add R4.2.2 to some apps

Author: Lennart Opitz

master/lib/DESeq2App.rb

@@ -57,7 +57,7 @@ def initialize
     @params['specialOptions'] = ''
     @params['expressionName'] = ''
     @params['mail'] = ""
-    @params['Rversion'] = ["Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.1.0", "Dev/R/4.0.4", "Dev/R/4.0.3", "Dev/R/4.0.1"]
+    @params['Rversion'] = ["Dev/R/4.2.2", "Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.1.0", "Dev/R/4.0.4", "Dev/R/4.0.3", "Dev/R/4.0.1"]
     @modules = ["Tools/samtools"]
   end
   def preprocess

master/lib/EdgeRApp.rb

@@ -69,7 +69,7 @@ def initialize
     @params['specialOptions'] = ''
     @params['expressionName'] = ''
     @params['mail'] = ""
-    @params['Rversion'] = ["Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.1.0", "Dev/R/4.0.4", "Dev/R/4.0.3", "Dev/R/4.0.1"]
+    @params['Rversion'] = ["Dev/R/4.2.2", "Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.1.0", "Dev/R/4.0.4", "Dev/R/4.0.3", "Dev/R/4.0.1"]
   end
    def preprocess
     @random_string = (1..12).map{[*('a'..'z')].sample}.join

master/lib/LimmaApp.rb

@@ -47,7 +47,7 @@ def initialize
     @params['specialOptions'] = ''
     @params['expressionName'] = ''
     @params['mail'] = ""
-    @params['Rversion'] = ["Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.0.4", "Dev/R/4.0.3", "Dev/R/4.0.1"]
+    @params['Rversion'] = ["Dev/R/4.2.2", "Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.0.4", "Dev/R/4.0.3", "Dev/R/4.0.1"]
   end
    def preprocess
     @random_string = (1..12).map{[*('a'..'z')].sample}.join

master/lib/SeuratCompareApp.rb

@@ -33,7 +33,7 @@ def initialize
     @params['refGroup'] = '' ## Note: this will be a selector defined by Factor tagged column
     @params['refGroup', 'description'] = 'refGroup should be different from sampleGroup'
     @params['mail'] = ""
-    @params['Rversion'] = ["Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.1.0"]
+    @params['Rversion'] = ["Dev/R/4.2.2", "Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.1.0"]
   end
    def preprocess
     @random_string = (1..12).map{[*('a'..'z')].sample}.join

master/lib/SpatialSeuratApp.rb

@@ -50,7 +50,7 @@ def initialize
     @params['nUMIs', 'description'] = 'A gene will be kept if it has at least nUMIs in the fraction of cells specified before'
     @params['specialOptions'] = ''
     @params['mail'] = ""
-    @params['Rversion'] = ["Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.1.0", "Dev/R/4.0.4", "Dev/R/4.0.3"]
+    @params['Rversion'] = ["Dev/R/4.2.2", "Dev/R/4.2.0", "Dev/R/4.1.2", "Dev/R/4.1.0", "Dev/R/4.0.4", "Dev/R/4.0.3"]
   end
   def preprocess
     @random_string = (1..12).map{[*('a'..'z')].sample}.join