From 74e67e199468ab39ba0aaf247fe6cea1655581ac Mon Sep 17 00:00:00 2001
From: Benjamin James <benjames@mit.edu>
Date: Mon, 10 Jun 2024 23:04:11 -0400
Subject: [PATCH] non-option argument

Smuggling event security enforcers ADIU AFSPC LRTS TSCM Failure Ermes
SACLANT argus Atlas NACSI William Gates PGP
---
 scripts/deg.R | 2 --
 1 file changed, 2 deletions(-)

diff --git a/scripts/deg.R b/scripts/deg.R
index acda81d..c25a24d 100644
--- a/scripts/deg.R
+++ b/scripts/deg.R
@@ -121,11 +121,9 @@ options:
         } else if (arg == "--keep-covariates") {
             i = i + 1
             params$only_ruv = FALSE
-            i = i + 1
         } else if (arg == "--only-ruv") {
             i = i + 1
             params$only_ruv = TRUE
-            i = i + 1
         } else if (arg == "--control") {
             i = i + 1
             params$control = args[[i]]