dico for primers

config.json

 {
 	"THREADS": 8,
-	"MEM": 10,
 	"SAMPLES": ["4A", "5A", "6A", "7A", "8A", "9A", "10A", "11A", "12A"],
-	"FIVE_PRIMER": "GTGYCAGCMGCCGCGGTA",
-	"THREE_PRIMER": "ACTYAAAKGAATTGRCGGGG",
+	"FIVE_PRIMER": {"4A": "GTGYCAGCMGCCGCGGTA", "5A": "GTGYCAGCMGCCGCGGTA","6A": "GTGYCAGCMGCCGCGGTA","7A": "GTGYCAGCMGCCGCGGTA","8A": "GTGYCAGCMGCCGCGGTA","9A": "GTGYCAGCMGCCGCGGTA","10A": "GTGYCAGCMGCCGCGGTA","11A": "GTGYCAGCMGCCGCGGTA","12A": "GTGYCAGCMGCCGCGGTA"},
+	"THREE_PRIMER": {"4A": "ACTYAAAKGAATTGRCGGGG", "5A": "ACTYAAAKGAATTGRCGGGG","6A": "ACTYAAAKGAATTGRCGGGG","7A": "ACTYAAAKGAATTGRCGGGG","8A": "ACTYAAAKGAATTGRCGGGG","9A": "ACTYAAAKGAATTGRCGGGG","10A": "ACTYAAAKGAATTGRCGGGG","11A": "ACTYAAAKGAATTGRCGGGG","12A": "ACTYAAAKGAATTGRCGGGG"},
 	"DATABASE": "/db/frogs_databanks/assignation/16S/silva_132_16S_pintail100/silva_132_16S_pintail100.fasta"
 }

preprocess.smk

@@ -4,8 +4,8 @@ rule cutadapt:
     output:
         "work/cutadapt/{sample}.fastq.gz" 
     params:
-    	five = config["FIVE_PRIMER"],
-    	three = config["THREE_PRIMER"]
+    	five = lambda wildcards: config["FIVE_PRIMER"][wildcards.sample],
+    	three = lambda wildcards: config["THREE_PRIMER"][wildcards.sample]
     shell:
         "cutadapt "
         "-g {params.five} "