data_download"]], "gen3.submission": [[8, 0, 1, "", "Gen3Submission"]], "gen3.submission.Gen3Submission": [[8, 1, 1, "", "create_program"], [8, 1, 1, "", "create_project"], [8, 1, 1, "", "delete_node"], [8, 1, 1, "", "delete_nodes"], [8, 1, 1, "", "delete_program"], [8, 1, 1, "", "delete_project"], [8, 1, 1, "", "delete_record"], [8, 1, 1, "", "delete_records"], [8, 1, 1, "", "export_node"], [8, 1, 1, "", "export_record"], [8, 1, 1, "", "get_dictionary_all"], [8, 1, 1, "", "get_dictionary_node"], [8, 1, 1, "", "get_graphql_schema"], [8, 1, 1, "", "get_programs"], [8, 1, 1, "", "get_project_dictionary"], [8, 1, 1, "", "get_project_manifest"], [8, 1, 1, "", "get_projects"], [8, 1, 1, "", "open_project"], [8, 1, 1, "", "query"], [8, 1, 1, "", "submit_file"], [8, 1, 1, "", "submit_record"]], "gen3.tools.download": [[10, 3, 0, "-", "drs_download"]], "gen3.tools.download.drs_download": [[10, 0, 1, "", "DownloadManager"], [10, 0, 1, "", "DownloadStatus"], [10, 0, 1, "", "Downloadable"], [10, 0, 1, "", "Manifest"], [10, 4, 1, "", "download_files_in_drs_manifest"], [10, 4, 1, "", "list_access_in_drs_manifest"], [10, 4, 1, "", "list_drs_object"], [10, 4, 1, "", "list_files_in_drs_manifest"]], "gen3.tools.download.drs_download.DownloadManager": [[10, 1, 1, "", "cache_hosts_wts_tokens"], [10, 1, 1, "", "download"], [10, 1, 1, "", "get_fresh_token"], [10, 1, 1, "", "resolve_objects"], [10, 1, 1, "", "user_access"]], "gen3.tools.download.drs_download.DownloadStatus": [[10, 2, 1, "", "end_time"], [10, 2, 1, "", "start_time"], [10, 2, 1, "", "status"]], "gen3.tools.download.drs_download.Downloadable": [[10, 2, 1, "", "_manager"], [10, 2, 1, "", "access_methods"], [10, 2, 1, "", "children"], [10, 2, 1, "", "created_time"], [10, 1, 1, "", "download"], [10, 2, 1, "", "file_name"], [10, 2, 1, "", "file_size"], [10, 2, 1, "", "hostname"], [10, 2, 1, "", "object_id"], [10, 2, 1, "", "object_type"], [10, 1, 1, "", "pprint"], [10, 2, 1, "", "updated_time"]], "gen3.tools.download.drs_download.Manifest": [[10, 2, 1, "", "commons_url"], [10, 1, 1, "", "create_object_list"], [10, 2, 1, "", "file_name"], [10, 2, 1, "", "file_size"], [10, 1, 1, "", "load"], [10, 1, 1, "", "load_manifest"], [10, 2, 1, "", "md5sum"], [10, 2, 1, "", "object_id"]], "gen3.tools.indexing": [[11, 3, 0, "-", "download_manifest"], [11, 3, 0, "-", "index_manifest"], [11, 3, 0, "-", "verify_manifest"]], "gen3.tools.indexing.download_manifest": [[11, 2, 1, "", "CURRENT_DIR"], [11, 2, 1, "", "INDEXD_RECORD_PAGE_SIZE"], [11, 2, 1, "", "MAX_CONCURRENT_REQUESTS"], [11, 2, 1, "", "TMP_FOLDER"], [11, 4, 1, "", "async_download_object_manifest"]], "gen3.tools.indexing.index_manifest": [[11, 2, 1, "", "ACLS"], [11, 2, 1, "", "AUTHZ"], [11, 2, 1, "", "CURRENT_DIR"], [11, 2, 1, "", "GUID"], [11, 2, 1, "", "MD5"], [11, 2, 1, "", "PREV_GUID"], [11, 2, 1, "", "SIZE"], [11, 0, 1, "", "ThreadControl"], [11, 2, 1, "", "URLS"], [11, 4, 1, "", "delete_all_guids"], [11, 4, 1, "", "index_object_manifest"]], "gen3.tools.indexing.verify_manifest": [[11, 2, 1, "", "CURRENT_DIR"], [11, 2, 1, "", "MAX_CONCURRENT_REQUESTS"], [11, 4, 1, "", "async_verify_object_manifest"]], "gen3.tools.metadata": [[12, 3, 0, "-", "ingest_manifest"]], "gen3.tools.metadata.ingest_manifest": [[12, 2, 1, "", "COLUMN_TO_USE_AS_GUID"], [12, 2, 1, "", "GUID_TYPE_FOR_INDEXED_FILE_OBJECT"], [12, 2, 1, "", "GUID_TYPE_FOR_NON_INDEXED_FILE_OBJECT"], [12, 2, 1, "", "MAX_CONCURRENT_REQUESTS"], [12, 4, 1, "", "async_ingest_metadata_manifest"], [12, 4, 1, "", "async_query_urls_from_indexd"]], "gen3.wss": [[13, 0, 1, "", "Gen3WsStorage"]], "gen3.wss.Gen3WsStorage": [[13, 1, 1, "", "copy"], [13, 1, 1, "", "download"], [13, 1, 1, "", "download_url"], [13, 1, 1, "", "ls"], [13, 1, 1, "", "ls_path"], [13, 1, 1, "", "rm"], [13, 1, 1, "", "rm_path"], [13, 1, 1, "", "upload"], [13, 1, 1, "", "upload_url"]]}, "objnames": {"0": ["py", "class", "Python class"], "1": ["py", "method", "Python method"], "2": ["py", "attribute", "Python attribute"], "3": ["py", "module", "Python module"], "4": ["py", "function", "Python function"]}, "objtypes": {"0": "py:class", "1": "py:method", "2": "py:attribute", "3": "py:module", "4": "py:function"}, "terms": {"": [1, 4, 8, 10, 11], "0": [5, 7, 8, 11], "075479": [], "0a80fada010c": 11, "0a80fada096c": 11, "0a80fada097c": 11, "0a80fada098c": 11, "0a80fada099c": 11, "1": [4, 5, 8, 10, 11], "10": [5, 7, 11], "100": [8, 11], "11e9": 11, "1716477475": [], "1716477476": [], "1717704701": [11, 12], "2": [5, 11], "24": [11, 12], "255e396f": 11, "3": [5, 11], "30": 8, "33": 5, "333": 5, "343434344": 11, "363455714": 11, "3696425": 11, "4": [5, 11], "450c": 11, "4714": 8, "473d83400bc1bc9dc635e334fadd433c": 11, "473d83400bc1bc9dc635e334faddd33c": 11, "473d83400bc1bc9dc635e334fadde33c": 11, "473d83400bc1bc9dc635e334faddf33c": 11, "5": [0, 5], "50": 7, "543434443": 11, "696411": 12, "6f90": 8, "7d3d8d2083b4": 11, "8274047": [], "8420": 8, "93d9af72": 11, "9a07": 11, "A": [1, 3, 4, 5, 6, 7, 8, 10, 11, 13], "AND": 5, "Be": 1, "But": 5, "By": 11, "For": [1, 5, 6, 7, 8, 9, 11], "IF": 11, "If": [0, 1, 7, 11, 12], "In": 10, "It": 10, "NOT": 12, "OR": 5, "One": 7, "Such": 9, "THE": 11, "That": 3, "The": [0, 1, 2, 3, 5, 8, 10, 11], "There": 11, "These": 9, "To": 11, "Will": [4, 7, 10], "_get_acl_from_row": 11, "_get_authz_from_row": 11, "_get_file_name_from_row": 11, "_get_file_size_from_row": 11, "_get_guid_for_row": 12, "_get_guid_from_row": 11, "_get_md5_from_row": 11, "_get_urls_from_row": 11, "_guid_typ": 12, "_manag": [2, 9, 10], "_query_for_associated_indexd_record_guid": 12, "_ssl": [3, 4, 5], "a5c6": 11, "ab167e49d25b488939b1ede42752458b": 3, "about": [2, 3], "abov": 11, "access": [0, 1, 3, 7, 10], "access_method": [2, 9, 10], "access_token": 0, "accesstoken": 0, "acl": [2, 3, 9, 11], "across": 11, "act": 0, "action": [9, 11], "actual": 11, "ad": 3, "add": [3, 5], "addit": [3, 5, 10, 11], "admin": [5, 11], "admin_endpoint_suffix": 5, "after": 10, "against": [3, 7, 8, 11, 12], "algorithm": 3, "alia": [3, 5], "alias": 5, "aliv": 7, "all": [1, 3, 4, 5, 6, 7, 8, 10, 11, 12], "allow": [0, 6, 8, 10, 11, 12], "allowed_data_upload_bucket": 1, "along": 2, "alreadi": 9, "also": 1, "altern": [5, 11], "alwai": 5, "ammount": 12, "amount": [1, 9], "an": [0, 3, 6, 8, 10, 11], "ani": [0, 5, 10, 11], "anoth": 5, "api": [0, 5, 8, 11], "api_kei": 11, "appli": 7, "appropri": 13, "ar": [5, 7, 8, 9, 10, 11], "arbitrari": 0, "argument": [0, 13], "arrai": 8, "asc": 7, "assign": 9, "assist": 10, "associ": [3, 5], "assum": 11, "async": [3, 4, 5, 9, 11, 12], "async_cr": [2, 5], "async_create_alias": [2, 5], "async_create_record": [2, 3], "async_delete_alia": [2, 5], "async_delete_alias": [2, 5], "async_download_object_manifest": [2, 9, 11], "async_get": [2, 5], "async_get_alias": [2, 5], "async_get_record": [2, 3], "async_get_records_from_checksum": [2, 3], "async_get_records_on_pag": [2, 3], "async_get_with_param": [2, 3], "async_ingest_metadata_manifest": [2, 9, 12], "async_query_url": [2, 3], "async_query_urls_from_indexd": [2, 9, 12], "async_run_job_and_wait": [2, 4], "async_upd": [2, 5], "async_update_alias": [2, 5], "async_update_record": [2, 3], "async_verify_object_manifest": [2, 9, 11], "asynchron": [3, 4, 5], "asyncio": [11, 12], "asyncron": 5, "attach": [3, 5], "attempt": 11, "attribut": [10, 11], "auth": [1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "auth_provid": [1, 2, 3, 4, 5, 6, 7, 8, 13], "authbas": 0, "authent": 0, "author": 1, "authz": [0, 1, 2, 3, 9, 10, 11], "auto": [0, 2], "automat": 0, "avail": [1, 2, 10, 11], "az": 1, "b": [5, 11], "b0f1": 11, "bar": 10, "base": [0, 1, 3, 4, 5, 6, 7, 8, 9, 11, 13], "baseid": 3, "basic": [3, 11, 12], "batch_creat": [2, 5], "batch_siz": 8, "behalf": 0, "behavior": 11, "being": 3, "belong": 8, "below": 11, "blank": 3, "blob": [5, 7], "bodi": 3, "bool": [4, 5, 8, 10, 11, 12], "boolean": 3, "bownload": 10, "broad": 9, "broken": 9, "bucket": [1, 6], "bundl": 10, "byte": 10, "c": [5, 11], "cach": 10, "cache_hosts_wts_token": [2, 9, 10], "call": [10, 13], "can": [0, 3, 4, 8, 11, 12], "capabl": 9, "case": [0, 10], "categori": 9, "ccle": 8, "ccle_one_record": 8, "ccle_sample_nod": 8, "cdi": 7, "chang": [3, 11], "checksum": [3, 10], "checksum_typ": 3, "child": 10, "children": [2, 9, 10], "chunk_siz": 8, "class": [0, 2, 10, 11, 13], "cli": 10, "client": [0, 3], "client_credenti": 0, "client_id": 0, "client_scop": 0, "client_secret": 0, "code": [2, 8], "column": [11, 12], "column_to_use_as_guid": [2, 9, 12], "columna": 11, "columnb": 11, "columnc": 11, "com": 7, "comma": 11, "command": [10, 11], "common": [0, 1, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13], "commons_url": [2, 9, 10, 11, 12], "complet": [4, 11], "complex": 7, "concat": 11, "concurr": [11, 12], "configur": 1, "connect": 12, "consist": 3, "constructor": 0, "contain": [0, 2, 5, 8, 9, 10, 11, 12], "content": [3, 13], "content_created_d": 3, "content_updated_d": 3, "continu": 10, "control": 3, "conveni": 10, "copi": [2, 13], "coroutin": 11, "correspond": 3, "count": 3, "crdc": 0, "creat": [2, 3, 4, 5, 6, 8, 10, 11], "create_alias": [2, 5], "create_blank": [2, 3], "create_index_key_path": [2, 5], "create_job": [2, 4], "create_new_vers": [2, 3], "create_object_list": [2, 9, 10], "create_program": [2, 8], "create_project": [2, 8], "create_record": [2, 3], "created_tim": [2, 9, 10], "creation": [3, 11], "cred": 3, "credenti": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 13], "csv": [8, 11, 12], "curl": [0, 2], "current": [6, 8, 10], "current_dir": [2, 9, 11], "custom": 11, "d": 5, "d70b41b9": 8, "data": [0, 1, 3, 5, 7, 8, 10, 11], "data_spreadsheet": 8, "data_typ": 7, "data_upload_bucket": 1, "dataa": 11, "datab": 11, "databas": 5, "datacommon": 0, "datafil": 10, "datamanag": 10, "date": 3, "datetim": [1, 3, 10], "dbgap": 12, "dcf": 8, "def": 11, "default": [0, 1, 3, 7, 8, 11, 12], "defin": [5, 8, 10], "delai": 4, "delet": [0, 1, 2, 3, 5, 6, 8, 10, 11], "delete_alia": [2, 5], "delete_alias": [2, 5], "delete_all_guid": [2, 9, 11], "delete_fil": [1, 2], "delete_file_loc": [1, 2, 6], "delete_index_key_path": [2, 