Renamed files and changes

Vitek-Lab · Jan 26, 2025 · ce5bf5f · ce5bf5f
1 parent 7443733
commit ce5bf5f
Show file tree

Hide file tree

Showing 4 changed files with 4 additions and 4 deletions.
diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
@@ -26,7 +26,7 @@ jobs:
 
     - name: Transfer Files to HPC
       run: |
-        scp -O benchmark/benchmark.R benchmark/benchmark1.R benchmark/calculateMetrics.R benchmark/config.slurm raina.ans@login-00.discovery.neu.edu:/work/VitekLab/Projects/Benchmarking || exit 1
+        scp -O benchmark/benchmark_Dowell2021-HEqe408_LFQ.R benchmark/benchmark_Puyvelde2022-HYE5600735_LFQ.R benchmark/scriptController.json benchmark/calculateMetrics.R benchmark/config.slurm raina.ans@login-00.discovery.neu.edu:/work/VitekLab/Projects/Benchmarking || exit 1
 
     - name: Submit Slurm Job and Capture Job ID
       id: submit_job
@@ -48,8 +48,8 @@ jobs:
 
     - name: Fetch Output
       run: |
-        scp raina.ans@login-00.discovery.neu.edu:/work/VitekLab/Projects/Benchmarking/job_output.txt job_output.txt
-        scp raina.ans@login-00.discovery.neu.edu:/work/VitekLab/Projects/Benchmarking/job_error.txt job_error.txt
+        scp -O raina.ans@login-00.discovery.neu.edu:/work/VitekLab/Projects/Benchmarking/job_output.txt job_output.txt
+        scp -O raina.ans@login-00.discovery.neu.edu:/work/VitekLab/Projects/Benchmarking/job_error.txt job_error.txt
 
     - name: Extract and Check FDR Values
       run: |

diff --git a/benchmark/benchmark1.R → benchmark/benchmark_Dowell2021-HEqe408_LFQ.R b/benchmark/benchmark1.R → benchmark/benchmark_Dowell2021-HEqe408_LFQ.R
diff --git a/benchmark/benchmark.R → ...k/benchmark_Puyvelde2022-HYE5600735_LFQ.R b/benchmark/benchmark.R → ...k/benchmark_Puyvelde2022-HYE5600735_LFQ.R
diff --git a/benchmark/config.slurm b/benchmark/config.slurm
@@ -26,7 +26,7 @@ remotes::install_github('Vitek-Lab/MSstats', ref = 'devel', lib = Sys.getenv('R_
 remotes::install_github('Vitek-Lab/MSstatsConvert', ref = 'master', lib = Sys.getenv('R_LIBS_USER')); \
 install.packages(c('dplyr', 'stringr', 'ggplot2'), lib = Sys.getenv('R_LIBS_USER'), repos = 'https://cloud.r-project.org')"
 
-R_SCRIPTS=("benchmark.R" "benchmark1.R")
+R_SCRIPTS=("benchmark_Puyvelde2022-HYE5600735_LFQ.R" "benchmark_Dowell2021-HEqe408_LFQ.R")
 
 for script in $R_SCRIPTS; do
     echo "Executing script: $script"