From cbcfa34cc8b5ca1679156489408d8eed072b34b5 Mon Sep 17 00:00:00 2001
From: rjcorb <rcorbett@childrensnational.org>
Date: Fri, 5 Sep 2025 15:01:42 -0400
Subject: [PATCH] copy all fragpipe dependencies to same tool dir

---
 Dockerfile | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/Dockerfile b/Dockerfile
index 67eadf9..795f623 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -70,10 +70,10 @@ RUN export JAVA_HOME
 
 # copy Fragpipe dependencies 
 
-COPY MSFragger-4.3.jar /fragpipe_bin/fragPipe-23.1/fragpipe/tools/MSFragger-4.3.jar 
-COPY diaTracer-1.3.3.jar /fragpipe_bin/fragPipe-23.1/fragpipe/tools/diaTracer-1.3.3.jar
-COPY IonQuant-1.11.11.jar /fragpipe_bin/fragPipe-23.1/fragpipe/tools/IonQuant-1.11.11.jar
+COPY MSFragger-4.3.jar /fragpipe_bin/fragPipe-23.1/fragpipe-23.1/tools/MSFragger-4.3.jar 
+COPY diaTracer-1.3.3.jar /fragpipe_bin/fragPipe-23.1/fragpipe-23.1/tools/diaTracer-1.3.3.jar
+COPY IonQuant-1.11.11.jar /fragpipe_bin/fragPipe-23.1/fragpipe-23.1/tools/IonQuant-1.11.11.jar
 
 WORKDIR /rocker-build/
 
-ADD Dockerfile .
+ADD Dockerfile .
\ No newline at end of file