From e6f68186ec08157d9bbb52d4ec835bc4aed67507 Mon Sep 17 00:00:00 2001 From: Nils Homer Date: Mon, 19 Jun 2017 09:53:18 -0700 Subject: [PATCH] Adding option short names for CreateSequenceDictionary --- src/main/java/picard/sam/CreateSequenceDictionary.java | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/src/main/java/picard/sam/CreateSequenceDictionary.java b/src/main/java/picard/sam/CreateSequenceDictionary.java index 99b4cfd33..2381891a4 100644 --- a/src/main/java/picard/sam/CreateSequenceDictionary.java +++ b/src/main/java/picard/sam/CreateSequenceDictionary.java @@ -89,14 +89,14 @@ shortName = StandardOptionDefinitions.OUTPUT_SHORT_NAME, optional = true) public File OUTPUT; - @Option(doc = "Put into AS field of sequence dictionary entry if supplied", optional = true) + @Option(shortName = "AS", doc = "Put into AS field of sequence dictionary entry if supplied", optional = true) public String GENOME_ASSEMBLY; - @Option(doc = "Put into UR field of sequence dictionary entry. If not supplied, input reference file is used", + @Option(shortName = "UR", doc = "Put into UR field of sequence dictionary entry. If not supplied, input reference file is used", optional = true) public String URI; - @Option(doc = "Put into SP field of sequence dictionary entry", optional = true) + @Option(shortName = "SP", doc = "Put into SP field of sequence dictionary entry", optional = true) public String SPECIES; @Option(doc = "Make sequence name the first word from the > line in the fasta file. " +