Updated outdir and workDir with placeholder variables

Author: aolveraNIH

GoogleCloud/denovotranscript/conf/test_params.config

@@ -1,6 +1,7 @@
 params { 
     input = 'test_samplesheet.csv'
-    outdir = 'test_results'
+    outdir = 'gs://<YOUR-BUCKET-NAME>/outdir_transcriptome/'
+    workDir = 'gs://<YOUR-BUCKET-NAME>/work_transcriptome/'
     // max_memory = '6.GB'
     // max_cpus = 2
     // max_time = '6.h'

GoogleCloud/denovotranscript/nextflow.config

@@ -47,7 +47,7 @@ params {
 
     // BUSCO options
     busco_mode                 = 'transcriptome'
-    busco_lineage              = 'auto'
+    busco_lineage              = 'vertebrata_odb10' //'auto'
     busco_lineages_path        = null
     busco_config               = null
 
@@ -103,6 +103,14 @@ params {
 includeConfig 'conf/base.config'
 
 profiles {
+    gbatch { 
+	    process.executor = 'google-batch'
+	    google.location = 'us-central1'
+	    google.region = 'us-central1'
+	    google.project = '<YOUR-PROJECT-ID>'
+	    process.machineType = 'n2-highmem-48'
+    }
+
     debug {
         dumpHashes              = true
         process.beforeScript    = 'echo $HOSTNAME'