5], "delete_nod": [2, 8], "delete_object": [2, 6], "delete_program": [2, 8], "delete_project": [2, 8], "delete_record": [2, 3, 8], "delete_unpacked_packag": 10, "delimet": [11, 12], "delimit": 11, "demograph": 8, "deprec": 1, "descript": [3, 5], "desir": 11, "dest_path": 13, "dest_urlstr": 13, "dest_w": 13, "dest_wskei": 13, "detail": [2, 7, 10], "determin": [10, 11, 12], "dev": 11, "dict": [3, 4, 5, 10, 11, 12], "dictionari": [3, 4, 5, 7, 8], "did": 3, "differ": 5, "direct": 0, "directori": [10, 11], "disabl": 10, "discoveri": 10, "disk": 13, "dispatch": 4, "dist_resolut": 3, "distribut": 3, "doc": [7, 10], "docstr": 2, "document": [1, 3], "doe": [0, 12], "domain": [11, 12], "done": 4, "download": [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 13], "download_files_in_drs_manifest": [2, 9, 10], "download_list": 10, "download_manifest": 11, "download_singl": [1, 2], "download_url": [2, 13], "downloadmanag": [2, 9, 10], "downloadstatu": [2, 9, 10], "dr": [2, 9], "drs_download": 10, "drs_hostnam": 10, "drsdownload": 10, "drsobjecttyp": 10, "e": [5, 10], "e043ab8b77b9": 8, "each": [3, 8, 10, 11], "effici": 9, "eg": 3, "either": 8, "elasticsearch": 7, "els": [0, 12], "elsewher": 12, "empti": [8, 11], "enabl": 11, "end": [5, 10], "end_tim": [2, 9, 10], "endpoint": [0, 1, 2, 3, 4, 5, 7, 8, 13], "entir": 8, "entri": [3, 11], "env": 0, "environ": 0, "equal": 7, "error": [10, 11, 12], "error_nam": 11, "etc": 8, "even": 11, "everi": [9, 11], "everyth": 11, "ex": [0, 11, 12], "exampl": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 13], "exclud": 3, "execut": [7, 8, 11], "exist": [1, 3, 5, 6, 9, 12], "expect": [5, 9, 11], "experi": 8, "expir": [0, 1], "expires_in": 1, "export": [8, 10], "export_nod": [2, 8], "export_record": [2, 8], "f1f8": 11, "factori": 10, "fail": [8, 10], "fals": [3, 5, 6, 10, 11], "featur": [1, 6], "fenc": [0, 1], "fetch": 0, "field": [3, 5, 7, 11, 12], "fieldnam": 11, "file": [0, 2, 3, 4, 8, 9, 10, 11, 12, 13], "file_nam": [1, 2, 3, 9, 10, 11], "file_s": [2, 9, 10, 11], "file_st": 3, "fileformat": 8, "filenam": [0, 8, 10, 11, 12], "files": 10, "fill": 12, "filter": [5, 7], "filter_object": 7, "first": [7, 8], "flag": 11, "folder": 11, "follow": [0, 11], "forc": 11, "force_metadata_columns_even_if_empti": 11, "form": 13, "format": [3, 5, 8, 11], "from": [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13], "func_to_parse_row": [11, 12], "function": [2, 3, 4, 5, 9, 10, 11, 12], "g": 10, "gen3": [10, 11, 12], "gen3_api_kei": 0, "gen3_oidc_client_creds_secret": 0, "gen3auth": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "gen3fil": [1, 2], "gen3index": [2, 3], "gen3job": [2, 4, 10], "gen3metadata": [2, 5], "gen3object": [2, 6], "gen3queri": [2, 7], "gen3submiss": [2, 8], "gen3wsstorag": [2, 13], "gener": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 13], "get": [0, 1, 2, 3, 4, 5, 8, 10, 11, 12, 13], "get_access_token": [0, 2], "get_access_token_from_wt": [0, 2], "get_alias": [2, 5], "get_all_record": [2, 3], "get_dictionary_al": [2, 8], "get_dictionary_nod": [2, 8], "get_fresh_token": [2, 9, 10], "get_graphql_schema": [2, 8], "get_guid_from_fil": 12, "get_guids_prefix": [2, 3], "get_index_key_path": [2, 5], "get_latest_vers": [2, 3], "get_output": [2, 4], "get_presigned_url": [1, 2], "get_program": [2, 8], "get_project": [2, 8], "get_project_dictionari": [2, 8], "get_project_manifest": [2, 8], "get_record": [2, 3], "get_record_doc": [2, 3], "get_records_on_pag": [2, 3], "get_stat": [2, 3], "get_statu": [2, 4], "get_url": [2, 3], "get_valid_guid": [2, 3], "get_vers": [2, 3, 4, 5], "get_with_param": [2, 3], "giangb": 11, "github": [2, 7], "give": 1, "given": [0, 3, 4, 5, 8, 10, 12, 13], "global": [4, 5], "good": 3, "grant": 0, "graph": 8, "graphql": [7, 8], "graphql_queri": [2, 7], "group": 3, "guid": [1, 2, 3, 5, 6, 9, 11, 12], "guid_exampl": 11, "guid_for_row": 12, "guid_from_fil": 12, "guid_type_for_indexed_file_object": [2, 9, 12], "guid_type_for_non_indexed_file_object": [2, 9, 12], "guppi": 7, "ha": [0, 11], "handl": [3, 10], "hardcod": 0, "has_vers": 3, "hash": [3, 11], "hash_typ": 3, "have": [5, 11], "header": 11, "healthi": [3, 4, 5], "help": 11, "helper": 2, "hit": 11, "host": 10, "hostnam": [2, 9, 10], "how": [8, 11], "howto": 10, "http": [0, 7, 11, 12], "i": [0, 1, 2, 3, 4, 5, 8, 10, 11, 12], "id": [0, 1, 3, 5, 10, 11], "idea": 3, "identifi": [3, 5, 9, 11], "idp": 0, "illustr": 11, "immut": 3, "implement": 0, "implic": 11, "import": 11, "includ": [0, 3], "indent": 10, "index": [0, 2, 5, 9], "index_manifest": 11, "index_object_manifest": [2, 9, 11], "indexd": [1, 3, 6, 10, 11, 12], "indexd_field": [11, 12], "indexd_record_page_s": [2, 9, 11], "indexed_file_object_guid": 12, "indic": [0, 11], "infil": 10, "info": [3, 11], "inform": [2, 3, 10], "ingest": [2, 9], "ingest_manifest": 12, "initi": [0, 10], "input": [4, 10, 11], "input_manifest": 11, "instal": [0, 2, 11], "instanc": [1, 3, 6, 7, 8, 9, 10], "instead": [1, 7, 11], "int": [1, 3, 5, 7, 8, 10, 11, 12], "integ": [1, 3, 8], "intend": 0, "interact": [1, 3, 4, 5, 6, 8, 13], "interest": 10, "interpret": 0, "introspect": 8, "involv": 9, "is_healthi": [2, 3, 4, 5], "is_indexed_file_object": 12, "isn": 1, "issu": 0, "its": [1, 3], "job": 2, "job_id": 4, "job_input": 4, "job_nam": 4, "json": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 13], "just": [5, 11, 12], "jwt": 0, "kei": [0, 3, 5, 13], "know": 11, "known": 10, "kwarg": [3, 4, 5], "l": [2, 13], "larg": 9, "last": 10, "latest": 3, "least": 3, "level": 6, "librari": 11, "like": [3, 5, 9, 11, 12], "limit": [1, 3, 5, 12], "linear": 4, "linux": 10, "list": [0, 1, 3, 4, 5, 7, 8, 10, 11, 13], "list_access_in_drs_manifest": [2, 9, 10], "list_drs_object": [2, 9, 10], "list_files_in_drs_manifest": [2, 9, 10], "list_job": [2, 4], "live": [11, 12], "load": [2, 9, 10], "load_manifest": [2, 9, 10], "local": [0, 13], "locat": [1, 6], "lock": 12, "log": [8, 10, 11, 12], "logic": [5, 12], "loop": 11, "ls_path": [2, 13], "maco": 11, "made": 3, "mai": [0, 9, 11], "main": 10, "make": [9, 11], "manag": [1, 5, 10], "mani": [8, 11], "manifest": [2, 8, 9, 10, 11, 12], "manifest_1": 10, "manifest_fil": [11, 12], "manifest_file_delimit": [11, 12], "manifest_row_pars": [11, 12], "map": [0, 11], "mark": 8, "master": 7, "match": [3, 5, 12], "max": 5, "max_concurrent_request": [2, 9, 11, 12], "max_presigned_url_ttl": 1, "max_tri": 8, "maximum": [11, 12], "md": [5, 7, 10, 12], "md5": [2, 3, 9, 11], "md5_hash": 11, "md5sum": [2, 9, 10], "mean": 8, "mechan": 3, "merg": 5, "metadata": [2, 3, 6, 9, 11], "metadata_list": 5, "metadata_sourc": 12, "metadata_typ": 12, "metdata": 12, "method": [1, 7, 10], "minimum": 10, "minut": 0, "mode": 7, "modul": [2, 10, 11], "more": [2, 5, 7, 9, 10], "most": 9, "mostli": 2, "multipl": [8, 11], "must": [1, 5], "my_common": 10, "my_credenti": 10, "my_field": 7, "my_index": 7, "my_program": 7, "my_project": 7, "name": [3, 4, 8, 10, 11, 12, 13], "namespac": [0, 12], "necessari": [3, 5], "need": [3, 7, 10, 11], "nest": 5, "net": 11, "never": 0, "new": [0, 3], "node": 8, "node_nam": 8, "node_typ": 8, "none": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "note": [0, 3, 11, 12], "noth": [3, 6], "now": [1, 8], "num": 5, "num_process": 11, "num_total_fil": 11, "number": [3, 7, 8, 11, 12], "o": 0, "object": [1, 2, 3, 4, 5, 7, 8, 9, 10, 11, 13], "object_id": [1, 2, 9, 10], "object_list": 10, "object_typ": [2, 9, 10], "objectid": 10, "obtain": [0, 10], "occur": 10, "off": 5, "offset": [5, 7], "oidc": 0, "old": 3, "one": [3, 5, 10, 11], "onli": [3, 5, 7, 8, 10, 11], "open": [8, 10, 11], "open_project": [2, 8], "openid": 0, "opt": 0, "option": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11], "order": [0, 8], "ordered_node_list": 8, "org": 10, "otherwis": 10, "output": [4, 5, 11, 12], "output_dir": 10, "output_filenam": [11, 12], "overrid": [0, 11, 12], "overwrit": 5, "own": 0, "packag": 10, "page": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 13], "pagin": 3, "parallel": 11, "param": [3, 5, 8, 10], "paramet": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "pars": [10, 11, 12, 13], "parser": [11, 12], "particular": 0, "pass": [0, 7, 8, 10], "password": [11, 12], "path": [0, 1, 5, 10, 11, 13], "path_to_manifest": 11, "pattern": [3, 12], "pdcdatastor": 11, "pend": 10, "per": [11, 12], "peregrin": 8, "permiss": 10, "persist": 9, "phs0001": 11, "phs0002": 11, "pick": 1, "pla": 11, "place": 11, "planx": 11, "point": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "popul": [10, 12], "posit": [1, 7], "possibl": 10, "post": [0, 11], "pprint": [2, 9, 10], "prefix": 3, "presign": 1, "pretti": 10, "prev_guid": [2, 9, 11], "previou": [3, 11], "previous": 4, "print": [8, 10], "process": 11, "processed_fil": 11, "profil": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "program": [8, 11], "progress": [8, 10], "project": [8, 11], "project_id": [7, 8], "protocol": 1, "provid": [0, 1, 3, 5, 7, 8, 12], "public": [3, 5], "put": 0, "py": 11, "python": [2, 9, 11], "python3": 11, "python_subprocess_command": 11, "queri": [1, 2, 3, 5, 8, 11, 12], "query_str": 7, "query_txt": [7, 8], "query_url": [2, 3], "quickstart": 2, "rather": 0, "raw": [7, 11], "raw_data_download": [2, 7], "rbac": 3, "read": [3, 5, 11], "readm": 2, "reason": 10, "record": [1, 3, 5, 7, 8, 11, 12], "refresh": [0, 10], "refresh_access_token": [0, 2], "refresh_fil": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "refresh_token": 0, "regist": 8, "regular": 7, "relat": 9, "remov": [1, 6, 11, 13], "replac": 11, "replace_url": 11, "repo": 2, "repres": [3, 5, 10], "represent": [1, 3], "request": [0, 1, 3, 5, 8, 11, 12], "requir": 10, "resolv": 10, "resolve_object": [2, 9, 10], "respect": 7, "respons": [0, 1, 3, 4, 5], "result": [1, 8, 10, 11], "retri": 8, "retriev": [1, 8, 10, 12], "return": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11], "return_full_metadata": 5, "rev": 3, "revers": 8, "revis": 3, "right": 1, "rm": [2, 13], "rm_path": [2, 13], "root": [11, 12], "row": [7, 8, 11, 12], "row_offset": 8, "rtype": 3, "run": [8, 11], "s3": [1, 10, 11], "safe": 11, "same": [5, 11, 13], "sampl": [8, 