X-Git-Url: https://git.arvados.org/lightning.git/blobdiff_plain/5fe4a5feeff081241b3da124336ed9ec086ba902..5435c35e1d163adf5a79597721016c253e7c7e1d:/ref2genome.go

diff --git a/ref2genome.go b/ref2genome.go
index 79ea29de21..eeeb067694 100644
--- a/ref2genome.go
+++ b/ref2genome.go
@@ -1,4 +1,8 @@
-package main
+// Copyright (C) The Lightning Authors. All rights reserved.
+//
+// SPDX-License-Identifier: AGPL-3.0
+
+package lightning
 
 import (
 	"bufio"
@@ -67,6 +71,7 @@ func (cmd *ref2genome) RunCommand(prog string, args []string, stdin io.Reader, s
 			ProjectUUID: cmd.projectUUID,
 			RAM:         1 << 30,
 			Priority:    *priority,
+			VCPUs:       1,
 		}
 		err = runner.TranslatePaths(&cmd.refFile)
 		if err != nil {
@@ -78,7 +83,7 @@ func (cmd *ref2genome) RunCommand(prog string, args []string, stdin io.Reader, s
 		if err != nil {
 			return 1
 		}
-		fmt.Fprintln(stdout, output)
+		fmt.Fprintln(stdout, output+"/ref.genome")
 		return 0
 	}
 
@@ -114,6 +119,7 @@ func (cmd *ref2genome) RunCommand(prog string, args []string, stdin io.Reader, s
 				fmt.Fprintf(out, "%s\t%d\n", label, seqlen)
 			}
 			label = strings.TrimSpace(string(buf[1:]))
+			label = strings.SplitN(label, " ", 2)[0]
 			seqlen = 0
 		} else {
 			seqlen += len(bytes.TrimSpace(buf))