Reinstate symlink.

picard.wdl

@@ -334,7 +334,7 @@ task CreateSequenceDictionary {
     }
 
     output {
-        File outputDict = outputDir + "/" + basename(InputFile) + ".dict"
+        File outputDict = outputDir + "/" + basename(inputFile) + ".dict"
     }
 
     runtime {

samtools.wdl

@@ -70,7 +70,7 @@ task Faidx {
     command {
         set -e
         mkdir -p "~{outputDir}"
-        ln ~{inputFile} "~{outputDir}/~{basenameInputFile}"
+        ln -s ~{inputFile} "~{outputDir}/~{basenameInputFile}"
         samtools faidx \
         "~{outputDir}/~{basenameInputFile}"
     }