Keep the line that makes se return the path to the readClass file when rcOutDir is specified

SuiYue-2308 · SuiYue-2308 · commit 8f6e9c569eb1 · 2025-02-27T14:06:15.000+08:00
diff --git a/R/bambu-processReads.R b/R/bambu-processReads.R
@@ -110,6 +110,7 @@ bambu.processReads <- function(reads, annotations, genomeSequence,
                 readClass.outputDir, ask = FALSE),
                 paste0(readClassFile,"_readClassSe"), ext = ".rds")
             saveRDS(readClassList[[i]], file = readClassFile)
+            readClassList[[i]] <- readClassFile
         }
     }
     #TODO don't output list, current there because discovery needs it

Original file line number	Diff line number	Diff line change
`@@ -110,6 +110,7 @@ bambu.processReads <- function(reads, annotations, genomeSequence,`
`110`	`110`	`readClass.outputDir, ask = FALSE),`
`111`	`111`	`paste0(readClassFile,"_readClassSe"), ext = ".rds")`
`112`	`112`	`saveRDS(readClassList[[i]], file = readClassFile)`
	`113`	`+ readClassList[[i]] <- readClassFile`
`113`	`114`	`}`
`114`	`115`	`}`
`115`	`116`	`#TODO don't output list, current there because discovery needs it`