set proper flag for parallel

Juke34 · Juke34 · commit 9fed239cb286 · 2026-02-24T10:35:52.000+01:00
diff --git a/modules/agat.nf b/modules/agat.nf
@@ -12,6 +12,6 @@ process normalize_gxf {
     script:
         base_name = RainUtils.cleanPrefix(gxf)
         """
-        agat_convert_sp_gxf2gxf.pl --gxf ${gxf} -o ${base_name}_normalized.gff3 -t ${task.cpus} --no-progess_bar --tabix
+        agat_convert_sp_gxf2gxf.pl --gxf ${gxf} -o ${base_name}_normalized.gff3 --cpu ${task.cpus} --no-progess_bar --tabix
         """
 }

Original file line number	Diff line number	Diff line change
`@@ -12,6 +12,6 @@ process normalize_gxf {`
`12`	`12`	`script:`
`13`	`13`	`base_name = RainUtils.cleanPrefix(gxf)`
`14`	`14`	`"""`
`15`		`- agat_convert_sp_gxf2gxf.pl --gxf ${gxf} -o ${base_name}_normalized.gff3 -t ${task.cpus} --no-progess_bar --tabix`
	`15`	`+ agat_convert_sp_gxf2gxf.pl --gxf ${gxf} -o ${base_name}_normalized.gff3 --cpu ${task.cpus} --no-progess_bar --tabix`
`16`	`16`	`"""`
`17`	`17`	`}`