Replace JSON configuration with YAML file (#15)

Switch from JSON to YAML configuration for improved readability (#15)

This change replaces the JSON configuration files with YAML files, which
are more human-readable. This update is related to issue #13.

README.md

@@ -13,9 +13,9 @@ source .venv/bin/activate
 
 ## Running
 ```sh
-python3 spinner/main.py -b F -r T -c spinner/bench_settings.json -e F
+python3 spinner/main.py -b F -r T -c spinner/bench_settings.yaml -e F
 
-python3 spinner/main.py -g T -s 1000000000 -o random_numbers.bin -r T -c spinner/bench_settings.json -e T -h "sdumont[6174-6177]"
+python3 spinner/main.py -g T -s 1000000000 -o random_numbers.bin -r T -c spinner/bench_settings.yaml -e T -h "sdumont[6174-6177]"
 ```
 
 # Mandatory development policy

spinner/bench_settings.yaml

@@ -0,0 +1,51 @@
+metadata:
+  description: I/O benchmarks
+  version: "1.0"
+  runs: 2
+  timeout: 600
+  input_file: random_numbers.bin
+  omp-tasks:
+    bench_path: benchs/omp-tasks
+    env:
+      CC: gcc
+      CXX: g++
+    build_instructions:
+      - command: mkdir -p build
+        cwd: "{{bench_path}}"
+      - command: cmake .. -DCMAKE_BUILD_TYPE=Release
+        cwd: "{{bench_path}}/build"
+      - command: make -j
+        cwd: "{{bench_path}}/build"
+    command:
+      template: "{{bench_path}}/build/lustre1 -t {{tasks}} -r {{read_step}} -f {{input_file}}"
+  mpi-io:
+    bench_path: benchs/mpi-io
+    env:
+      CC: mpicc
+      CXX: mpicxx
+    build_instructions:
+      - command: mkdir -p build
+        cwd: "{{bench_path}}"
+      - command: cmake .. -DCMAKE_BUILD_TYPE=Release
+        cwd: "{{bench_path}}/build"
+      - command: make -j
+        cwd: "{{bench_path}}/build"
+    command:
+      template: "mpirun -np {{procs}} -ppn {{ppn}} -hosts {{hosts}} {{bench_path}}/build/mpi_io_count {{input_file}} {{read_step}}"
+
+omp-tasks:
+  tasks:
+    - 1
+    - 2
+  read_step:
+    - 100
+    - 101
+
+mpi-io:
+  nodes:
+    - 1
+  procs:
+    - 1
+    - 2
+  read_step:
+    - 100

spinner/runner/utilities.py

@@ -7,14 +7,14 @@
 from rich.progress import Progress
 from rich import print as rprint
 import pandas as pd
-import json
+import yaml
 
 
 def run_benchmarks(config, hosts):
     """
     Generate execution matrix from input configuration and run all benchmarks.
     """
-    bench_config = json.load(open(config))
+    bench_config = yaml.safe_load(open(config))
     bench_metadata = bench_config["metadata"]
     bench_metadata["start_timestamp"] = str(pd.Timestamp.now())