10], "sandbox": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "save": 10, "save_directori": 10, "schema": 8, "scope": [0, 1], "screen": 8, "script": 2, "search": [0, 2, 3], "second": [1, 4], "secret": 0, "see": [7, 10, 11], "self": 10, "semaphon": 12, "semaphor": 12, "separ": [0, 11], "server": 10, "servic": [1, 3, 4, 5, 6, 8, 11, 12, 13], "service_loc": [3, 4, 5], "session": 11, "set": [0, 1, 5, 10], "setup": 2, "sheepdog": 8, "should": [0, 8, 11], "show": 10, "show_progress": 10, "shown": 11, "sign": 1, "signpost": 3, "similar": 10, "simpl": 3, "simpli": 11, "sinc": 3, "singl": [1, 5, 8], "size": [2, 3, 9, 10, 11], "skip": 8, "sleep": 4, "so": 11, "some": [0, 2], "someth": 11, "sort": 7, "sort_field": 7, "sort_object": 7, "sourc": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "space": [0, 11], "specif": [5, 8, 11, 12], "specifi": [0, 1, 3, 11, 13], "spreadsheet": 8, "src_path": 13, "src_urlstr": 13, "src_w": 13, "src_wskei": 13, "ssl": [3, 4, 5], "start": [3, 4, 7, 8, 10], "start_tim": [2, 9, 10], "static": 10, "statu": [2, 4, 9, 10], "storag": [1, 2, 6], "store": [1, 3, 10], "str": [0, 1, 3, 4, 5, 7, 8, 10, 11, 12], "string": [0, 3, 5, 11, 13], "strip": 11, "sub": 8, "subject": [7, 8], "submiss": 2, "submit": [8, 11], "submit_additional_metadata_column": 11, "submit_fil": [2, 8], "submit_record": [2, 8], "submitter_id": 7, "success": 10, "successfulli": 10, "suffici": 3, "suppli": 3, "support": [0, 1, 5, 8, 11], "sure": 1, "synchron": 11, "syntax": 7, "system": [6, 7, 8, 9], "t": [1, 5, 11], "tab": 11, "task": 9, "temporari": 11, "test": 11, "test1": 11, "test2": 11, "test3": 11, "test4": 11, "test5": 11, "text": [1, 7, 8], "than": [0, 5], "thei": [0, 10], "them": [10, 11], "thi": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "those": 11, "thread": 11, "thread_num": 11, "threadcontrol": [2, 9, 11], "through": [8, 11], "tier": 7, "time": [1, 3, 8, 10, 11], "timestamp": 10, "tmp_folder": [2, 9, 11], "token": [0, 10], "tool": 2, "total": 11, "treat": [1, 5], "tree": 10, "true": [3, 4, 5, 6, 7, 8, 10, 11, 12], "try": 0, "tsv": [8, 11, 12], "tupl": [0, 3, 11, 12], "type": [1, 3, 4, 5, 7, 8, 10, 11, 12], "typic": 10, "uc": 7, "unaccess": 7, "under": [0, 8, 13], "uniqu": [1, 5], "unknown": 10, "unpack": 10, "unpack_packag": 10, "until": [4, 10], "up": [5, 9], "updat": [2, 3, 5, 10, 11], "update_alias": [2, 5], "update_blank": [2, 3], "update_record": [2, 3], "updated_tim": [2, 9, 10], "upload": [1, 2, 3, 8, 13], "upload_fil": [1, 2], "upload_file_to_guid": [1, 2], "upload_url": [2, 13], "url": [1, 2, 3, 9, 10, 11, 12, 13], "urls_metadata": 3, "us": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "usag": 11, "use_agg_md": 5, "user": [0, 10, 12], "user_access": [2, 9, 10], "usual": 12, "utcnow": 1, "util": 9, "uuid": [1, 3, 8], "uuid1": 8, "uuid2": 8, "valid": [3, 7], "valu": [0, 1, 3, 5, 7, 10, 11], "value_from_indexd": 11, "value_from_manifest": 11, "variabl": [0, 7, 8], "variou": 2, "verbos": [7, 8], "verif": 11, "verifi": [2, 9], "verify_manifest": 11, "verify_object_manifest": 11, "version": [3, 4, 5], "vital_statu": 7, "w": 13, "wa": 0, "wai": 10, "wait": 4, "want": [0, 3, 8], "warn": 11, "we": [3, 11], "web": 0, "what": 5, "when": [0, 3, 7, 10, 12], "where": [0, 3, 5, 11, 12], "whether": [3, 4, 5, 8, 11, 12], "which": [8, 10], "while": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "whose": 5, "within": [0, 2, 9], "without": [3, 5], "won": 5, "work": [0, 10], "workaround": 11, "worksheet": 8, "workspac": [0, 2], "wrapper": 10, "write": 11, "ws_urlstr": 13, "wskei": 13, "wss": 13, "wt": [0, 10], "x": 11, "xlsx": 8, "you": [0, 3, 8, 11], "your": 0}, "titles": ["Gen3 Auth Helper", "Gen3 File Class", "Welcome to Gen3 SDK\u2019s documentation!", "Gen3 Index Class", "Gen3 Jobs Class", "Gen3 Metadata Class", "Gen3 Object Class", "Gen3 Query Class", "Gen3 Submission Class", "Gen3 Tools", "DRS Download Tools", "Indexing Tools", "Metadata Tools", "Gen3 Workspace Storage"], "titleterms": {"": 2, "auth": 0, "class": [1, 3, 4, 5, 6, 7, 8], "document": 2, "download": [10, 11], "dr": 10, "file": 1, "gen3": [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 13], "helper": 0, "index": [3, 11], "indic": 2, "ingest": 12, "job": 4, "metadata": [5, 12], "object": 6, "queri": 7, "sdk": 2, "storag": 13, "submiss": 8, "tabl": 2, "tool": [9, 10, 11, 12], "verifi": 11, "welcom": 2, "workspac": 13}})
\ No newline at end of file
+Search.setIndex({"alltitles": {"DRS Download Tools": [[10, "module-gen3.tools.download.drs_download"]], "Download": [[11, "module-gen3.tools.indexing.download_manifest"]], "Gen3 Auth Helper": [[0, "gen3-auth-helper"]], "Gen3 File Class": [[1, "gen3-file-class"]], "Gen3 Index Class": [[3, "gen3-index-class"]], "Gen3 Jobs Class": [[4, "gen3-jobs-class"]], "Gen3 Metadata Class": [[5, "gen3-metadata-class"]], "Gen3 Object Class": [[6, "gen3-object-class"]], "Gen3 Query Class": [[7, "gen3-query-class"]], "Gen3 Submission Class": [[8, "gen3-submission-class"]], "Gen3 Tools": [[9, "gen3-tools"]], "Gen3 Workspace Storage": [[13, "gen3-workspace-storage"]], "Index": [[11, "module-gen3.tools.indexing.index_manifest"]], "Indexing Tools": [[11, "indexing-tools"]], "Indices and tables": [[2, "indices-and-tables"]], "Ingest": [[12, "module-gen3.tools.metadata.ingest_manifest"]], "Metadata Tools": [[12, "metadata-tools"]], "Verify": [[11, "module-gen3.tools.indexing.verify_manifest"]], "Welcome to Gen3 SDK\u2019s documentation!": [[2, "welcome-to-gen3-sdk-s-documentation"]]}, "docnames": ["auth", "file", "index", "indexing", "jobs", "metadata", "object", "query", "submission", "tools", "tools/drs_pull", "tools/indexing", "tools/metadata", "wss"], "envversion": {"sphinx": 61, "sphinx.domains.c": 3, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 9, "sphinx.domains.index": 1, "sphinx.domains.javascript": 3, "sphinx.domains.math": 2, "sphinx.domains.python": 4, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx.ext.viewcode": 1}, "filenames": ["auth.rst", "file.rst", "index.rst", "indexing.rst", "jobs.rst", "metadata.rst", "object.rst", "query.rst", "submission.rst", "tools.rst", "tools/drs_pull.rst", "tools/indexing.rst", "tools/metadata.rst", "wss.rst"], "indexentries": {"_manager (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable._manager", false]], "access_methods (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.access_methods", false]], "acls (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.ACLS", false]], "async_create() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_create", false]], "async_create_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_create_aliases", false]], "async_create_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_create_record", false]], "async_delete_alias() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_delete_alias", false]], "async_delete_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_delete_aliases", false]], "async_download_object_manifest() (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.async_download_object_manifest", false]], "async_get() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_get", false]], "async_get_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_get_aliases", false]], "async_get_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_get_record", false]], "async_get_records_from_checksum() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_get_records_from_checksum", false]], "async_get_records_on_page() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_get_records_on_page", false]], "async_get_with_params() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_get_with_params", false]], "async_ingest_metadata_manifest() (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.async_ingest_metadata_manifest", false]], "async_query_urls() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_query_urls", false]], "async_query_urls_from_indexd() (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.async_query_urls_from_indexd", false]], "async_run_job_and_wait() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.async_run_job_and_wait", false]], "async_update() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_update", false]], "async_update_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.async_update_aliases", false]], "async_update_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.async_update_record", false]], "async_verify_object_manifest() (in module gen3.tools.indexing.verify_manifest)": [[11, "gen3.tools.indexing.verify_manifest.async_verify_object_manifest", false]], "auth_provider (gen3.metadata.gen3metadata attribute)": [[5, "gen3.metadata.Gen3Metadata.auth_provider", false]], "authz (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.AUTHZ", false]], "batch_create() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.batch_create", false]], "cache_hosts_wts_tokens() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.cache_hosts_wts_tokens", false]], "children (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.children", false]], "column_to_use_as_guid (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.COLUMN_TO_USE_AS_GUID", false]], "commons_url (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.commons_url", false]], "copy() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.copy", false]], "create() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.create", false]], "create_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.create_aliases", false]], "create_blank() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.create_blank", false]], "create_index_key_path() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.create_index_key_path", false]], "create_job() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.create_job", false]], "create_new_version() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.create_new_version", false]], "create_object_list() (gen3.tools.download.drs_download.manifest static