From d3cdbd0bfc5dd9addda01449817a96d74c8b86f8 Mon Sep 17 00:00:00 2001
From: Michael Levy <mike.levy.work@gmail.com>
Date: Mon, 30 Dec 2024 15:03:52 -0700
Subject: [PATCH] Call cupid scripts directly

Don't assume that (cupid-infrastructure) is pointing to the right CUPiD version
---
 machines/template.cupid | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/machines/template.cupid b/machines/template.cupid
index 3ac1ae4d..8b1b94e2 100755
--- a/machines/template.cupid
+++ b/machines/template.cupid
@@ -33,7 +33,7 @@ if [ "${RUN_CUPID_ANALYSIS}" == "TRUE" ]; then
 
   # 3. Generate timeseries files and run ADF
   if [ "${RUN_CUPID_TIMESERIES}" == "TRUE" ]; then
-    cupid-timeseries
+    {{ srcroot }}/tools/CUPiD/cupid/run_timeseries.py
   fi
   conda deactivate
   conda activate cupid-analysis
@@ -42,6 +42,6 @@ if [ "${RUN_CUPID_ANALYSIS}" == "TRUE" ]; then
   # 4. Run CUPiD and build webpage
   conda deactivate
   conda activate cupid-infrastructure
-  cupid-diagnostics
-  cupid-webpage
+  {{ srcroot }}/tools/CUPiD/cupid/run_diagnostics.py
+  {{ srcroot }}/tools/CUPiD/cupid/cupid_webpage.py
 fi