Package: AnVILGCP 1.1.1

Marcel Ramos

AnVILGCP: The GCP R Client for the AnVIL

The package provides a set of functions to interact with the Google Cloud Platform (GCP) services on the AnVIL platform. The package is designed to work with the AnVIL package. User-level interaction with this package should be minimal.

Authors:Marcel Ramos [aut, cre], Nitesh Turaga [aut], Martin Morgan [aut]

AnVILGCP_1.1.1.tar.gz
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AnVILGCP.pdf |AnVILGCP.html✨
AnVILGCP/json (API)
NEWS

# Install 'AnVILGCP' in R:
install.packages('AnVILGCP', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/bioconductor/anvilgcp/issues

On BioConductor:AnVILGCP-1.1.0(bioc 3.21)AnVILGCP-1.0.0(bioc 3.20)

softwareinfrastructurethirdpartyclientdataimport

5.86 score 3 packages 37 scripts 94 downloads 67 exports 32 dependencies

Last updated 22 days agofrom:4a021162bb. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 31 2024
R-4.5-winOKOct 31 2024
R-4.5-linuxOKOct 31 2024
R-4.4-winOKOct 31 2024
R-4.4-macOKOct 31 2024
R-4.3-winOKOct 31 2024
R-4.3-macOKOct 31 2024

Exports:avbackupavcopyavdataavdata_importavdisksavfiles_backupavfiles_lsavfiles_restoreavfiles_rmavlistavnotebooksavnotebooks_delocalizeavnotebooks_localizeavremoveavrestoreavruntimeavruntimesavstorageavtableavtable_deleteavtable_delete_valuesavtable_importavtable_import_setavtable_import_statusavtable_pagedavtablesavworkflowavworkflow_configuration_getavworkflow_configuration_inputsavworkflow_configuration_outputsavworkflow_configuration_setavworkflow_configuration_templateavworkflow_configuration_updateavworkflow_filesavworkflow_infoavworkflow_jobsavworkflow_localizeavworkflow_nameavworkflow_namespaceavworkflow_runavworkflow_stopavworkflowsavworkspaceavworkspace_cloneavworkspace_nameavworkspace_namespaceavworkspacesdelocalizedrs_hubgcloud_access_tokengcloud_accountgcloud_cmdgcloud_existsgcloud_helpgcloud_projectgcloud_storagegcloud_storage_bucketsgcpgsutil_catgsutil_existsgsutil_helpgsutil_pipegsutil_requesterpaysgsutil_rsyncgsutil_stathas_avworkspacelocalize

Dependencies:AnVILBaseaskpassBiocBaseUtilsclicpp11curldplyrfansigenericsgluehttrhttr2jsonlitelifecyclemagrittrmimeopensslpillarpkgconfigpurrrR6rappdirsrlangstringistringrsystibbletidyrtidyselectutf8vctrswithr

Working with AnVIL on GCP

Nitesh Turaga, Vincent Carey, BJ Stubbs, Marcel Ramos, Martin Morgan

Rendered fromAnVILGCPIntroduction.Rmdusingknitr::rmarkdownon Oct 31 2024.

Last update: 2024-10-22
Started: 2024-03-28

Readme and manuals

Help Manual

Help pageTopics
Miscellaneous functions for interacting with AnVIL tables and filesav avdisks avfiles_backup avfiles_ls avfiles_restore avfiles_rm avruntime avruntimes avtable_import_status avtable_paged
Import data into the current workspaceavdata avdata_import
Notebook managementavnotebooks avnotebooks,gcp-method avnotebooks-methods avnotebooks_delocalize avnotebooks_delocalize,gcp-method avnotebooks_localize avnotebooks_localize,gcp-method
Methods that work with the primary datasets in the DATA tabavtable avtable,gcp-method avtable-methods avtables avtables,gcp-method avtable_delete,gcp-method avtable_delete_values avtable_delete_values,gcp-method avtable_import avtable_import,gcp-method avtable_import_set avtable_import_set,gcp-method
Workflow configurationavworkflow avworkflow_configurations avworkflow_configuration_get avworkflow_configuration_inputs avworkflow_configuration_outputs avworkflow_configuration_set avworkflow_configuration_template avworkflow_configuration_update avworkflow_name avworkflow_namespace print.avworkflow_configuration
AnVIL workflow methodsavworkflow-methods avworkflow_jobs,gcp-method
Workflow submissions and file outputsavworkflows avworkflow_files avworkflow_info avworkflow_localize avworkflow_run avworkflow_stop
AnVIL Workspace GCP methodsavworkspace,gcp-method avworkspace-methods avworkspaces,gcp-method avworkspace_clone,gcp-method avworkspace_name,gcp-method avworkspace_namespace,gcp-method
DRS (Data Repository Service) URL managementdrs drs_hub
gcloud command line utility interfacegcloud gcloud_account gcloud_cmd gcloud_exists gcloud_help gcloud_project gcloud_storage gcloud_storage_buckets
Obtain an access token for a service accountgcloud_access_token
GCP platform class.gcp gcp gcp-class
Methods compatible with the GCP platform classavbackup avbackup,gcp-method avcopy avcopy,gcp-method avlist avlist,gcp-method avremove avremove,gcp-method avrestore avrestore,gcp-method avstorage avstorage,gcp-method gcp-methods
gsutil command line utility interfacegsutil gsutil_cat gsutil_exists gsutil_help gsutil_pipe gsutil_requesterpays gsutil_rsync gsutil_stat
Helper to check AnVIL environment is set up to work with GCPhas_avworkspace,gcp-method has_avworkspace-methods
Copy packages, folders, or files to or from google buckets.delocalize localize