method)": [[10, "gen3.tools.download.drs_download.Manifest.create_object_list", false]], "create_program() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.create_program", false]], "create_project() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.create_project", false]], "create_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.create_record", false]], "created_time (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.created_time", false]], "curl() (gen3.auth.gen3auth method)": [[0, "gen3.auth.Gen3Auth.curl", false]], "current_dir (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.CURRENT_DIR", false]], "current_dir (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.CURRENT_DIR", false]], "current_dir (in module gen3.tools.indexing.verify_manifest)": [[11, "gen3.tools.indexing.verify_manifest.CURRENT_DIR", false]], "delete() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.delete", false]], "delete_alias() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.delete_alias", false]], "delete_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.delete_aliases", false]], "delete_all_guids() (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.delete_all_guids", false]], "delete_file() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.delete_file", false]], "delete_file_locations() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.delete_file_locations", false]], "delete_index_key_path() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.delete_index_key_path", false]], "delete_node() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_node", false]], "delete_nodes() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_nodes", false]], "delete_object() (gen3.object.gen3object method)": [[6, "gen3.object.Gen3Object.delete_object", false]], "delete_program() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_program", false]], "delete_project() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_project", false]], "delete_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.delete_record", false]], "delete_record() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_record", false]], "delete_records() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.delete_records", false]], "download() (gen3.tools.download.drs_download.downloadable method)": [[10, "gen3.tools.download.drs_download.Downloadable.download", false]], "download() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.download", false]], "download() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.download", false]], "download_files_in_drs_manifest() (in module gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.download_files_in_drs_manifest", false]], "download_single() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.download_single", false]], "download_url() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.download_url", false]], "downloadable (class in gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.Downloadable", false]], "downloadmanager (class in gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.DownloadManager", false]], "downloadstatus (class in gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.DownloadStatus", false]], "end_time (gen3.tools.download.drs_download.downloadstatus attribute)": [[10, "gen3.tools.download.drs_download.DownloadStatus.end_time", false]], "endpoint (gen3.metadata.gen3metadata attribute)": [[5, "gen3.metadata.Gen3Metadata.endpoint", false]], "export_node() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.export_node", false]], "export_record() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.export_record", false]], "file_name (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.file_name", false]], "file_name (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.file_name", false]], "file_size (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.file_size", false]], "file_size (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.file_size", false]], "gen3.tools": [[9, "module-gen3.tools", false]], "gen3.tools.download.drs_download": [[10, "module-gen3.tools.download.drs_download", false]], "gen3.tools.indexing.download_manifest": [[11, "module-gen3.tools.indexing.download_manifest", false]], "gen3.tools.indexing.index_manifest": [[11, "module-gen3.tools.indexing.index_manifest", false]], "gen3.tools.indexing.verify_manifest": [[11, "module-gen3.tools.indexing.verify_manifest", false]], "gen3.tools.metadata.ingest_manifest": [[12, "module-gen3.tools.metadata.ingest_manifest", false]], "gen3auth (class in gen3.auth)": [[0, "gen3.auth.Gen3Auth", false]], "gen3file (class in gen3.file)": [[1, "gen3.file.Gen3File", false]], "gen3index (class in gen3.index)": [[3, "gen3.index.Gen3Index", false]], "gen3jobs (class in gen3.jobs)": [[4, "gen3.jobs.Gen3Jobs", false]], "gen3metadata (class in gen3.metadata)": [[5, "gen3.metadata.Gen3Metadata", false]], "gen3object (class in gen3.object)": [[6, "gen3.object.Gen3Object", false]], "gen3query (class in gen3.query)": [[7, "gen3.query.Gen3Query", false]], "gen3submission (class in gen3.submission)": [[8, "gen3.submission.Gen3Submission", false]], "gen3wsstorage (class in gen3.wss)": [[13, "gen3.wss.Gen3WsStorage", false]], "get() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get", false]], "get() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.get", false]], "get_access_token() (gen3.auth.gen3auth method)": [[0, "gen3.auth.Gen3Auth.get_access_token", false]], "get_access_token_from_wts() (gen3.auth.gen3auth method)": [[0, "gen3.auth.Gen3Auth.get_access_token_from_wts", false]], "get_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.get_aliases", false]], "get_all_records() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_all_records", false]], "get_dictionary_all() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_dictionary_all", false]], "get_dictionary_node() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_dictionary_node", false]], "get_fresh_token() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.get_fresh_token", false]], "get_graphql_schema() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_graphql_schema", false]], "get_guids_prefix() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_guids_prefix", false]], "get_index_key_paths() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.get_index_key_paths", false]], "get_latest_version() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_latest_version", false]], "get_output() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.get_output", false]], "get_presigned_url() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.get_presigned_url", false]], "get_programs() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_programs", false]], "get_project_dictionary() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_project_dictionary", false]], "get_project_manifest() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_project_manifest", false]], "get_projects() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.get_projects", false]], "get_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_record", false]], "get_record_doc() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_record_doc", false]], "get_records() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_records", false]], "get_records_on_page() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_records_on_page", false]], "get_stats() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_stats", false]], "get_status() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.get_status", false]], "get_urls() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_urls", false]], "get_valid_guids() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_valid_guids", false]], "get_version() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_version", false]], "get_version() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.get_version", false]], "get_version() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.get_version", false]], "get_versions() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_versions", false]], "get_with_params() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.get_with_params", false]], "graphql_query() (gen3.query.gen3query method)": [[7, "gen3.query.Gen3Query.graphql_query", false]], "guid (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.GUID", false]], "guid_type_for_indexed_file_object (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.GUID_TYPE_FOR_INDEXED_FILE_OBJECT", false]], "guid_type_for_non_indexed_file_object (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.GUID_TYPE_FOR_NON_INDEXED_FILE_OBJECT", false]], "hostname (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.hostname", false]], "index_object_manifest() (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.index_object_manifest", false]], "indexd_record_page_size (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.INDEXD_RECORD_PAGE_SIZE", false]], "is_healthy() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.is_healthy", false]], "is_healthy() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.is_healthy", false]], "is_healthy() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.is_healthy", false]], "list_access_in_drs_manifest() (in module gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.list_access_in_drs_manifest", false]], "list_drs_object() (in module gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.list_drs_object", false]], "list_files_in_drs_manifest() (in module gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.list_files_in_drs_manifest", false]], "list_jobs() (gen3.jobs.gen3jobs method)": [[4, "gen3.jobs.Gen3Jobs.list_jobs", false]], "load() (gen3.tools.download.drs_download.manifest static method)": [[10, "gen3.tools.download.drs_download.Manifest.load", false]], "load_manifest() (gen3.tools.download.drs_download.manifest static method)": [[10, "gen3.tools.download.drs_download.Manifest.load_manifest", false]], "ls() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.ls", false]], "ls_path() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.ls_path", false]], "manifest (class in