diff --git a/gatk.wdl b/gatk.wdl index 4029ae02006180c8cc28576fab6cb10d00b1c499..cd0ed187c7ea92a60d7ca55efeb5c61c85014937 100644 --- a/gatk.wdl +++ b/gatk.wdl @@ -1393,8 +1393,8 @@ task SelectVariants { category: "required"} referenceFastaFai: {description: "The index for the reference fasta file.", category: "required"} selectTypeToInclude: {description: "Select only a certain type of variants from the input file", category: "common"} - outputPath: {description: "The location the output VCF file should be written.", category: "required"} - intervals: {description: "Bed files or interval lists describing the regions to operate on.", category: "advanced"} + outputPath: {description: "The location the output VCF file should be written.", category: "advanced"} + intervals: {description: "Bed files or interval lists describing the regions to operate on.", category: "common"} memory: {description: "The amount of memory this job will use.", category: "advanced"} javaXmx: {description: "The maximum memory available to the program. Should be lower than `memory` to accommodate JVM overhead.", diff --git a/rtg.wdl b/rtg.wdl index 10856eea275f4b7d5a59e769a261e8928d9f6789..b629b1d0a17ea0fcb9462da6ae2296554fa368df 100644 --- a/rtg.wdl +++ b/rtg.wdl @@ -51,7 +51,7 @@ task Format { format: {description: "Format of input. Allowed values are [fasta, fastq, fastq-interleaved, sam-se, sam-pe] (Default is fasta)", category: "advanced"} outputPath: {description: "Where the output should be placed.", category: "advanced"} - inputFiles: {description: "input sequence files. May be specified 1 or more times."} + inputFiles: {description: "input sequence files. May be specified 1 or more times.", category: "required"} dockerImage: {description: "The docker image used for this task. Changing this may result in errors which the developers may choose not to address.", category: "advanced"} memory: {description: "The amount of memory this job will use.", category: "advanced"}