Bugfix to ApplyKnownClonotypicData

bbimber · bbimber · commit d9dedddb2a8a · 2025-08-05T16:50:27.000-07:00
diff --git a/singlecell/resources/chunks/ApplyKnownClonotypicData.R b/singlecell/resources/chunks/ApplyKnownClonotypicData.R
@@ -4,7 +4,7 @@ if (!file.exists(netRc)) {
     stop(paste0('Unable to find file: ', netRc))
 }
 
-invisible(Rlabkey::labkey.setCurlOptions(NETRC_FILE = netRc, 'connect-timeout' = 60))
+invisible(Rlabkey::labkey.setCurlOptions(NETRC_FILE = netRc))
 Rdiscvr::SetLabKeyDefaults(baseUrl = serverBaseUrl, defaultFolder = defaultLabKeyFolder)
 
 for (datasetId in names(seuratObjects)) {

Original file line number	Diff line number	Diff line change
`@@ -4,7 +4,7 @@ if (!file.exists(netRc)) {`
`4`	`4`	`stop(paste0('Unable to find file: ', netRc))`
`5`	`5`	`}`
`6`	`6`
`7`		`-invisible(Rlabkey::labkey.setCurlOptions(NETRC_FILE = netRc, 'connect-timeout' = 60))`
	`7`	`+invisible(Rlabkey::labkey.setCurlOptions(NETRC_FILE = netRc))`
`8`	`8`	`Rdiscvr::SetLabKeyDefaults(baseUrl = serverBaseUrl, defaultFolder = defaultLabKeyFolder)`
`9`	`9`
`10`	`10`	`for (datasetId in names(seuratObjects)) {`