From 59b54139d383e439d2ac6e2931281e4886a06390 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 13:39:58 +0100
Subject: [PATCH 01/56] rm production website config #180

---
 .../benchmarking/report/config/config.json    | 128 ------------------
 1 file changed, 128 deletions(-)
 delete mode 100644 src/feelpp/benchmarking/report/config/config.json

diff --git a/src/feelpp/benchmarking/report/config/config.json b/src/feelpp/benchmarking/report/config/config.json
deleted file mode 100644
index 67d6359f..00000000
--- a/src/feelpp/benchmarking/report/config/config.json
+++ /dev/null
@@ -1,128 +0,0 @@
-{
-    "execution_mapping": {
-        "feelpp_toolbox_heat": {
-            "gaya": {
-                "thermal_bridges_case_2":{"platform":"girder","path":"673da5c0b0e95728eb010c1b"},
-                "thermal_bridges_case_3":{"platform":"girder","path":"673da5c7b0e95728eb010c1c"}
-            }
-        },
-        "feelpp_toolbox_thermoelectric": {
-            "gaya": {
-                "HL_31":{"platform":"girder","path":"673da5e2b0e95728eb010c1e"}
-            }
-        },
-        "feelpp_toolbox_heatfluid": {
-            "gaya": {
-                "eye":{"platform":"girder","path":"673da5d4b0e95728eb010c1d"}
-            }
-        },
-        "feelpp_kub_cem": {
-            "gaya": {
-                "poznan":{"platform":"girder","path":"673da5a6b0e95728eb010c1a"}
-            }
-        }
-    },
-    "machines": {
-        "gaya": {
-            "display_name": "Gaya",
-            "description": "Strasbourg, France"
-        },
-        "meluxina": {
-            "display_name": "MeluXina",
-            "description": "Bissen, Luxembourg"
-        },
-        "discoverer": {
-            "display_name": "Discoverer",
-            "description": "Sofia, Bulgaria"
-        },
-        "lumi": {
-            "display_name": "Lumi",
-            "description": "Kajaani, Finland"
-        },
-        "karolina": {
-            "display_name": "Karolina",
-            "description": "Ostrava, Czech Republic"
-        }
-    },
-    "use_cases": {
-        "busbar2d": {
-            "display_name": "Busbar 2D",
-            "description": "Busbar 2D simulation"
-        },
-        "busbar3d": {
-            "display_name": "Busbar 3D",
-            "description": "Busbar 3D simulation"
-        },
-        "thermal_bridges_case_1": {
-            "display_name": "Thermal Bridges Case 1",
-            "description": "Thermal bridges case 1 simulation"
-        },
-        "thermal_bridges_case_2": {
-            "display_name": "Thermal Bridges Case 2",
-            "description": "Thermal bridges case 2 simulation"
-        },
-        "thermal_bridges_case_3": {
-            "display_name": "Thermal Bridges Case 3",
-            "description": "Thermal bridges case 3 simulation"
-        },
-        "thermal_bridges_case_4": {
-            "display_name": "Thermal Bridges Case 4",
-            "description": "Thermal bridges case 4 simulation"
-        },
-        "laminar2d": {
-            "display_name": "Laminar 2D",
-            "description": "Laminar 2D simulation"
-        },
-        "laminar3d": {
-            "display_name": "Laminar 3D",
-            "description": "Laminar 3D simulation"
-        },
-        "quarter_turn_3d": {
-            "display_name": "Quarter Turn 3D",
-            "description": "Quarter Turn 3D simulation"
-        },
-        "HL_31": {
-            "display_name": "HL-31",
-            "description": "HL-31"
-        },
-        "poznan": {
-            "display_name":"Poznan",
-            "description": "Poznan, Poland"
-        },
-        "eye": {
-            "display_name":"Eye",
-            "description":"steady aqueous humor (AH) flow in the posterior and anterior chambers of the human eyeball, coupled with the overall heat transfer"
-        },
-        "default": {
-            "display_name": "Default",
-            "description": "Unkown test case"
-        }
-    },
-    "applications": {
-        "feelpp_toolbox_electric": {
-            "display_name": "Feel++ electric toolbox",
-            "description": "Feel++ electric toolbox",
-            "main_variables": [ "Constructor_init", "PostProcessing_exportResults", "Solve_solve" ]
-        },
-        "feelpp_toolbox_heat": {
-            "display_name": "Feel++ heat toolbox",
-            "description": "Feel++ heat toolbox",
-            "main_variables": [ "Constructor_init", "PostProcessing_exportResults", "Solve_solve" ]
-        },
-        "feelpp_toolbox_heatfluid": {
-            "display_name": "Feel++ Heat Fluid toolbox",
-            "description": "Feel++ Heat Fluid toolbox",
-            "main_variables": [ "Constructor_init", "PostProcessing_exportResults", "Solve_solve" ]
-        },
-        "feelpp_toolbox_thermoelectric": {
-            "display_name": "Feel++ Thermo-electric toolbox",
-            "description": "Feel++ Thermo-electric toolbox",
-            "main_variables": [ "Constructor_init", "PostProcessing_exportResults", "Solve_solve" ]
-        },
-        "feelpp_kub_cem":{
-            "display_name": "KUB",
-            "description": "Ktirio Urban Buildings",
-            "main_variables": [ "constructor", "updateForUse", "execute", "simulate", "postprocess" ]
-        }
-    }
-}
\ No newline at end of file

From 412467d8b6fa00ed2e8a09bd6bb5b5266e597356 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 13:45:00 +0100
Subject: [PATCH 02/56] use remote website config #180

