diff --git a/.gitignore b/.gitignore
index 5a84666..75377b3 100644
--- a/.gitignore
+++ b/.gitignore
@@ -16,3 +16,4 @@ pyenv372
 .python-version
 .Rproj.user
 scripts/scripts.Rproj
+scripts/.Rhistory
diff --git a/dockerfiles/Dockerfile.plexedpiper b/dockerfiles/Dockerfile.plexedpiper
index fb1ece2..fad195b 100644
--- a/dockerfiles/Dockerfile.plexedpiper
+++ b/dockerfiles/Dockerfile.plexedpiper
@@ -13,6 +13,6 @@ RUN apt-get update \
 
 # hadolint ignore=DL3059
 RUN R -e 'install.packages("devtools")' \
-    && R -e 'remotes::install_github("PNNL-Comp-Mass-Spec/PlexedPiper@0.4.1", build_vignettes = FALSE)' \
+    && R -e 'remotes::install_github("PNNL-Comp-Mass-Spec/PlexedPiper@0.4.2", build_vignettes = FALSE)' \
     && R -e 'install.packages("optparse")' \
     && R -e 'install.packages("purrr")'
diff --git a/wdl/proteomics_msgfplus.wdl b/wdl/proteomics_msgfplus.wdl
index 2ecd654..b841850 100644
--- a/wdl/proteomics_msgfplus.wdl
+++ b/wdl/proteomics_msgfplus.wdl
@@ -3,7 +3,7 @@ version 1.0
 workflow proteomics_msgfplus {
     meta {
         author: "David Jimenez-Morales"
-        version: "v1.0.0"
+        version: "v1.0.1"
 
         task_labels: {
             msgf_sequences: {
@@ -267,6 +267,11 @@ workflow proteomics_msgfplus {
                 isPTM = isPTM
         }
     }
+
+    output {
+        File? results_rii = wrapper_pp.results_rii
+        File? results_ratio = wrapper_pp.results_ratio
+    }
 }
 
 task msgf_sequences {