gen3.tools.download.drs_download)": [[10, "gen3.tools.download.drs_download.Manifest", false]], "max_concurrent_requests (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.MAX_CONCURRENT_REQUESTS", false]], "max_concurrent_requests (in module gen3.tools.indexing.verify_manifest)": [[11, "gen3.tools.indexing.verify_manifest.MAX_CONCURRENT_REQUESTS", false]], "max_concurrent_requests (in module gen3.tools.metadata.ingest_manifest)": [[12, "gen3.tools.metadata.ingest_manifest.MAX_CONCURRENT_REQUESTS", false]], "md5 (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.MD5", false]], "md5sum (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.md5sum", false]], "module": [[9, "module-gen3.tools", false], [10, "module-gen3.tools.download.drs_download", false], [11, "module-gen3.tools.indexing.download_manifest", false], [11, "module-gen3.tools.indexing.index_manifest", false], [11, "module-gen3.tools.indexing.verify_manifest", false], [12, "module-gen3.tools.metadata.ingest_manifest", false]], "object_id (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.object_id", false]], "object_id (gen3.tools.download.drs_download.manifest attribute)": [[10, "gen3.tools.download.drs_download.Manifest.object_id", false]], "object_type (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.object_type", false]], "open_project() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.open_project", false]], "pprint() (gen3.tools.download.drs_download.downloadable method)": [[10, "gen3.tools.download.drs_download.Downloadable.pprint", false]], "prev_guid (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.PREV_GUID", false]], "query() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.query", false]], "query() (gen3.query.gen3query method)": [[7, "gen3.query.Gen3Query.query", false]], "query() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.query", false]], "query_urls() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.query_urls", false]], "raw_data_download() (gen3.query.gen3query method)": [[7, "gen3.query.Gen3Query.raw_data_download", false]], "refresh_access_token() (gen3.auth.gen3auth method)": [[0, "gen3.auth.Gen3Auth.refresh_access_token", false]], "resolve_objects() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.resolve_objects", false]], "rm() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.rm", false]], "rm_path() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.rm_path", false]], "size (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.SIZE", false]], "start_time (gen3.tools.download.drs_download.downloadstatus attribute)": [[10, "gen3.tools.download.drs_download.DownloadStatus.start_time", false]], "status (gen3.tools.download.drs_download.downloadstatus attribute)": [[10, "gen3.tools.download.drs_download.DownloadStatus.status", false]], "submit_file() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.submit_file", false]], "submit_record() (gen3.submission.gen3submission method)": [[8, "gen3.submission.Gen3Submission.submit_record", false]], "threadcontrol (class in gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.ThreadControl", false]], "tmp_folder (in module gen3.tools.indexing.download_manifest)": [[11, "gen3.tools.indexing.download_manifest.TMP_FOLDER", false]], "update() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.update", false]], "update_aliases() (gen3.metadata.gen3metadata method)": [[5, "gen3.metadata.Gen3Metadata.update_aliases", false]], "update_blank() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.update_blank", false]], "update_record() (gen3.index.gen3index method)": [[3, "gen3.index.Gen3Index.update_record", false]], "updated_time (gen3.tools.download.drs_download.downloadable attribute)": [[10, "gen3.tools.download.drs_download.Downloadable.updated_time", false]], "upload() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.upload", false]], "upload_file() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.upload_file", false]], "upload_file_to_guid() (gen3.file.gen3file method)": [[1, "gen3.file.Gen3File.upload_file_to_guid", false]], "upload_url() (gen3.wss.gen3wsstorage method)": [[13, "gen3.wss.Gen3WsStorage.upload_url", false]], "urls (in module gen3.tools.indexing.index_manifest)": [[11, "gen3.tools.indexing.index_manifest.URLS", false]], "user_access() (gen3.tools.download.drs_download.downloadmanager method)": [[10, "gen3.tools.download.drs_download.DownloadManager.user_access", false]]}, "objects": {"gen3": [[9, 3, 0, "-", "tools"]], "gen3.auth": [[0, 0, 1, "", "Gen3Auth"]], "gen3.auth.Gen3Auth": [[0, 1, 1, "", "curl"], [0, 1, 1, "", "get_access_token"], [0, 1, 1, "", "get_access_token_from_wts"], [0, 1, 1, "", "refresh_access_token"]], "gen3.file": [[1, 0, 1, "", "Gen3File"]], "gen3.file.Gen3File": [[1, 1, 1, "", "delete_file"], [1, 1, 1, "", "delete_file_locations"], [1, 1, 1, "", "download_single"], [1, 1, 1, "", "get_presigned_url"], [1, 1, 1, "", "upload_file"], [1, 1, 1, "", "upload_file_to_guid"]], "gen3.index": [[3, 0, 1, "", "Gen3Index"]], "gen3.index.Gen3Index": [[3, 1, 1, "", "async_create_record"], [3, 1, 1, "", "async_get_record"], [3, 1, 1, "", "async_get_records_from_checksum"], [3, 1, 1, "", "async_get_records_on_page"], [3, 1, 1, "", "async_get_with_params"], [3, 1, 1, "", "async_query_urls"], [3, 1, 1, "", "async_update_record"], [3, 1, 1, "", "create_blank"], [3, 1, 1, "", "create_new_version"], [3, 1, 1, "", "create_record"], [3, 1, 1, "", "delete_record"], [3, 1, 1, "", "get"], [3, 1, 1, "", "get_all_records"], [3, 1, 1, "", "get_guids_prefix"], [3, 1, 1, "", "get_latest_version"], [3, 1, 1, "", "get_record"], [3, 1, 1, "", "get_record_doc"], [3, 1, 1, "", "get_records"], [3, 1, 1, "", "get_records_on_page"], [3, 1, 1, "", "get_stats"], [3, 1, 1, "", "get_urls"], [3, 1, 1, "", "get_valid_guids"], [3, 1, 1, "", "get_version"], [3, 1, 1, "", "get_versions"], [3, 1, 1, "", "get_with_params"], [3, 1, 1, "", "is_healthy"], [3, 1, 1, "", "query_urls"], [3, 1, 1, "", "update_blank"], [3, 1, 1, "", "update_record"]], "gen3.jobs": [[4, 0, 1, "", "Gen3Jobs"]], "gen3.jobs.Gen3Jobs": [[4, 1, 1, "", "async_run_job_and_wait"], [4, 1, 1, "", "create_job"], [4, 1, 1, "", "get_output"], [4, 1, 1, "", "get_status"], [4, 1, 1, "", "get_version"], [4, 1, 1, "", "is_healthy"], [4, 1, 1, "", "list_jobs"]], "gen3.metadata": [[5, 0, 1, "", "Gen3Metadata"]], "gen3.metadata.Gen3Metadata": [[5, 1, 1, "", "async_create"], [5, 1, 1, "", "async_create_aliases"], [5, 1, 1, "", "async_delete_alias"], [5, 1, 1, "", "async_delete_aliases"], [5, 1, 1, "", "async_get"], [5, 1, 1, "", "async_get_aliases"], [5, 1, 1, "", "async_update"], [5, 1, 1, "", "async_update_aliases"], [5, 2, 1, "", "auth_provider"], [5, 1, 1, "", "batch_create"], [5, 1, 1, "", "create"], [5, 1, 1, "", "create_aliases"], [5, 1, 1, "", "create_index_key_path"], [5, 1, 1, "", "delete"], [5, 1, 1, "", "delete_alias"], [5, 1, 1, "", "delete_aliases"], [5, 1, 1, "", "delete_index_key_path"], [5, 2, 1, "", "endpoint"], [5, 1, 1, "", "get"], [5, 1, 1, "", "get_aliases"], [5, 1, 1, "", "get_index_key_paths"], [5, 1, 1, "", "get_version"], [5, 1, 1, "", "is_healthy"], [5, 1, 1, "", "query"], [5, 1, 1, "", "update"], [5, 1, 1, "", "update_aliases"]], "gen3.object": [[6, 0, 1, "", "Gen3Object"]], "gen3.object.Gen3Object": [[6, 1, 1, "", "delete_object"]], "gen3.query": [[7, 0, 1, "", "Gen3Query"]], "gen3.query.Gen3Query": [[7, 1, 1, "", "graphql_query"], [7, 1, 1, "", "query"], [7, 1, 1, "", "raw_data_download"]], "gen3.submission": [[8, 0, 1, "", "Gen3Submission"]], "gen3.submission.Gen3Submission": [[8, 1, 1, "", "create_program"], [8, 1, 1, "", "create_project"], [8, 1, 1, "", "delete_node"], [8, 1, 1, "", "delete_nodes"], [8, 1, 1, "", "delete_program"], [8, 1, 1, "", "delete_project"], [8, 1, 1, "", "delete_record"], [8, 1, 1, "", "delete_records"], [8, 1, 1, "", "export_node"], [8, 1, 1, "", "export_record"], [8, 1, 1, "", "get_dictionary_all"], [8, 1, 1, "", "get_dictionary_node"], [8, 1, 1, "", "get_graphql_schema"], [8, 1, 1, "", "get_programs"], [8, 1, 1, "", "get_project_dictionary"], [8, 1, 1, "", "get_project_manifest"], [8, 1, 1, "", "get_projects"], [8, 1, 1, "", "open_project"], [8, 1, 1, "", "query"], [8, 1, 1, "", "submit_file"], [8, 1, 1, "", "submit_record"]], "gen3.tools.download": [[10, 3, 0, "-", "drs_download"]], "gen3.tools.download.drs_download": [[10, 0, 1, "", "DownloadManager"], [10, 0, 1, "", "DownloadStatus"], [10, 0, 1, "", "Downloadable"], [10, 0, 1, "", "Manifest"], [10, 4, 1, "", "download_files_in_drs_manifest"], [10, 4, 1, "", "list_access_in_drs_manifest"], [10, 4, 1, "", "list_drs_object"], [10, 4, 1, "", "list_files_in_drs_manifest"]], "gen3.tools.download.drs_download.DownloadManager": [[10, 1, 1, "", "cache_hosts_wts_tokens"], [10, 1, 1, "", "download"], [10, 1, 1, "", "get_fresh_token"], [10, 1, 1, "", "resolve_objects"], [10, 1, 1, "", "user_access"]], "gen3.tools.download.drs_download.DownloadStatus": [[10, 2, 1, "", "end_time"], [10, 2, 1, "", "start_time"], [10, 2, 1, "", "status"]], "gen3.tools.download.drs_download.Downloadable": [[10, 2, 1, "", "_manager"], [10, 2, 1, "", "access_methods"], [10, 2, 1, "", "children"], [10, 2, 1, "", "created_time"], [10, 1, 1, "", "download"], [10, 2, 1, "", "file_name"], [10, 2, 1, "", "file_size"], [10, 2, 1, "", "hostname"], [10, 2, 1, "", "object_id"], [10, 2, 1, "", "object_type"], [10, 1, 1, "", "pprint"], [10, 2, 1, "", "updated_time"]], "gen3.tools.download.drs_download.Manifest": [[10, 2, 1, "", "commons_url"], [10, 1, 1, "", "create_object_list"], [10, 2, 1, "", "file_name"], [10, 2, 1, "", "file_size"], [10, 1, 1, "", "load"], [10, 1, 1, "", "load_manifest"], [10, 2, 1, "", "md5sum"], [10, 2, 1, "", "object_id"]], "gen3.tools.indexing": [[11, 3, 0, "-", "download_manifest"], [11, 3, 0, "-", "index_manifest"], [11, 3, 0, "-", "verify_manifest"]], "gen3.tools.indexing.download_manifest": [[11, 2, 1, "", "CURRENT_DIR"], [11, 2, 1, "", "INDEXD_RECORD_PAGE_SIZE"], [11, 2, 1, "", "MAX_CONCURRENT_REQUESTS"], [11, 2, 1, "", "TMP_FOLDER"], [11, 4, 1, "", "async_download_object_manifest"]], "gen3.tools.indexing.index_manifest": [[11, 