---
 .github/workflows/ci.yml | 7 ++++++-
 netlify-build.sh         | 4 +++-
 2 files changed, 9 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 9aaa1ff5..0d9f1f5a 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -99,10 +99,15 @@ jobs:
           pip3 install -I -r requirements.txt
           pip3 install dist/*.whl
           tree .venv
+    - name: Download website config
+      run: |
+        source .venv/bin/activate
+        config_id=6752f0734c9ccbdde21a48ca
+        girder-download --girder_id=$config_id --output_dir=./tmp/ --filename=website_config.json
     - name: Render reports
       run: |
         source .venv/bin/activate
-        render-benchmarks
+        render-benchmarks --config_file=./tmp/website_config.json
       env:
         GIRDER_API_KEY: ${{ secrets.GIRDER }}
     - name: Build Antora Site
diff --git a/netlify-build.sh b/netlify-build.sh
index d18e6285..416329ba 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -8,5 +8,7 @@ pip3 install -r requirements.txt
 pip3 wheel --no-deps --wheel-dir dist .
 pip3 install dist/*.whl
 npm i
-render-benchmarks
+config_id=6752f0734c9ccbdde21a48ca
+girder-download --girder_id=$config_id --output_dir=./tmp/ --filename=website_config.json
+render-benchmarks --config_file=./tmp/website_config.json
 npx antora --stacktrace generate --cache-dir cache --clean --html-url-extension-style=indexify site.yml

From ebc320711f3aae343b60a3db7a89f678867705d1 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 13:45:38 +0100
Subject: [PATCH 03/56] ignore tmp

---
 .gitignore | 5 ++++-
 1 file changed, 4 insertions(+), 1 deletion(-)

diff --git a/.gitignore b/.gitignore
index a9ec23ce..dc1b6586 100644
--- a/.gitignore
+++ b/.gitignore
@@ -66,4 +66,7 @@ docs/modules/ROOT/pages/
 reports/
 
 #Test Outputs
-tests/data/outputs/
\ No newline at end of file
+tests/data/outputs/
+
+tmp/
+tmp.ipynb
\ No newline at end of file

From 4ca1e5a4e5bd4e4019661b1fc894905ba0e4b3f9 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 14:06:34 +0100
Subject: [PATCH 04/56] add date metadata #181

---
 docs/modules/ROOT/pages/index.adoc | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/docs/modules/ROOT/pages/index.adoc b/docs/modules/ROOT/pages/index.adoc
index ad01ded3..95e40e99 100644
--- a/docs/modules/ROOT/pages/index.adoc
+++ b/docs/modules/ROOT/pages/index.adoc
@@ -3,4 +3,5 @@
 ifdef::env-github,env-browser,env-vscode[:imagesprefix: ../images/]
 = Benchmarking
 :page-layout: toolboxes
-:page-tags: catalog, catalog-index
\ No newline at end of file
+:page-tags: catalog, catalog-index
+:docdatetime: 2024-12-06T13:56:01
\ No newline at end of file

From d7c9c08bee900246cb54d78227af2b2d964a42c1 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 14:06:49 +0100
Subject: [PATCH 05/56] start deployment logic #181

---
 .github/workflows/benchmark.yml | 27 ++++++++++++++++-----------
 1 file changed, 16 insertions(+), 11 deletions(-)

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index 25810b98..f301cec6 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -18,10 +18,6 @@ on:
                 description: 'Plots related configuration'
                 required: True
                 default: 675053424c9ccbdde21a470a
-            girder_folder_id:
-                description: 'ID of the folder to upload to'
-                required: True
-                default: 67504ecd4c9ccbdde21a4704
 
 jobs:
 
@@ -166,12 +162,21 @@ jobs:
                 source .venv/bin/activate
                 new_foldername=./tmp/$(date +"%Y_%m_%dT%H_%M_%S")
                 mv ./tmp/results/ $new_foldername
-                if [[ "${{ github.event_name }}" == "workflow_dispatch" ]]; then
-                    girder_upload_id=${{ github.event.inputs.girder_folder_id }};
-                elif [[ "${{ github.event_name}}" == "repository_dispatch" ]]; then
-                    girder_upload_id=${{ github.event.client_payload.girder_folder_id }};
-                fi
-                girder-upload --directory $new_foldername --girder_id $girder_upload_id
+                girder_staging_id=6752b5194c9ccbdde21a48b8
+                girder-upload --directory $new_foldername --girder_id $girder_staging_id
                 rm -r $new_foldername
             env:
-                GIRDER_API_KEY: ${{ secrets.GIRDER }}
\ No newline at end of file
+                GIRDER_API_KEY: ${{ secrets.GIRDER }}
+        -   name: Update Index Date
+            run: |
+                sed -i "s/^:docdatetime: .*/:docdatetime: $(date +'%Y-%m-%dT%H:%M:%S')/" "docs/modules/ROOT/pages/index.adoc"
+        -   name: Create Pull Request
+            uses: peter-evans/create-pull-request@v7
+            with:
+                title: "Add benchmark for ${{ needs.factory.outputs.executable_name }} - ${{ needs.factory.outputs.use_case }}"
+                body: |
+                    Auto-generated by [create-pull-request][1]
+                    [1]: https://github.com/peter-evans/create-pull-request
+                reviewers: JavierCladellas
+            env:
+                GITHUB_TOKEN: ${{ secrets.CR_PAT }}
\ No newline at end of file

From 826f88ed0e157118a5f10c116dcb4e7832d88e89 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 14:15:28 +0100
Subject: [PATCH 06/56] add some body text [ci skip]

---
 .github/workflows/benchmark.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index f301cec6..f9fb178f 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -175,6 +175,7 @@ jobs:
             with:
                 title: "Add benchmark for ${{ needs.factory.outputs.executable_name }} - ${{ needs.factory.outputs.use_case }}"
                 body: |
+                    Generating reports from staging directory.
                     Auto-generated by [create-pull-request][1]
                     [1]: https://github.com/peter-evans/create-pull-request
                 reviewers: JavierCladellas

