From 34fbca2a40cff49961eaa33af47f55bdb72072ca Mon Sep 17 00:00:00 2001
From: Chananchida Sang-aram VSCODE <sai.chananchida@gmail.com>
Date: Tue, 1 Oct 2024 17:39:00 +0200
Subject: [PATCH] trace file

---
 .github/workflows/test_run_dataset_R.yml | 2 ++
 conf/test.config                         | 1 +
 2 files changed, 3 insertions(+)

diff --git a/.github/workflows/test_run_dataset_R.yml b/.github/workflows/test_run_dataset_R.yml
index b86fcd6..37ec7fb 100644
--- a/.github/workflows/test_run_dataset_R.yml
+++ b/.github/workflows/test_run_dataset_R.yml
@@ -34,9 +34,11 @@ jobs:
           nextflow self-update
 
       - name: Run pipeline with test data
+        shell: bash
         run: |
           nextflow run main.nf -profile test,docker --mode run_dataset \
           --methods rctd,music,spatialdwls,nnls,seurat
+          echo $(ls)
 
       - name: Upload proportions and metrics
         uses: actions/upload-artifact@v3
diff --git a/conf/test.config b/conf/test.config
index 64bebda..da16b5b 100644
--- a/conf/test.config
+++ b/conf/test.config
@@ -31,6 +31,7 @@ params {
 
 trace {
     enabled = true
+    file = 'trace.txt'
     fields = 'task_id,hash,name,tag,status,exit,container,duration,realtime,cpus,disk,memory,attempt,%cpu,%mem,rss,peak_rss,vmem,peak_vmem'
 }