2, 1, "", "ACLS"], [11, 2, 1, "", "AUTHZ"], [11, 2, 1, "", "CURRENT_DIR"], [11, 2, 1, "", "GUID"], [11, 2, 1, "", "MD5"], [11, 2, 1, "", "PREV_GUID"], [11, 2, 1, "", "SIZE"], [11, 0, 1, "", "ThreadControl"], [11, 2, 1, "", "URLS"], [11, 4, 1, "", "delete_all_guids"], [11, 4, 1, "", "index_object_manifest"]], "gen3.tools.indexing.verify_manifest": [[11, 2, 1, "", "CURRENT_DIR"], [11, 2, 1, "", "MAX_CONCURRENT_REQUESTS"], [11, 4, 1, "", "async_verify_object_manifest"]], "gen3.tools.metadata": [[12, 3, 0, "-", "ingest_manifest"]], "gen3.tools.metadata.ingest_manifest": [[12, 2, 1, "", "COLUMN_TO_USE_AS_GUID"], [12, 2, 1, "", "GUID_TYPE_FOR_INDEXED_FILE_OBJECT"], [12, 2, 1, "", "GUID_TYPE_FOR_NON_INDEXED_FILE_OBJECT"], [12, 2, 1, "", "MAX_CONCURRENT_REQUESTS"], [12, 4, 1, "", "async_ingest_metadata_manifest"], [12, 4, 1, "", "async_query_urls_from_indexd"]], "gen3.wss": [[13, 0, 1, "", "Gen3WsStorage"]], "gen3.wss.Gen3WsStorage": [[13, 1, 1, "", "copy"], [13, 1, 1, "", "download"], [13, 1, 1, "", "download_url"], [13, 1, 1, "", "ls"], [13, 1, 1, "", "ls_path"], [13, 1, 1, "", "rm"], [13, 1, 1, "", "rm_path"], [13, 1, 1, "", "upload"], [13, 1, 1, "", "upload_url"]]}, "objnames": {"0": ["py", "class", "Python class"], "1": ["py", "method", "Python method"], "2": ["py", "attribute", "Python attribute"], "3": ["py", "module", "Python module"], "4": ["py", "function", "Python function"]}, "objtypes": {"0": "py:class", "1": "py:method", "2": "py:attribute", "3": "py:module", "4": "py:function"}, "terms": {"": [1, 4, 8, 10, 11], "0": [5, 7, 8, 11], "075479": [], "0a80fada010c": 11, "0a80fada096c": 11, "0a80fada097c": 11, "0a80fada098c": 11, "0a80fada099c": 11, "1": [4, 5, 8, 10, 11], "10": [5, 7, 11], "100": [8, 11], "11e9": 11, "1716477475": [], "1716477476": [], "1717704701": [], "1717705700": [11, 12], "2": [5, 11], "24": [11, 12], "255e396f": 11, "3": [5, 11], "30": 8, "33": 5, "333": 5, "343434344": 11, "363455714": 11, "3696425": [], "4": [5, 11], "450c": 11, "4714": 8, "473d83400bc1bc9dc635e334fadd433c": 11, "473d83400bc1bc9dc635e334faddd33c": 11, "473d83400bc1bc9dc635e334fadde33c": 11, "473d83400bc1bc9dc635e334faddf33c": 11, "5": [0, 5], "50": 7, "543434443": 11, "5856323": 11, "696411": [], "6f90": 8, "7d3d8d2083b4": 11, "8274047": [], "8420": 8, "8608656": 12, "93d9af72": 11, "9a07": 11, "A": [1, 3, 4, 5, 6, 7, 8, 10, 11, 13], "AND": 5, "Be": 1, "But": 5, "By": 11, "For": [1, 5, 6, 7, 8, 9, 11], "IF": 11, "If": [0, 1, 7, 11, 12], "In": 10, "It": 10, "NOT": 12, "OR": 5, "One": 7, "Such": 9, "THE": 11, "That": 3, "The": [0, 1, 2, 3, 5, 8, 10, 11], "There": 11, "These": 9, "To": 11, "Will": [4, 7, 10], "_get_acl_from_row": 11, "_get_authz_from_row": 11, "_get_file_name_from_row": 11, "_get_file_size_from_row": 11, "_get_guid_for_row": 12, "_get_guid_from_row": 11, "_get_md5_from_row": 11, "_get_urls_from_row": 11, "_guid_typ": 12, "_manag": [2, 9, 10], "_query_for_associated_indexd_record_guid": 12, "_ssl": [3, 4, 5], "a5c6": 11, "ab167e49d25b488939b1ede42752458b": 3, "about": [2, 3], "abov": 11, "access": [0, 1, 3, 7, 10], "access_method": [2, 9, 10], "access_token": 0, "accesstoken": 0, "acl": [2, 3, 9, 11], "across": 11, "act": 0, "action": [9, 11], "actual": 11, "ad": 3, "add": [3, 5], "addit": [3, 5, 10, 11], "admin": [5, 11], "admin_endpoint_suffix": 5, "after": 10, "against": [3, 7, 8, 11, 12], "algorithm": 3, "alia": [3, 5], "alias": 5, "aliv": 7, "all": [1, 3, 4, 5, 6, 7, 8, 10, 11, 12], "allow": [0, 6, 8, 10, 11, 12], "allowed_data_upload_bucket": 1, "along": 2, "alreadi": 9, "also": 1, "altern": [5, 11], "alwai": 5, "ammount": 12, "amount": [1, 9], "an": [0, 3, 6, 8, 10, 11], "ani": [0, 5, 10, 11], "anoth": 5, "api": [0, 5, 8, 11], "api_kei": 11, "appli": 7, "appropri": 13, "ar": [5, 7, 8, 9, 10, 11], "arbitrari": 0, "argument": [0, 13], "arrai": 8, "asc": 7, "assign": 9, "assist": 10, "associ": [3, 5], "assum": 11, "async": [3, 4, 5, 9, 11, 12], "async_cr": [2, 5], "async_create_alias": [2, 5], "async_create_record": [2, 3], "async_delete_alia": [2, 5], "async_delete_alias": [2, 5], "async_download_object_manifest": [2, 9, 11], "async_get": [2, 5], "async_get_alias": [2, 5], "async_get_record": [2, 3], "async_get_records_from_checksum": [2, 3], "async_get_records_on_pag": [2, 3], "async_get_with_param": [2, 3], "async_ingest_metadata_manifest": [2, 9, 12], "async_query_url": [2, 3], "async_query_urls_from_indexd": [2, 9, 12], "async_run_job_and_wait": [2, 4], "async_upd": [2, 5], "async_update_alias": [2, 5], "async_update_record": [2, 3], "async_verify_object_manifest": [2, 9, 11], "asynchron": [3, 4, 5], "asyncio": [11, 12], "asyncron": 5, "attach": [3, 5], "attempt": 11, "attribut": [10, 11], "auth": [1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "auth_provid": [1, 2, 3, 4, 5, 6, 7, 8, 13], "authbas": 0, "authent": 0, "author": 1, "authz": [0, 1, 2, 3, 9, 10, 11], "auto": [0, 2], "automat": 0, "avail": [1, 2, 10, 11], "az": 1, "b": [5, 11], "b0f1": 11, "bar": 10, "base": [0, 1, 3, 4, 5, 6, 7, 8, 9, 11, 13], "baseid": 3, "basic": [3, 11, 12], "batch_creat": [2, 5], "batch_siz": 8, "behalf": 0, "behavior": 11, "being": 3, "belong": 8, "below": 11, "blank": 3, "blob": [5, 7], "bodi": 3, "bool": [4, 5, 8, 10, 11, 12], "boolean": 3, "bownload": 10, "broad": 9, "broken": 9, "bucket": [1, 6], "bundl": 10, "byte": 10, "c": [5, 11], "cach": 10, "cache_hosts_wts_token": [2, 9, 10], "call": [10, 13], "can": [0, 3, 4, 8, 11, 12], "capabl": 9, "case": [0, 10], "categori": 9, "ccle": 8, "ccle_one_record": 8, "ccle_sample_nod": 8, "cdi": 7, "chang": [3, 11], "checksum": [3, 10], "checksum_typ": 3, "child": 10, "children": [2, 9, 10], "chunk_siz": 8, "class": [0, 2, 10, 11, 13], "cli": 10, "client": [0, 3], "client_credenti": 0, "client_id": 0, "client_scop": 0, "client_secret": 0, "code": [2, 8], "column": [11, 12], "column_to_use_as_guid": [2, 9, 12], "columna": 11, "columnb": 11, "columnc": 11, "com": 7, "comma": 11, "command": [10, 11], "common": [0, 1, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13], "commons_url": [2, 9, 10, 11, 12], "complet": [4, 11], "complex": 7, "concat": 11, "concurr": [11, 12], "configur": 1, "connect": 12, "consist": 3, "constructor": 0, "contain": [0, 2, 5, 8, 9, 10, 11, 12], "content": [3, 13], "content_created_d": 3, "content_updated_d": 3, "continu": 10, "control": 3, "conveni": 10, "copi": [2, 13], "coroutin": 11, "correspond": 3, "count": 3, "crdc": 0, "creat": [2, 3, 4, 5, 6, 8, 10, 11], "create_alias": [2, 5], "create_blank": [2, 3], "create_index_key_path": [2, 5], "create_job": [2, 4], "create_new_vers": [2, 3], "create_object_list": [2, 9, 10], "create_program": [2, 8], "create_project": [2, 8], "create_record": [2, 3], "created_tim": [2, 9, 10], "creation": [3, 11], "cred": 3, "credenti": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 13], "csv": [8, 11, 12], "curl": [0, 2], "current": [6, 8, 10], "current_dir": [2, 9, 11], "custom": 11, "d": 5, "d70b41b9": 8, "data": [0, 1, 3, 5, 7, 8, 10, 11], "data_spreadsheet": 8, "data_typ": 7, "data_upload_bucket": 1, "dataa": 11, "datab": 11, "databas": 5, "datacommon": 0, "datafil": 10, "datamanag": 10, "date": 3, "datetim": [1, 3, 10], "dbgap": 12, "dcf": 8, "def": 11, "default": [0, 1, 3, 7, 8, 11, 12], "defin": [5, 8, 10], "delai": 4, "delet": [0, 1, 2, 3, 5, 6, 8, 10, 11], "delete_alia": [2, 5], "delete_alias": [2, 5], "delete_all_guid": [2, 9, 11], "delete_fil": [1, 2], "delete_file_loc": [1, 2, 6], "delete_index_key_path": [2, 5], "delete_nod": [2, 8], "delete_object": [2, 6], "delete_program": [2, 8], "delete_project": [2, 8], "delete_record": [2, 3, 8], "delete_unpacked_packag": 10, "delimet": [11, 12], "delimit": 11, "demograph": 8, "deprec": 1, "descript": [3, 5], "desir": 11, "dest_path": 13, "dest_urlstr": 13, "dest_w": 13, "dest_wskei": 13, "detail": [2, 7, 10], "determin": [10, 11, 12], "dev": 11, "dict": [3, 4, 5, 10, 11, 12], "dictionari": [3, 4, 5, 7, 8], "did": 3, "differ": 5, "direct": 0, "directori": [10, 11], "disabl": 10, "discoveri": 10, "disk": 13, "dispatch": 4, "dist_resolut": 3, "distribut": 3, "doc": [7, 10], "docstr": 2, "document": [1, 3], "doe": [0, 12], "domain": [11, 12], "done": 4, "download": [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 13], "download_files_in_drs_manifest": [2, 9, 10], "download_list": 10, "download_manifest": 11, "download_singl": [1, 2], "download_url": [2, 13], "downloadmanag": [2, 9, 10], "downloadstatu": [2, 9, 10], "dr": [2, 9], "drs_download": 10, "drs_hostnam": 10, "drsdownload": 10, "drsobjecttyp": 10, "e": [5, 10], "e043ab8b77b9": 8, "each": [3, 8, 10, 11], "effici": 9, "eg": 3, "either": 8, "elasticsearch": 7, "els": [0, 12], "elsewher": 12, "empti": [8, 11], "enabl": 11, "end": [5, 10], "end_tim": [2, 9, 10], "endpoint": [0, 1, 2, 3, 4, 5, 7, 8, 13], "entir": 8, "entri": [3, 11], "env": 0, "environ": 0, "equal": 7, "error": [10, 11, 12], "error_nam": 11, "etc": 8, "even": 11, "everi": [9, 11], "everyth": 11, "ex": [0, 11, 12], "exampl": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 13], "exclud": 3, "execut": [7, 8, 11], "exist": [1, 3, 5, 6, 9, 12], "expect": [5, 9, 11], "experi": 8, "expir": [0, 1], "expires_in": 1, "export": [8, 10], "export_nod": [2, 8], "export_record": [2, 8], "f1f8": 11, "factori": 10, "fail": [8, 10], "fals": [3, 5, 6, 10, 11], "featur": [1, 6], "fenc": [0, 1], "fetch": 0, "field": [3, 5, 7, 11, 12], "fieldnam": 11, "file": [0, 2, 3, 4, 8, 9, 10, 11, 12, 13], "file_nam": [1, 2, 3, 9, 10, 11], "file_s": [2, 9, 10, 11], "file_st": 3, "fileformat": 8, "filenam": [0, 8, 10, 11, 12], "files": 10, "fill": 12, "filter": [5, 7], "filter_object": 7, "first": [7, 8], "flag": 11, "folder": 11, "follow": [0, 11], "forc": 11, "force_metadata_columns_even_if_empti": 11, "form": 13, "format": [3, 5, 8, 11], "from": [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13], "func_to_parse_row": [11, 12], "function": [2, 3, 4, 5, 9, 10, 11, 12], "g": 10, "gen3": [10, 11, 12], "gen3_api_kei": 0, "gen3_oidc_client_creds_secret": 0, "gen3auth": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "gen3fil": [1, 