From db0d9044adfc8c29e099d7c1fc34be7a74d6877f Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 14:49:21 +0100
Subject: [PATCH 07/56] bad name

---
 .github/workflows/benchmark.yml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index f9fb178f..c6a18ef9 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -27,7 +27,7 @@ jobs:
         if: "!contains(github.event.head_commit.message, 'code skip')"
         steps:
         -   uses: actions/checkout@v4
-        -   name: Build Ktirio Cases wheel
+        -   name: Build wheel
             run: |
                 npm install
                 npx downdoc README.adoc
@@ -179,5 +179,6 @@ jobs:
                     Auto-generated by [create-pull-request][1]
                     [1]: https://github.com/peter-evans/create-pull-request
                 reviewers: JavierCladellas
+                labels: new-benchmark
             env:
                 GITHUB_TOKEN: ${{ secrets.CR_PAT }}
\ No newline at end of file

From b9b7ff83c9faac8a59fb8e61553afb71888200c5 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 15:08:54 +0100
Subject: [PATCH 08/56] add dir option to girder-download

---
 src/feelpp/benchmarking/scripts/girder.py | 6 +++++-
 1 file changed, 5 insertions(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/scripts/girder.py b/src/feelpp/benchmarking/scripts/girder.py
index 41e2f1be..9df7aa27 100644
--- a/src/feelpp/benchmarking/scripts/girder.py
+++ b/src/feelpp/benchmarking/scripts/girder.py
@@ -6,12 +6,16 @@
 def download_cli():
     parser = ArgumentParser()
     parser.add_argument("--girder_id", '-gid', required = True, type=str, help="Girder file id to download.")
+    parser.add_argument("--directory","-d", action='store_true')
     parser.add_argument("--output_dir", '-o', required = False, type=str, help="Path to the directory to download files to.", default="./tmp/")
     parser.add_argument("--filename", '-fn', required = False, type=str, default=None, help="Name to give to the file after downloading ")
     args = parser.parse_args()
 
     girder_hanlder = GirderHandler(args.output_dir)
-    girder_hanlder.downloadFile(args.girder_id,name=args.filename)
+    if args.directory:
+        girder_hanlder.downloadFolder(args.girder_id,output_dir=".")
+    else:
+        girder_hanlder.downloadFile(args.girder_id,name=args.filename)
 
     return 0
 

From 62499e823245e7bc6ee2cafc662f655d58090838 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 15:27:27 +0100
Subject: [PATCH 09/56] add merge json config script #181

---
 pyproject.toml                          |  1 +
 src/feelpp/benchmarking/scripts/misc.py | 41 +++++++++++++++++++++++++
 2 files changed, 42 insertions(+)
 create mode 100644 src/feelpp/benchmarking/scripts/misc.py

diff --git a/pyproject.toml b/pyproject.toml
index 4b7bad5e..0ebff188 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -46,6 +46,7 @@ execute-benchmark = "feelpp.benchmarking.reframe.__main__:main_cli"
 girder-download = "feelpp.benchmarking.scripts.girder:download_cli"
 girder-upload = "feelpp.benchmarking.scripts.girder:upload_cli"
 hpc-dispatch = "feelpp.benchmarking.scripts.hpcSystems:hpcSystemDispatcher_cli"
+merge-json-configs = "feelpp.benchmarking.scripts.misc:jsonConfigMerge_cli"
 
 [tool.pytest.ini_options]
 minversion = "6.0"
diff --git a/src/feelpp/benchmarking/scripts/misc.py b/src/feelpp/benchmarking/scripts/misc.py
new file mode 100644
index 00000000..746b8af4
--- /dev/null
+++ b/src/feelpp/benchmarking/scripts/misc.py
@@ -0,0 +1,41 @@
+from argparse import ArgumentParser
+import glob, json, copy
+
+def mergeDicts(dict1, dict2):
+    """Recursively merges two dictionaries."""
+    merged = copy.deepcopy(dict1)  # Make a deep copy of the first dictionary
+    for key, value in dict2.items():
+        if key in merged:
+            if isinstance(merged[key], dict) and isinstance(value, dict):
+                merged[key] = mergeDicts(merged[key], value)
+            elif isinstance(merged[key], list) and isinstance(value, list):
+                merged[key] = list(set(merged[key] + value))
+            else:
+                merged[key] = value
+        else:
+            merged[key] = value
+    return merged
+
+
+
+
+def jsonConfigMerge_cli():
+    """ Merge multiple json files into a single one"""
+    parser = ArgumentParser()
+    parser.add_argument("--file_pattern", '-fp', required = True, type=str, help="File glob pattern of the json files to merge")
+    parser.add_argument("--output_file_path","-o",required=True,type=str,help="Path of the resulting file to be saved to")
+    args = parser.parse_args()
+
+    master_config = {}
+    for filename in glob.glob(args.file_pattern,recursive=True):
+        with open(filename,"r") as f:
+            current_config = json.load(f)
+            master_config = mergeDicts(master_config,current_config)
+
+    with open(args.output_file_path,"w") as f:
+        f.write(json.dumps(master_config))
+
+    return 0
+
+if __name__=="__main__":
+    jsonConfigMerge_cli()
\ No newline at end of file

From 30ddced777d7bb62c5b38e9bf8720f1e056a2d50 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 15:27:38 +0100
Subject: [PATCH 10/56] rm main

---
 src/feelpp/benchmarking/scripts/misc.py | 5 +----
 1 file changed, 1 insertion(+), 4 deletions(-)

diff --git a/src/feelpp/benchmarking/scripts/misc.py b/src/feelpp/benchmarking/scripts/misc.py
index 746b8af4..5a0bf0d8 100644
--- a/src/feelpp/benchmarking/scripts/misc.py
+++ b/src/feelpp/benchmarking/scripts/misc.py
@@ -35,7 +35,4 @@ def jsonConfigMerge_cli():
     with open(args.output_file_path,"w") as f:
         f.write(json.dumps(master_config))
 
