updated configs for ganges dataset (issue #60)

config/ganges/config.yaml

@@ -2,7 +2,7 @@
 # STEPS
 
 # Pipeline steps to be done: ["preprocessing", "assembly", "mapping", "annotation", "analysis", "taxonomy"]
-steps: ["preprocessing"]
+steps: ["assembly"]
 
 ############################################################
 # INPUT

config/ganges/slurm.yaml

@@ -70,7 +70,7 @@ assembly_hy_operams:
 
 # Mapping
 bwa_index_assembly:
-    time: "00-10:00:00"
+    time: "00-02:00:00"
     partition: "batch"
     qos: "qos-batch"
     nodes: 1
@@ -78,32 +78,32 @@ bwa_index_assembly:
     explicit: ""
 
 bwa_mem_assembly_sr:
-    time: "00-10:00:00"
-    partition: "batch"
-    qos: "qos-batch"
+    time: "00-4:00:00"
+    partition: "bigmem"
+    qos: "qos-bigmem"
     nodes: 1
     n: 1
     explicit: ""
 
 bwa_mem_assembly_lr:
-    time: "00-10:00:00"
-    partition: "batch"
-    qos: "qos-batch"
+    time: "00-4:00:00"
+    partition: "bigmem"
+    qos: "qos-bigmem"
     nodes: 1
     n: 1
     explicit: ""
 
 bwa_mem_assembly_hy:
-    time: "00-10:00:00"
-    partition: "batch"
-    qos: "qos-batch"
+    time: "00-4:00:00"
+    partition: "bigmem"
+    qos: "qos-bigmem"
     nodes: 1
     n: 1
     explicit: ""
 
 # Assembly polishing
 bwa_index_assembly_polishing:
-    time: "00-10:00:00"
+    time: "00-02:00:00"
     partition: "batch"
     qos: "qos-batch"
     nodes: 1
@@ -111,15 +111,15 @@ bwa_index_assembly_polishing:
     explicit: ""
 
 bwa_mem_assembly_polishing:
-    time: "00-10:00:00"
-    partition: "batch"
-    qos: "qos-batch"
+    time: "00-8:00:00"
+    partition: "bigmem"
+    qos: "qos-bigmem"
     nodes: 1
     n: 1
     explicit: ""
 
 polishing_lr_racon:
-    time: "00-10:00:00"
+    time: "00-04:00:00"
     partition: "bigmem"
     qos: "qos-bigmem"
     nodes: 1