2], "gen3index": [2, 3], "gen3job": [2, 4, 10], "gen3metadata": [2, 5], "gen3object": [2, 6], "gen3queri": [2, 7], "gen3submiss": [2, 8], "gen3wsstorag": [2, 13], "gener": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 13], "get": [0, 1, 2, 3, 4, 5, 8, 10, 11, 12, 13], "get_access_token": [0, 2], "get_access_token_from_wt": [0, 2], "get_alias": [2, 5], "get_all_record": [2, 3], "get_dictionary_al": [2, 8], "get_dictionary_nod": [2, 8], "get_fresh_token": [2, 9, 10], "get_graphql_schema": [2, 8], "get_guid_from_fil": 12, "get_guids_prefix": [2, 3], "get_index_key_path": [2, 5], "get_latest_vers": [2, 3], "get_output": [2, 4], "get_presigned_url": [1, 2], "get_program": [2, 8], "get_project": [2, 8], "get_project_dictionari": [2, 8], "get_project_manifest": [2, 8], "get_record": [2, 3], "get_record_doc": [2, 3], "get_records_on_pag": [2, 3], "get_stat": [2, 3], "get_statu": [2, 4], "get_url": [2, 3], "get_valid_guid": [2, 3], "get_vers": [2, 3, 4, 5], "get_with_param": [2, 3], "giangb": 11, "github": [2, 7], "give": 1, "given": [0, 3, 4, 5, 8, 10, 12, 13], "global": [4, 5], "good": 3, "grant": 0, "graph": 8, "graphql": [7, 8], "graphql_queri": [2, 7], "group": 3, "guid": [1, 2, 3, 5, 6, 9, 11, 12], "guid_exampl": 11, "guid_for_row": 12, "guid_from_fil": 12, "guid_type_for_indexed_file_object": [2, 9, 12], "guid_type_for_non_indexed_file_object": [2, 9, 12], "guppi": 7, "ha": [0, 11], "handl": [3, 10], "hardcod": 0, "has_vers": 3, "hash": [3, 11], "hash_typ": 3, "have": [5, 11], "header": 11, "healthi": [3, 4, 5], "help": 11, "helper": 2, "hit": 11, "host": 10, "hostnam": [2, 9, 10], "how": [8, 11], "howto": 10, "http": [0, 7, 11, 12], "i": [0, 1, 2, 3, 4, 5, 8, 10, 11, 12], "id": [0, 1, 3, 5, 10, 11], "idea": 3, "identifi": [3, 5, 9, 11], "idp": 0, "illustr": 11, "immut": 3, "implement": 0, "implic": 11, "import": 11, "includ": [0, 3], "indent": 10, "index": [0, 2, 5, 9], "index_manifest": 11, "index_object_manifest": [2, 9, 11], "indexd": [1, 3, 6, 10, 11, 12], "indexd_field": [11, 12], "indexd_record_page_s": [2, 9, 11], "indexed_file_object_guid": 12, "indic": [0, 11], "infil": 10, "info": [3, 11], "inform": [2, 3, 10], "ingest": [2, 9], "ingest_manifest": 12, "initi": [0, 10], "input": [4, 10, 11], "input_manifest": 11, "instal": [0, 2, 11], "instanc": [1, 3, 6, 7, 8, 9, 10], "instead": [1, 7, 11], "int": [1, 3, 5, 7, 8, 10, 11, 12], "integ": [1, 3, 8], "intend": 0, "interact": [1, 3, 4, 5, 6, 8, 13], "interest": 10, "interpret": 0, "introspect": 8, "involv": 9, "is_healthi": [2, 3, 4, 5], "is_indexed_file_object": 12, "isn": 1, "issu": 0, "its": [1, 3], "job": 2, "job_id": 4, "job_input": 4, "job_nam": 4, "json": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 13], "just": [5, 11, 12], "jwt": 0, "kei": [0, 3, 5, 13], "know": 11, "known": 10, "kwarg": [3, 4, 5], "l": [2, 13], "larg": 9, "last": 10, "latest": 3, "least": 3, "level": 6, "librari": 11, "like": [3, 5, 9, 11, 12], "limit": [1, 3, 5, 12], "linear": 4, "linux": 10, "list": [0, 1, 3, 4, 5, 7, 8, 10, 11, 13], "list_access_in_drs_manifest": [2, 9, 10], "list_drs_object": [2, 9, 10], "list_files_in_drs_manifest": [2, 9, 10], "list_job": [2, 4], "live": [11, 12], "load": [2, 9, 10], "load_manifest": [2, 9, 10], "local": [0, 13], "locat": [1, 6], "lock": 12, "log": [8, 10, 11, 12], "logic": [5, 12], "loop": 11, "ls_path": [2, 13], "maco": 11, "made": 3, "mai": [0, 9, 11], "main": 10, "make": [9, 11], "manag": [1, 5, 10], "mani": [8, 11], "manifest": [2, 8, 9, 10, 11, 12], "manifest_1": 10, "manifest_fil": [11, 12], "manifest_file_delimit": [11, 12], "manifest_row_pars": [11, 12], "map": [0, 11], "mark": 8, "master": 7, "match": [3, 5, 12], "max": 5, "max_concurrent_request": [2, 9, 11, 12], "max_presigned_url_ttl": 1, "max_tri": 8, "maximum": [11, 12], "md": [5, 7, 10, 12], "md5": [2, 3, 9, 11], "md5_hash": 11, "md5sum": [2, 9, 10], "mean": 8, "mechan": 3, "merg": 5, "metadata": [2, 3, 6, 9, 11], "metadata_list": 5, "metadata_sourc": 12, "metadata_typ": 12, "metdata": 12, "method": [1, 7, 10], "minimum": 10, "minut": 0, "mode": 7, "modul": [2, 10, 11], "more": [2, 5, 7, 9, 10], "most": 9, "mostli": 2, "multipl": [8, 11], "must": [1, 5], "my_common": 10, "my_credenti": 10, "my_field": 7, "my_index": 7, "my_program": 7, "my_project": 7, "name": [3, 4, 8, 10, 11, 12, 13], "namespac": [0, 12], "necessari": [3, 5], "need": [3, 7, 10, 11], "nest": 5, "net": 11, "never": 0, "new": [0, 3], "node": 8, "node_nam": 8, "node_typ": 8, "none": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "note": [0, 3, 11, 12], "noth": [3, 6], "now": [1, 8], "num": 5, "num_process": 11, "num_total_fil": 11, "number": [3, 7, 8, 11, 12], "o": 0, "object": [1, 2, 3, 4, 5, 7, 8, 9, 10, 11, 13], "object_id": [1, 2, 9, 10], "object_list": 10, "object_typ": [2, 9, 10], "objectid": 10, "obtain": [0, 10], "occur": 10, "off": 5, "offset": [5, 7], "oidc": 0, "old": 3, "one": [3, 5, 10, 11], "onli": [3, 5, 7, 8, 10, 11], "open": [8, 10, 11], "open_project": [2, 8], "openid": 0, "opt": 0, "option": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11], "order": [0, 8], "ordered_node_list": 8, "org": 10, "otherwis": 10, "output": [4, 5, 11, 12], "output_dir": 10, "output_filenam": [11, 12], "overrid": [0, 11, 12], "overwrit": 5, "own": 0, "packag": 10, "page": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 13], "pagin": 3, "parallel": 11, "param": [3, 5, 8, 10], "paramet": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "pars": [10, 11, 12, 13], "parser": [11, 12], "particular": 0, "pass": [0, 7, 8, 10], "password": [11, 12], "path": [0, 1, 5, 10, 11, 13], "path_to_manifest": 11, "pattern": [3, 12], "pdcdatastor": 11, "pend": 10, "per": [11, 12], "peregrin": 8, "permiss": 10, "persist": 9, "phs0001": 11, "phs0002": 11, "pick": 1, "pla": 11, "place": 11, "planx": 11, "point": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "popul": [10, 12], "posit": [1, 7], "possibl": 10, "post": [0, 11], "pprint": [2, 9, 10], "prefix": 3, "presign": 1, "pretti": 10, "prev_guid": [2, 9, 11], "previou": [3, 11], "previous": 4, "print": [8, 10], "process": 11, "processed_fil": 11, "profil": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "program": [8, 11], "progress": [8, 10], "project": [8, 11], "project_id": [7, 8], "protocol": 1, "provid": [0, 1, 3, 5, 7, 8, 12], "public": [3, 5], "put": 0, "py": 11, "python": [2, 9, 11], "python3": 11, "python_subprocess_command": 11, "queri": [1, 2, 3, 5, 8, 11, 12], "query_str": 7, "query_txt": [7, 8], "query_url": [2, 3], "quickstart": 2, "rather": 0, "raw": [7, 11], "raw_data_download": [2, 7], "rbac": 3, "read": [3, 5, 11], "readm": 2, "reason": 10, "record": [1, 3, 5, 7, 8, 11, 12], "refresh": [0, 10], "refresh_access_token": [0, 2], "refresh_fil": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "refresh_token": 0, "regist": 8, "regular": 7, "relat": 9, "remov": [1, 6, 11, 13], "replac": 11, "replace_url": 11, "repo": 2, "repres": [3, 5, 10], "represent": [1, 3], "request": [0, 1, 3, 5, 8, 11, 12], "requir": 10, "resolv": 10, "resolve_object": [2, 9, 10], "respect": 7, "respons": [0, 1, 3, 4, 5], "result": [1, 8, 10, 11], "retri": 8, "retriev": [1, 8, 10, 12], "return": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11], "return_full_metadata": 5, "rev": 3, "revers": 8, "revis": 3, "right": 1, "rm": [2, 13], "rm_path": [2, 13], "root": [11, 12], "row": [7, 8, 11, 12], "row_offset": 8, "rtype": 3, "run": [8, 11], "s3": [1, 10, 11], "safe": 11, "same": [5, 11, 13], "sampl": [8, 10], "sandbox": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "save": 10, "save_directori": 10, "schema": 8, "scope": [0, 1], "screen": 8, "script": 2, "search": [0, 2, 3], "second": [1, 4], "secret": 0, "see": [7, 10, 11], "self": 10, "semaphon": 12, "semaphor": 12, "separ": [0, 11], "server": 10, "servic": [1, 3, 4, 5, 6, 8, 11, 12, 13], "service_loc": [3, 4, 5], "session": 11, "set": [0, 1, 5, 10], "setup": 2, "sheepdog": 8, "should": [0, 8, 11], "show": 10, "show_progress": 10, "shown": 11, "sign": 1, "signpost": 3, "similar": 10, "simpl": 3, "simpli": 11, "sinc": 3, "singl": [1, 5, 8], "size": [2, 3, 9, 10, 11], "skip": 8, "sleep": 4, "so": 11, "some": [0, 2], "someth": 11, "sort": 7, "sort_field": 7, "sort_object": 7, "sourc": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "space": [0, 11], "specif": [5, 8, 11, 12], "specifi": [0, 1, 3, 11, 13], "spreadsheet": 8, "src_path": 13, "src_urlstr": 13, "src_w": 13, "src_wskei": 13, "ssl": [3, 4, 5], "start": [3, 4, 7, 8, 10], "start_tim": [2, 9, 10], "static": 10, "statu": [2, 4, 9, 10], "storag": [1, 2, 6], "store": [1, 3, 10], "str": [0, 1, 3, 4, 5, 7, 8, 10, 11, 12], "string": [0, 3, 5, 11, 13], "strip": 11, "sub": 8, "subject": [7, 8], "submiss": 2, "submit": [8, 11], "submit_additional_metadata_column": 11, "submit_fil": [2, 8], "submit_record": [2, 8], "submitter_id": 7, "success": 10, "successfulli": 10, "suffici": 3, "suppli": 3, "support": [0, 1, 5, 8, 11], "sure": 1, "synchron": 11, "syntax": 7, "system": [6, 7, 8, 9], "t": [1, 5, 11], "tab": 11, "task": 9, "temporari": 11, "test": 11, "test1": 11, "test2": 11, "test3": 11, "test4": 11, "test5": 11, "text": [1, 7, 8], "than": [0, 5], "thei": [0, 10], "them": [10, 11], "thi": [0, 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "those": 11, "thread": 11, "thread_num": 11, "threadcontrol": [2, 9, 11], "through": [8, 11], "tier": 7, "time": [1, 3, 8, 10, 11], "timestamp": 10, "tmp_folder": [2, 9, 11], "token": [0, 10], "tool": 2, "total": 11, "treat": [1, 5], "tree": 10, "true": [3, 4, 5, 6, 7, 8, 10, 11, 12], "try": 0, "tsv": [8, 11, 12], "tupl": [0, 3, 11, 12], "type": [1, 3, 4, 5, 7, 8, 10, 11, 12], "typic": 10, "uc": 7, "unaccess": 7, "under": [0, 8, 13], "uniqu": [1, 5], "unknown": 10, "unpack": 10, "unpack_packag": 10, "until": [4, 10], "up": [5, 9], "updat": [2, 3, 5, 10, 11], "update_alias": [2, 5], "update_blank": [2, 3], "update_record": [2, 3], "updated_tim": [2, 9, 10], "upload": [1, 2, 3, 8, 13], "upload_fil": [1, 2], "upload_file_to_guid": [1, 2], "upload_url": [2, 13], "url": [1, 2, 3, 9, 10, 11, 12, 