-    return 0
-
-if __name__=="__main__":
-    jsonConfigMerge_cli()
\ No newline at end of file
+    return 0
\ No newline at end of file

From 440e3f8d75c5adffda6ed6d30799010351ee2cd5 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 15:29:03 +0100
Subject: [PATCH 11/56] help

---
 src/feelpp/benchmarking/scripts/girder.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/scripts/girder.py b/src/feelpp/benchmarking/scripts/girder.py
index 9df7aa27..069ecf5e 100644
--- a/src/feelpp/benchmarking/scripts/girder.py
+++ b/src/feelpp/benchmarking/scripts/girder.py
@@ -6,7 +6,7 @@
 def download_cli():
     parser = ArgumentParser()
     parser.add_argument("--girder_id", '-gid', required = True, type=str, help="Girder file id to download.")
-    parser.add_argument("--directory","-d", action='store_true')
+    parser.add_argument("--directory","-d", action='store_true', help="Set this flag if the target is a directory")
     parser.add_argument("--output_dir", '-o', required = False, type=str, help="Path to the directory to download files to.", default="./tmp/")
     parser.add_argument("--filename", '-fn', required = False, type=str, default=None, help="Name to give to the file after downloading ")
     args = parser.parse_args()

From a6d294dcd9420ab2647d4b9440ca26b7a2d92d7a Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:09:05 +0100
Subject: [PATCH 12/56] add update config option #181

---
 src/feelpp/benchmarking/scripts/misc.py | 13 ++++++++++++-
 1 file changed, 12 insertions(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/scripts/misc.py b/src/feelpp/benchmarking/scripts/misc.py
index 5a0bf0d8..689976e7 100644
--- a/src/feelpp/benchmarking/scripts/misc.py
+++ b/src/feelpp/benchmarking/scripts/misc.py
@@ -1,5 +1,5 @@
 from argparse import ArgumentParser
-import glob, json, copy
+import glob, json, copy, os
 
 def mergeDicts(dict1, dict2):
     """Recursively merges two dictionaries."""
@@ -24,12 +24,23 @@ def jsonConfigMerge_cli():
     parser = ArgumentParser()
     parser.add_argument("--file_pattern", '-fp', required = True, type=str, help="File glob pattern of the json files to merge")
     parser.add_argument("--output_file_path","-o",required=True,type=str,help="Path of the resulting file to be saved to")
+    parser.add_argument("--update_paths", "-u", action="store_true", help="Whether to update the config file paths")
     args = parser.parse_args()
 
     master_config = {}
     for filename in glob.glob(args.file_pattern,recursive=True):
         with open(filename,"r") as f:
             current_config = json.load(f)
+
+        if args.update_paths:
+            file_dirpath = os.path.dirname(os.path.relpath(filename,"."))
+            report_paths = glob.glob(os.path.join(file_dirpath,"**","reframe_report.json"),recursive=True)
+            for report in report_paths:
+                app,use_case,machine = report.split("/")[-5:-2]
+
+                current_config["execution_mapping"][app][machine][use_case]["path"] = os.path.join(file_dirpath,app,use_case,machine)
+                current_config["execution_mapping"][app][machine][use_case]["path"]["platform"] = "local"
+
             master_config = mergeDicts(master_config,current_config)
 
     with open(args.output_file_path,"w") as f:

From f65148b95aa2b982102050a66af0076b5dca0053 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:09:23 +0100
Subject: [PATCH 13/56] add first staging workflow #181

---
 .github/workflows/staging_preview.yml | 41 +++++++++++++++++++++++++++
 netlify-stage-build.sh                | 12 ++++++++
 2 files changed, 53 insertions(+)
 create mode 100644 .github/workflows/staging_preview.yml
 create mode 100644 netlify-stage-build.sh

diff --git a/.github/workflows/staging_preview.yml b/.github/workflows/staging_preview.yml
new file mode 100644
index 00000000..1ac4c7c4
--- /dev/null
+++ b/.github/workflows/staging_preview.yml
@@ -0,0 +1,41 @@
+name: Preview Staging Website
+
+on:
+    pull_request:
+        types:
+            - labeled
+            - opened
+jobs:
+    preview-staging:
+        runs-on: self-ubuntu-22.04
+        name: Preview stage benchmarks
+        if: contains(github.event.pull_request.labels.*.name,'new-benchmark')
+        steps:
+            -   uses: actions/checkout@v4
+            -   name: Build wheel
+                run: |
+                    npm install
+                    npx downdoc README.adoc
+                    pip3 wheel --no-deps --wheel-dir dist .
+                env:
+                    CXX: clang++
+            -   name: Create python environment
+                run: |
+                    python3 -m venv .venv
+                    source .venv/bin/activate
+                    pip3 install -r requirements.txt
+            -   name: Download stage benchmarks
+                run: |
+                    source .venv/bin/activate
+                    girder-download -gid 6752b5194c9ccbdde21a48b8 -o ./tmp/ -d
+            -   name: Merge Website Configs
+                run: |
+                    source .venv/bin/activate
+                    merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u
+            -   name: Trigger Preview
+                uses: netlify/actions/build@master
+                env:
+                    NETLIFY_CMD: "./netlify-stage-build.sh"
+                    NETLIFY_DIR: public
+                    GITHUB_TOKEN: ${{secrets.GITHUB_TOKEN}}
+
diff --git a/netlify-stage-build.sh b/netlify-stage-build.sh
new file mode 100644
index 00000000..d86a9f24
--- /dev/null
+++ b/netlify-stage-build.sh
@@ -0,0 +1,12 @@
+#!/usr/bin/env bash
+
+python3 -m venv .venv
+source .venv/bin/activate
+
+pip3 install --upgrade pip
+pip3 install -r requirements.txt
+pip3 wheel --no-deps --wheel-dir dist .
+pip3 install dist/*.whl
+npm i
+render-benchmarks --config_file=./tmp/website_config.json
+npx antora --stacktrace generate --cache-dir cache --clean --html-url-extension-style=indexify site.yml

