############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data cBioPortalData ### ############################################################################## ############################################################################## * checking for file ‘cBioPortalData/DESCRIPTION’ ... OK * preparing ‘cBioPortalData’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘cBioPortalData.Rmd’ using rmarkdown Quitting from cBioPortalData.Rmd:132-138 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `.invoke_fun()`: ! Service Unavailable (HTTP 503). --- Backtrace: ▆ 1. └─cBioPortalData::cBioPortalData(...) 2. └─cBioPortalData:::.portalExperiments(...) 3. └─cBioPortalData::getDataByGenes(...) 4. └─cBioPortalData::queryGeneTable(api, by, genes, genePanelId) 5. └─cBioPortalData::getGenePanel(api, genePanelId = genePanelId) 6. └─cBioPortalData:::.invoke_fun(api, "getGenePanelUsingGET", genePanelId = genePanelId) 7. └─httr::stop_for_status(res) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'cBioPortalData.Rmd' failed with diagnostics: Service Unavailable (HTTP 503). --- failed re-building ‘cBioPortalData.Rmd’ --- re-building ‘cBioPortalDataErrors.Rmd’ using rmarkdown --- finished re-building ‘cBioPortalDataErrors.Rmd’ --- re-building ‘cBioPortalRClient.Rmd’ using rmarkdown 503 Service Temporarily Unavailable

503 Service Temporarily Unavailable

nginx Quitting from cBioPortalRClient.Rmd:73-75 [unnamed-chunk-2] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: ! '.service_get_api_file' failed: Service Unavailable (HTTP 503). --- Backtrace: ▆ 1. └─cBioPortalData::cBioPortal() 2. ├─base::withCallingHandlers(...) 3. └─AnVIL::Service(...) 4. └─AnVIL:::.service_get_api_file(api_reference_url, api_reference_headers) 5. └─AnVILBase::avstop_for_status(response, ".service_get_api_file") ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'cBioPortalRClient.Rmd' failed with diagnostics: '.service_get_api_file' failed: Service Unavailable (HTTP 503). --- failed re-building ‘cBioPortalRClient.Rmd’ --- re-building ‘cgdsrMigration.Rmd’ using rmarkdown 503 Service Temporarily Unavailable

503 Service Temporarily Unavailable

nginx Quitting from cgdsrMigration.Rmd:41-48 [unnamed-chunk-2] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: ! '.service_get_api_file' failed: Service Unavailable (HTTP 503). --- Backtrace: ▆ 1. └─cBioPortalData::cBioPortal(...) 2. ├─base::withCallingHandlers(...) 3. └─AnVIL::Service(...) 4. └─AnVIL:::.service_get_api_file(api_reference_url, api_reference_headers) 5. └─AnVILBase::avstop_for_status(response, ".service_get_api_file") ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'cgdsrMigration.Rmd' failed with diagnostics: '.service_get_api_file' failed: Service Unavailable (HTTP 503). --- failed re-building ‘cgdsrMigration.Rmd’ SUMMARY: processing the following files failed: ‘cBioPortalData.Rmd’ ‘cBioPortalRClient.Rmd’ ‘cgdsrMigration.Rmd’ Error: Vignette re-building failed. Execution halted