fix problem that when speficying readClass.outputDir se returns to the path, not the read class

SuiYue-2308 · SuiYue-2308 · commit 1fccbe126b5c · 2025-02-27T10:56:07.000+08:00
diff --git a/R/bambu-processReads.R b/R/bambu-processReads.R
@@ -110,7 +110,6 @@ 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
`@@ -110,7 +110,6 @@ 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`
`114`	`113`	`}`
`115`	`114`	`}`
`116`	`115`	`#TODO don't output list, current there because discovery needs it`