From 5236fc3c1a7e888a7a07b41bde2a92dd2b5e9730 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:13:57 +0100
Subject: [PATCH 14/56] add girder api key to env #181

---
 .github/workflows/staging_preview.yml | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/.github/workflows/staging_preview.yml b/.github/workflows/staging_preview.yml
index 1ac4c7c4..6830b3ae 100644
--- a/.github/workflows/staging_preview.yml
+++ b/.github/workflows/staging_preview.yml
@@ -28,6 +28,8 @@ jobs:
                 run: |
                     source .venv/bin/activate
                     girder-download -gid 6752b5194c9ccbdde21a48b8 -o ./tmp/ -d
+                env:
+                    GIRDER_API_KEY: ${{secrets.GIRDER}}
             -   name: Merge Website Configs
                 run: |
                     source .venv/bin/activate

From 5ac7eecc62f17c9033581e6f18dc53d36c87dcf0 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:14:07 +0100
Subject: [PATCH 15/56] add push event for debug

---
 .github/workflows/staging_preview.yml | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/.github/workflows/staging_preview.yml b/.github/workflows/staging_preview.yml
index 6830b3ae..1179b230 100644
--- a/.github/workflows/staging_preview.yml
+++ b/.github/workflows/staging_preview.yml
@@ -5,6 +5,9 @@ on:
         types:
             - labeled
             - opened
+    push:
+        branches:
+            - '181-handle-report-deployment' #TODO: Remove (DEBUG)
 jobs:
     preview-staging:
         runs-on: self-ubuntu-22.04

From a72a0b9a856471c844d95980157bad295d78bb92 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:15:13 +0100
Subject: [PATCH 16/56] debug [ci skip]

---
 .github/workflows/staging_preview.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/staging_preview.yml b/.github/workflows/staging_preview.yml
index 1179b230..046c383c 100644
--- a/.github/workflows/staging_preview.yml
+++ b/.github/workflows/staging_preview.yml
@@ -12,7 +12,7 @@ jobs:
     preview-staging:
         runs-on: self-ubuntu-22.04
         name: Preview stage benchmarks
-        if: contains(github.event.pull_request.labels.*.name,'new-benchmark')
+        if: 1 || contains(github.event.pull_request.labels.*.name,'new-benchmark')
         steps:
             -   uses: actions/checkout@v4
             -   name: Build wheel

From 63ff1d58f48fe1026c9b0f3b590a0e2b86a74ab5 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:16:22 +0100
Subject: [PATCH 17/56] fix debug

---
 .github/workflows/staging_preview.yml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/staging_preview.yml b/.github/workflows/staging_preview.yml
index 046c383c..58546959 100644
--- a/.github/workflows/staging_preview.yml
+++ b/.github/workflows/staging_preview.yml
@@ -12,7 +12,8 @@ jobs:
     preview-staging:
         runs-on: self-ubuntu-22.04
         name: Preview stage benchmarks
-        if: 1 || contains(github.event.pull_request.labels.*.name,'new-benchmark')
+        #if
+        #contains(github.event.pull_request.labels.*.name,'new-benchmark')
         steps:
             -   uses: actions/checkout@v4
             -   name: Build wheel

From 5135cdf7178957d30888fb140ef37b91b004f188 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:18:27 +0100
Subject: [PATCH 18/56] bug fix

---
 src/feelpp/benchmarking/scripts/misc.py | 1 -
 1 file changed, 1 deletion(-)

diff --git a/src/feelpp/benchmarking/scripts/misc.py b/src/feelpp/benchmarking/scripts/misc.py
index 689976e7..a67bdcc2 100644
--- a/src/feelpp/benchmarking/scripts/misc.py
+++ b/src/feelpp/benchmarking/scripts/misc.py
@@ -39,7 +39,6 @@ def jsonConfigMerge_cli():
                 app,use_case,machine = report.split("/")[-5:-2]
 
                 current_config["execution_mapping"][app][machine][use_case]["path"] = os.path.join(file_dirpath,app,use_case,machine)
-                current_config["execution_mapping"][app][machine][use_case]["path"]["platform"] = "local"
 
             master_config = mergeDicts(master_config,current_config)
 

From e30e9ba1f86e27abcb99fc2695dc661a7b90b9fc Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:39:53 +0100
Subject: [PATCH 19/56] rm netlify rebuild [ci skip] #181 Need to think of a
 different strat :/

---
 .github/workflows/staging_preview.yml | 13 ++++++-------
 1 file changed, 6 insertions(+), 7 deletions(-)

diff --git a/.github/workflows/staging_preview.yml b/.github/workflows/staging_preview.yml
index 58546959..c76a6eb9 100644
--- a/.github/workflows/staging_preview.yml
+++ b/.github/workflows/staging_preview.yml
@@ -38,10 +38,9 @@ jobs:
                 run: |
                     source .venv/bin/activate
                     merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u
-            -   name: Trigger Preview
-                uses: netlify/actions/build@master
-                env:
-                    NETLIFY_CMD: "./netlify-stage-build.sh"
-                    NETLIFY_DIR: public
-                    GITHUB_TOKEN: ${{secrets.GITHUB_TOKEN}}
-
+            -   name: Render Benchmarks
+                run: |
+                    source .venv/bin/activate
+                    render-benchmarks --config_file=./tmp/website_config.json
+            -   name: Deploy Preview
+                run: echo "HOW???"
\ No newline at end of file

From f7e130f890f275ba8d8e8d564273e5fd03676d63 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Fri, 6 Dec 2024 17:40:44 +0100
Subject: [PATCH 20/56] rm netlify stage [ci skip]

