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Commit 3babebed authored by Ruben Vorderman's avatar Ruben Vorderman
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require memory and threads

parent 6c4ba5f0
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2 merge requests!9Changes for virus assembly pipeline,!10Extra tasks required for assembly.
...@@ -22,8 +22,8 @@ task spades { ...@@ -22,8 +22,8 @@ task spades {
Boolean? disableGzipOutput Boolean? disableGzipOutput
Boolean? disableRepeatResolution Boolean? disableRepeatResolution
File? dataset File? dataset
Int? threads = 1 Int threads
Int? memoryGb = 4 Int memoryGb
File? tmpDir File? tmpDir
String? k String? k
Float? covCutoff Float? covCutoff
...@@ -73,7 +73,7 @@ task spades { ...@@ -73,7 +73,7 @@ task spades {
File log = outputDir + "/spades.log" File log = outputDir + "/spades.log"
} }
runtime { runtime {
cpu: select_first([threads]) cpu: threads
memory: select_first([memoryGb]) memory: memoryGb
} }
} }
\ No newline at end of file
...@@ -4,13 +4,13 @@ task unicycler { ...@@ -4,13 +4,13 @@ task unicycler {
File short2 File short2
File? unpaired File? unpaired
File? long File? long
String out String out,
Int? verbosity Int? verbosity
Int? minFastaLength Int? minFastaLength
Int? keep Int? keep
Boolean? vcf Boolean? vcf
Int? threads = 1 Int threads
Int? memory = 4 Int memory
String? mode String? mode
Float? minBridgeQual Float? minBridgeQual
Int? linearSeqs Int? linearSeqs
...@@ -90,7 +90,7 @@ task unicycler { ...@@ -90,7 +90,7 @@ task unicycler {
} }
runtime { runtime {
cpu: select_first([threads]) cpu: threads
memory: select_first([memory]) memory: memory
} }
} }
\ No newline at end of file
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