13], "urls_metadata": 3, "us": [0, 1, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13], "usag": 11, "use_agg_md": 5, "user": [0, 10, 12], "user_access": [2, 9, 10], "usual": 12, "utcnow": 1, "util": 9, "uuid": [1, 3, 8], "uuid1": 8, "uuid2": 8, "valid": [3, 7], "valu": [0, 1, 3, 5, 7, 10, 11], "value_from_indexd": 11, "value_from_manifest": 11, "variabl": [0, 7, 8], "variou": 2, "verbos": [7, 8], "verif": 11, "verifi": [2, 9], "verify_manifest": 11, "verify_object_manifest": 11, "version": [3, 4, 5], "vital_statu": 7, "w": 13, "wa": 0, "wai": 10, "wait": 4, "want": [0, 3, 8], "warn": 11, "we": [3, 11], "web": 0, "what": 5, "when": [0, 3, 7, 10, 12], "where": [0, 3, 5, 11, 12], "whether": [3, 4, 5, 8, 11, 12], "which": [8, 10], "while": [0, 1, 3, 4, 5, 6, 7, 8, 10, 13], "whose": 5, "within": [0, 2, 9], "without": [3, 5], "won": 5, "work": [0, 10], "workaround": 11, "worksheet": 8, "workspac": [0, 2], "wrapper": 10, "write": 11, "ws_urlstr": 13, "wskei": 13, "wss": 13, "wt": [0, 10], "x": 11, "xlsx": 8, "you": [0, 3, 8, 11], "your": 0}, "titles": ["Gen3 Auth Helper", "Gen3 File Class", "Welcome to Gen3 SDK\u2019s documentation!", "Gen3 Index Class", "Gen3 Jobs Class", "Gen3 Metadata Class", "Gen3 Object Class", "Gen3 Query Class", "Gen3 Submission Class", "Gen3 Tools", "DRS Download Tools", "Indexing Tools", "Metadata Tools", "Gen3 Workspace Storage"], "titleterms": {"": 2, "auth": 0, "class": [1, 3, 4, 5, 6, 7, 8], "document": 2, "download": [10, 11], "dr": 10, "file": 1, "gen3": [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 13], "helper": 0, "index": [3, 11], "indic": 2, "ingest": 12, "job": 4, "metadata": [5, 12], "object": 6, "queri": 7, "sdk": 2, "storag": 13, "submiss": 8, "tabl": 2, "tool": [9, 10, 11, 12], "verifi": 11, "welcom": 2, "workspac": 13}})
\ No newline at end of file
diff --git a/docs/_build/html/tools/indexing.html b/docs/_build/html/tools/indexing.html
index c98b4c18..eb7d4155 100644
--- a/docs/_build/html/tools/indexing.html
+++ b/docs/_build/html/tools/indexing.html
@@ -381,7 +381,7 @@ <h1>Indexing Tools<a class="headerlink" href="#indexing-tools" title="Link to th
 
 <dl class="py function">
 <dt class="sig sig-object py" id="gen3.tools.indexing.verify_manifest.async_verify_object_manifest">
-<em class="property"><span class="k"><span class="pre">async</span></span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gen3.tools.indexing.verify_manifest.</span></span><span class="sig-name descname"><span class="pre">async_verify_object_manifest</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">commons_url</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_file</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">max_concurrent_requests=24</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_row_parsers={'acl':</span> <span class="pre">&lt;function</span> <span class="pre">_get_acl_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'authz':</span> <span class="pre">&lt;function</span> <span class="pre">_get_authz_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'file_name':</span> <span class="pre">&lt;function</span> <span class="pre">_get_file_name_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'file_size':</span> <span class="pre">&lt;function</span> <span class="pre">_get_file_size_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'guid':</span> <span class="pre">&lt;function</span> <span class="pre">_get_guid_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'md5':</span> <span class="pre">&lt;function</span> <span class="pre">_get_md5_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'urls':</span> <span class="pre">&lt;function</span> <span class="pre">_get_urls_from_row&gt;}</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_file_delimiter=None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">output_filename='verify-manifest-errors-1717704701.3696425.log'</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gen3/tools/indexing/verify_manifest.html#async_verify_object_manifest"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gen3.tools.indexing.verify_manifest.async_verify_object_manifest" title="Link to this definition">¶</a></dt>
+<em class="property"><span class="k"><span class="pre">async</span></span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gen3.tools.indexing.verify_manifest.</span></span><span class="sig-name descname"><span class="pre">async_verify_object_manifest</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">commons_url</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_file</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">max_concurrent_requests=24</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_row_parsers={'acl':</span> <span class="pre">&lt;function</span> <span class="pre">_get_acl_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'authz':</span> <span class="pre">&lt;function</span> <span class="pre">_get_authz_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'file_name':</span> <span class="pre">&lt;function</span> <span class="pre">_get_file_name_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'file_size':</span> <span class="pre">&lt;function</span> <span class="pre">_get_file_size_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'guid':</span> <span class="pre">&lt;function</span> <span class="pre">_get_guid_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'md5':</span> <span class="pre">&lt;function</span> <span class="pre">_get_md5_from_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'urls':</span> <span class="pre">&lt;function</span> <span class="pre">_get_urls_from_row&gt;}</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_file_delimiter=None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">output_filename='verify-manifest-errors-1717705700.5856323.log'</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gen3/tools/indexing/verify_manifest.html#async_verify_object_manifest"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gen3.tools.indexing.verify_manifest.async_verify_object_manifest" title="Link to this definition">¶</a></dt>
 <dd><p>Verify all file object records into a manifest csv</p>
 <dl class="field-list simple">
 <dt class="field-odd">Parameters<span class="colon">:</span></dt>
diff --git a/docs/_build/html/tools/metadata.html b/docs/_build/html/tools/metadata.html
index 0e55e620..2f6cfc14 100644
--- a/docs/_build/html/tools/metadata.html
+++ b/docs/_build/html/tools/metadata.html
@@ -102,7 +102,7 @@ <h1>Metadata Tools<a class="headerlink" href="#metadata-tools" title="Link to th
 
 <dl class="py function">
 <dt class="sig sig-object py" id="gen3.tools.metadata.ingest_manifest.async_ingest_metadata_manifest">
-<em class="property"><span class="k"><span class="pre">async</span></span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gen3.tools.metadata.ingest_manifest.</span></span><span class="sig-name descname"><span class="pre">async_ingest_metadata_manifest</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">commons_url</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_file</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">metadata_source</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">auth=None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">max_concurrent_requests=24</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_row_parsers={'guid_for_row':</span> <span class="pre">&lt;function</span> <span class="pre">_get_guid_for_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'indexed_file_object_guid':</span> <span class="pre">&lt;function</span> <span class="pre">_query_for_associated_indexd_record_guid&gt;}</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_file_delimiter=None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">output_filename='ingest-metadata-manifest-errors-1717704701.696411.log'</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">get_guid_from_file=True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">metadata_type=None</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gen3/tools/metadata/ingest_manifest.html#async_ingest_metadata_manifest"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gen3.tools.metadata.ingest_manifest.async_ingest_metadata_manifest" title="Link to this definition">¶</a></dt>
+<em class="property"><span class="k"><span class="pre">async</span></span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gen3.tools.metadata.ingest_manifest.</span></span><span class="sig-name descname"><span class="pre">async_ingest_metadata_manifest</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">commons_url</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_file</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">metadata_source</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">auth=None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">max_concurrent_requests=24</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_row_parsers={'guid_for_row':</span> <span class="pre">&lt;function</span> <span class="pre">_get_guid_for_row&gt;</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">'indexed_file_object_guid':</span> <span class="pre">&lt;function</span> <span class="pre">_query_for_associated_indexd_record_guid&gt;}</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">manifest_file_delimiter=None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">output_filename='ingest-metadata-manifest-errors-1717705700.8608656.log'</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">get_guid_from_file=True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">metadata_type=None</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gen3/tools/metadata/ingest_manifest.html#async_ingest_metadata_manifest"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gen3.tools.metadata.ingest_manifest.async_ingest_metadata_manifest" title="Link to this definition">¶</a></dt>
 <dd><p>Ingest all metadata records into a manifest csv</p>
 <dl class="field-list simple">
 <dt class="field-odd">Parameters<span class="colon">:</span></dt>