---
 netlify-stage-build.sh | 12 ------------
 1 file changed, 12 deletions(-)
 delete mode 100644 netlify-stage-build.sh

diff --git a/netlify-stage-build.sh b/netlify-stage-build.sh
deleted file mode 100644
index d86a9f24..00000000
--- a/netlify-stage-build.sh
+++ /dev/null
@@ -1,12 +0,0 @@
-#!/usr/bin/env bash
-
-python3 -m venv .venv
-source .venv/bin/activate
-
-pip3 install --upgrade pip
-pip3 install -r requirements.txt
-pip3 wheel --no-deps --wheel-dir dist .
-pip3 install dist/*.whl
-npm i
-render-benchmarks --config_file=./tmp/website_config.json
-npx antora --stacktrace generate --cache-dir cache --clean --html-url-extension-style=indexify site.yml

From 01365a37c705f69c00e92e4ad406467839bac961 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 10:11:27 +0100
Subject: [PATCH 21/56] conditional preview #181

---
 .github/workflows/benchmark.yml | 1 +
 netlify-build.sh                | 6 ++++--
 2 files changed, 5 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index c6a18ef9..fb5e802d 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -180,5 +180,6 @@ jobs:
                     [1]: https://github.com/peter-evans/create-pull-request
                 reviewers: JavierCladellas
                 labels: new-benchmark
+                branch: new-benchmark-{{needs.factory.outputs.executable_name}}
             env:
                 GITHUB_TOKEN: ${{ secrets.CR_PAT }}
\ No newline at end of file
diff --git a/netlify-build.sh b/netlify-build.sh
index 416329ba..7709fd63 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -8,7 +8,9 @@ pip3 install -r requirements.txt
 pip3 wheel --no-deps --wheel-dir dist .
 pip3 install dist/*.whl
 npm i
-config_id=6752f0734c9ccbdde21a48ca
-girder-download --girder_id=$config_id --output_dir=./tmp/ --filename=website_config.json
+if [[ $BRANCH != *"new-benchmark"*]]; then
+    config_id=6752f0734c9ccbdde21a48ca
+    girder-download --girder_id=$config_id --output_dir=./tmp/ --filename=website_config.json
+fi
 render-benchmarks --config_file=./tmp/website_config.json
 npx antora --stacktrace generate --cache-dir cache --clean --html-url-extension-style=indexify site.yml

From a148c7db5807be5d9041c28f667c937b76b472cb Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 10:15:05 +0100
Subject: [PATCH 22/56] fix error #181

---
 netlify-build.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/netlify-build.sh b/netlify-build.sh
index 7709fd63..7f0c6828 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -8,7 +8,7 @@ pip3 install -r requirements.txt
 pip3 wheel --no-deps --wheel-dir dist .
 pip3 install dist/*.whl
 npm i
-if [[ $BRANCH != *"new-benchmark"*]]; then
+if [[ $BRANCH != *"new-benchmark"* ]]; then
     config_id=6752f0734c9ccbdde21a48ca
     girder-download --girder_id=$config_id --output_dir=./tmp/ --filename=website_config.json
 fi

From ac360847b8e42983704257eddec89df77fa8ed2a Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 10:27:58 +0100
Subject: [PATCH 23/56] add missing girder key to download website config step
 #181

---
 .github/workflows/ci.yml | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 0d9f1f5a..9bb8f4f1 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -104,6 +104,8 @@ jobs:
         source .venv/bin/activate
         config_id=6752f0734c9ccbdde21a48ca
         girder-download --girder_id=$config_id --output_dir=./tmp/ --filename=website_config.json
+      env:
+        GIRDER_API_KEY: ${{secrets.GIRDER}}
     - name: Render reports
       run: |
         source .venv/bin/activate

From 930ff7171a44e8bc0f80fbe1f9953bdb4b049a67 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 10:36:57 +0100
Subject: [PATCH 24/56] rm staging preview workflow (handled now by netlify)
 #181

---
 .github/workflows/staging_preview.yml | 46 ---------------------------
 netlify-build.sh                      |  8 +++--
 2 files changed, 6 insertions(+), 48 deletions(-)
 delete mode 100644 .github/workflows/staging_preview.yml

diff --git a/.github/workflows/staging_preview.yml b/.github/workflows/staging_preview.yml
deleted file mode 100644
index c76a6eb9..00000000
--- a/.github/workflows/staging_preview.yml
+++ /dev/null
@@ -1,46 +0,0 @@
-name: Preview Staging Website
-
-on:
-    pull_request:
-        types:
-            - labeled
-            - opened
-    push:
-        branches:
-            - '181-handle-report-deployment' #TODO: Remove (DEBUG)
-jobs:
-    preview-staging:
-        runs-on: self-ubuntu-22.04
-        name: Preview stage benchmarks
-        #if
-        #contains(github.event.pull_request.labels.*.name,'new-benchmark')
-        steps:
-            -   uses: actions/checkout@v4
-            -   name: Build wheel
-                run: |
-                    npm install
-                    npx downdoc README.adoc
-                    pip3 wheel --no-deps --wheel-dir dist .
-                env:
-                    CXX: clang++
-            -   name: Create python environment
-                run: |
-                    python3 -m venv .venv
-                    source .venv/bin/activate
-                    pip3 install -r requirements.txt
-            -   name: Download stage benchmarks
-                run: |
-                    source .venv/bin/activate
-                    girder-download -gid 6752b5194c9ccbdde21a48b8 -o ./tmp/ -d
-                env:
-                    GIRDER_API_KEY: ${{secrets.GIRDER}}
-            -   name: Merge Website Configs
-                run: |
-                    source .venv/bin/activate
-                    merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u
-            -   name: Render Benchmarks
-                run: |
-                    source .venv/bin/activate
-                    render-benchmarks --config_file=./tmp/website_config.json
-            -   name: Deploy Preview
-                run: echo "HOW???"
\ No newline at end of file
diff --git a/netlify-build.sh b/netlify-build.sh
index 7f0c6828..3b85a5a7 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -8,9 +8,13 @@ pip3 install -r requirements.txt
 pip3 wheel --no-deps --wheel-dir dist .
 pip3 install dist/*.whl
 npm i
-if [[ $BRANCH != *"new-benchmark"* ]]; then
+if [[ $BRANCH == *"new-benchmark"* ]]; then
     config_id=6752f0734c9ccbdde21a48ca
-    girder-download --girder_id=$config_id --output_dir=./tmp/ --filename=website_config.json
+    girder-download -gid $config_id -o ./tmp/ -d
+    merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u
+else
+    config_id=6752f0734c9ccbdde21a48ca
+    girder-download -gid $config_id -o ./tmp/ -fn website_config.json
 fi
 render-benchmarks --config_file=./tmp/website_config.json
 npx antora --stacktrace generate --cache-dir cache --clean --html-url-extension-style=indexify site.yml

