From 64d9dbbd1a3c41f5ee3a691aaf78039222329fd4 Mon Sep 17 00:00:00 2001
From: Dmitry Kalinkin <dmitry.kalinkin@gmail.com>
Date: Fri, 20 Jun 2025 11:10:15 -0400
Subject: [PATCH 1/4] .gitlab-ci.yml: reset file timestamps to avoid rerunning
 simulations

---
 .gitlab-ci.yml | 8 ++++++++
 1 file changed, 8 insertions(+)

diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index c0b49fe0..840dc49c 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -117,6 +117,14 @@ get_data:
     - ln -s "${LOCAL_DATA_PATH}/sim_output" "${DETECTOR_CONFIG}/sim_output"
     - ln -s "../results" "${DETECTOR_CONFIG}/results"
     - mkdir -p "$SNAKEMAKE_OUTPUT_CACHE"
+    # GitLab CI will have new timestamps in each job, which messes with
+    # Snakemake outdated file detection.  This resets file timestamps according
+    # to latest modification in git.
+    - |
+      for file in $(git ls-files); do
+        time="$(git log --pretty=format:%cd -n 1 --date=format:%Y%m%d%H%M.%S --date-order -- "$file")"
+        touch -m -t "$time" "$file"
+      done
     - ls -lrtha
   retry:
     max: 2

From c0d38a36af1c9a9d900910c0781fa8026ef43576 Mon Sep 17 00:00:00 2001
From: Dmitry Kalinkin <dmitry.kalinkin@gmail.com>
Date: Mon, 23 Jun 2025 19:00:42 -0400
Subject: [PATCH 2/4] no -m

---
 .gitlab-ci.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 840dc49c..162b1cff 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -123,7 +123,7 @@ get_data:
     - |
       for file in $(git ls-files); do
         time="$(git log --pretty=format:%cd -n 1 --date=format:%Y%m%d%H%M.%S --date-order -- "$file")"
-        touch -m -t "$time" "$file"
+        touch -t "$time" "$file"
       done
     - ls -lrtha
   retry:

From 10c51fa4a1039579ca2e832c21c8760faec0c6b8 Mon Sep 17 00:00:00 2001
From: Dmitry Kalinkin <dmitry.kalinkin@gmail.com>
Date: Thu, 3 Jul 2025 16:36:55 -0400
Subject: [PATCH 3/4] test

---
 .gitlab-ci.yml | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 162b1cff..74d6d0c3 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -117,6 +117,7 @@ get_data:
     - ln -s "${LOCAL_DATA_PATH}/sim_output" "${DETECTOR_CONFIG}/sim_output"
     - ln -s "../results" "${DETECTOR_CONFIG}/results"
     - mkdir -p "$SNAKEMAKE_OUTPUT_CACHE"
+    - stat -c %x,%z,%n *
     # GitLab CI will have new timestamps in each job, which messes with
     # Snakemake outdated file detection.  This resets file timestamps according
     # to latest modification in git.
@@ -125,6 +126,7 @@ get_data:
         time="$(git log --pretty=format:%cd -n 1 --date=format:%Y%m%d%H%M.%S --date-order -- "$file")"
         touch -t "$time" "$file"
       done
+    - stat -c %x,%z,%n *
     - ls -lrtha
   retry:
     max: 2

From 6133fa6693e41038babc0bdfe5972a7ad97cdbb3 Mon Sep 17 00:00:00 2001
From: Dmitry Kalinkin <dmitry.kalinkin@gmail.com>
Date: Tue, 8 Jul 2025 15:21:45 -0400
Subject: [PATCH 4/4] add back -m

---
 .gitlab-ci.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 74d6d0c3..270c4626 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -124,7 +124,7 @@ get_data:
     - |
       for file in $(git ls-files); do
         time="$(git log --pretty=format:%cd -n 1 --date=format:%Y%m%d%H%M.%S --date-order -- "$file")"
-        touch -t "$time" "$file"
+        touch -m -t "$time" "$file"
       done
     - stat -c %x,%z,%n *
     - ls -lrtha