From 9b4e4290ae45c13c8dba72c1eba6556370777e46 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 10:39:46 +0100
Subject: [PATCH 25/56] typo fix #181

---
 .github/workflows/benchmark.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index fb5e802d..ad0d3607 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -180,6 +180,6 @@ jobs:
                     [1]: https://github.com/peter-evans/create-pull-request
                 reviewers: JavierCladellas
                 labels: new-benchmark
-                branch: new-benchmark-{{needs.factory.outputs.executable_name}}
+                branch: new-benchmark-${{needs.factory.outputs.executable_name}}
             env:
                 GITHUB_TOKEN: ${{ secrets.CR_PAT }}
\ No newline at end of file

From 41eb4edcc9a5b1f6e21f8f19a49943e1dad6ede7 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 10:45:16 +0100
Subject: [PATCH 26/56] add echos and fix id #181 [ci skip]

---
 netlify-build.sh | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/netlify-build.sh b/netlify-build.sh
index 3b85a5a7..aea70b1b 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -9,10 +9,12 @@ pip3 wheel --no-deps --wheel-dir dist .
 pip3 install dist/*.whl
 npm i
 if [[ $BRANCH == *"new-benchmark"* ]]; then
-    config_id=6752f0734c9ccbdde21a48ca
+    echo "Downloading Staging benchmarks"
+    config_id=6752b5194c9ccbdde21a48b8
     girder-download -gid $config_id -o ./tmp/ -d
     merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u
 else
+    echo "Downloading Production benchmarks"
     config_id=6752f0734c9ccbdde21a48ca
     girder-download -gid $config_id -o ./tmp/ -fn website_config.json
 fi

From d17e89ea653a42832305cc8fc4b5a0e13a371bc0 Mon Sep 17 00:00:00 2001
From: JavierCladellas <82624449+JavierCladellas@users.noreply.github.com>
Date: Mon, 9 Dec 2024 10:48:31 +0100
Subject: [PATCH 27/56] [create-pull-request] automated change

---
 docs/modules/ROOT/pages/index.adoc | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/docs/modules/ROOT/pages/index.adoc b/docs/modules/ROOT/pages/index.adoc
index 95e40e99..da23ccb8 100644
--- a/docs/modules/ROOT/pages/index.adoc
+++ b/docs/modules/ROOT/pages/index.adoc
@@ -4,4 +4,4 @@ ifdef::env-github,env-browser,env-vscode[:imagesprefix: ../images/]
 = Benchmarking
 :page-layout: toolboxes
 :page-tags: catalog, catalog-index
-:docdatetime: 2024-12-06T13:56:01
\ No newline at end of file
+:docdatetime: 2024-12-09T10:48:30
\ No newline at end of file

From c5c5c9c7b97471bf64e32b3337a7d95e6ea03f45 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 10:52:48 +0100
Subject: [PATCH 28/56] debug netlify #181

---
 netlify-build.sh | 1 +
 1 file changed, 1 insertion(+)

diff --git a/netlify-build.sh b/netlify-build.sh
index aea70b1b..dc72195e 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -10,6 +10,7 @@ pip3 install dist/*.whl
 npm i
 if [[ $BRANCH == *"new-benchmark"* ]]; then
     echo "Downloading Staging benchmarks"
+    echo $BRANCH
     config_id=6752b5194c9ccbdde21a48b8
     girder-download -gid $config_id -o ./tmp/ -d
     merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u

From 8760823034196323df8f1c3675f6ac32e3e0ec8e Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 10:56:09 +0100
Subject: [PATCH 29/56] more netlify debug #181

---
 netlify-build.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/netlify-build.sh b/netlify-build.sh
index dc72195e..0dc262d9 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -1,4 +1,5 @@
 #!/usr/bin/env bash
+echo $BRANCH
 
 python3 -m venv .venv
 source .venv/bin/activate
@@ -10,7 +11,6 @@ pip3 install dist/*.whl
 npm i
 if [[ $BRANCH == *"new-benchmark"* ]]; then
     echo "Downloading Staging benchmarks"
-    echo $BRANCH
     config_id=6752b5194c9ccbdde21a48b8
     girder-download -gid $config_id -o ./tmp/ -d
     merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u

From 62666a53e5e1118f2c220df08ee704992a4b6001 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 11:01:29 +0100
Subject: [PATCH 30/56] more echoing #181

---
 netlify-build.sh | 4 ++++
 1 file changed, 4 insertions(+)

diff --git a/netlify-build.sh b/netlify-build.sh
index 0dc262d9..043c9ebd 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -1,5 +1,9 @@
 #!/usr/bin/env bash
+echo "BRANCH"
 echo $BRANCH
+echo "HEAD"
+echo $HEAD
+
 
 python3 -m venv .venv
 source .venv/bin/activate

From 0ed3b795e4ca84b1c218c03eddc99c02e03e5ec6 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 11:03:35 +0100
Subject: [PATCH 31/56] branch -> head #181

---
 netlify-build.sh | 7 +------
 1 file changed, 1 insertion(+), 6 deletions(-)

diff --git a/netlify-build.sh b/netlify-build.sh
index 043c9ebd..4b6bff38 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -1,9 +1,4 @@
 #!/usr/bin/env bash
-echo "BRANCH"
-echo $BRANCH
-echo "HEAD"
-echo $HEAD
-
 
 python3 -m venv .venv
 source .venv/bin/activate
@@ -13,7 +8,7 @@ pip3 install -r requirements.txt
 pip3 wheel --no-deps --wheel-dir dist .
 pip3 install dist/*.whl
 npm i
-if [[ $BRANCH == *"new-benchmark"* ]]; then
+if [[ $HEAD == *"new-benchmark"* ]]; then
     echo "Downloading Staging benchmarks"
     config_id=6752b5194c9ccbdde21a48b8
     girder-download -gid $config_id -o ./tmp/ -d

From 0cfc2974bee35148751aa41555515e060fc887d7 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 13:25:48 +0100
Subject: [PATCH 32/56] add reusable upload to girder wrapped cli

---
 src/feelpp/benchmarking/report/config/handlers.py | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/src/feelpp/benchmarking/report/config/handlers.py b/src/feelpp/benchmarking/report/config/handlers.py
index 08225c80..2343f5da 100644
--- a/src/feelpp/benchmarking/report/config/handlers.py
+++ b/src/feelpp/benchmarking/report/config/handlers.py
@@ -60,7 +60,7 @@ def downloadFile(self, file_id, output_dir="",name=None):
 
         self.client.downloadFile(fileId=file_id,path=filepath)
 
-    def upload(self, file_pattern, parent_id,leaf_folder_as_items=True):
+    def upload(self, file_pattern, parent_id,leaf_folder_as_items=True,reuse_existing=True):
         """ Upload a local file to an existing folder/item in Girder
         Args:
             file_pattern: The file pattern of the files to upload
@@ -68,7 +68,7 @@ def upload(self, file_pattern, parent_id,leaf_folder_as_items=True):
             parent_type (str) : "folder" or "item". Defaults to "folder"
             leaf_folder_as_items (bool): Whether to upload leaf folders as items or files
         """
-        self.client.upload(filePattern=file_pattern, parentId=parent_id, parentType="folder",leafFoldersAsItems=leaf_folder_as_items)
+        self.client.upload(filePattern=file_pattern, parentId=parent_id, parentType="folder",leafFoldersAsItems=leaf_folder_as_items, reuseExisting=reuse_existing)
 
 
 class ConfigHandler:

From 882cd4cb9a74197e85fb7cc84c8f43b62c95f173 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 13:26:22 +0100
Subject: [PATCH 33/56] rename option (directory -> item)

---
 .github/workflows/benchmark.yml           | 2 +-
 src/feelpp/benchmarking/scripts/girder.py | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index ad0d3607..406eb730 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -163,7 +163,7 @@ jobs:
                 new_foldername=./tmp/$(date +"%Y_%m_%dT%H_%M_%S")
                 mv ./tmp/results/ $new_foldername
                 girder_staging_id=6752b5194c9ccbdde21a48b8
-                girder-upload --directory $new_foldername --girder_id $girder_staging_id
+                girder-upload --item $new_foldername --girder_id $girder_staging_id
                 rm -r $new_foldername
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}
diff --git a/src/feelpp/benchmarking/scripts/girder.py b/src/feelpp/benchmarking/scripts/girder.py
index 069ecf5e..b66ad469 100644
--- a/src/feelpp/benchmarking/scripts/girder.py
+++ b/src/feelpp/benchmarking/scripts/girder.py
@@ -21,7 +21,7 @@ def download_cli():
 
 def upload_cli():
     parser = ArgumentParser()
-    parser.add_argument("--directory", required=True, help="Path of the directory to upload as an item")
+    parser.add_argument("--item", required=True, help="Path of the directory or file to upload as an item")
     parser.add_argument("--girder_id", required=True, help="The Girder folder ID to which to upload the item")
     args = parser.parse_args()
 

From ea428164e52c0832ad95f06d57b373d1c49d0d21 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 13:43:14 +0100
Subject: [PATCH 34/56] fix bug in configMerge

---
 src/feelpp/benchmarking/scripts/misc.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/scripts/misc.py b/src/feelpp/benchmarking/scripts/misc.py
index a67bdcc2..026a816f 100644
--- a/src/feelpp/benchmarking/scripts/misc.py
+++ b/src/feelpp/benchmarking/scripts/misc.py
@@ -40,7 +40,7 @@ def jsonConfigMerge_cli():
 
                 current_config["execution_mapping"][app][machine][use_case]["path"] = os.path.join(file_dirpath,app,use_case,machine)
 
-            master_config = mergeDicts(master_config,current_config)
+        master_config = mergeDicts(master_config,current_config)
 
     with open(args.output_file_path,"w") as f:
         f.write(json.dumps(master_config))

From 221828c521566684b2650666a752e15711ab5108 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Mon, 9 Dec 2024 13:55:20 +0100
Subject: [PATCH 35/56] imrpove json merge

---
 src/feelpp/benchmarking/scripts/misc.py | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/src/feelpp/benchmarking/scripts/misc.py b/src/feelpp/benchmarking/scripts/misc.py
index 026a816f..e43fbe81 100644
--- a/src/feelpp/benchmarking/scripts/misc.py
+++ b/src/feelpp/benchmarking/scripts/misc.py
@@ -6,6 +6,8 @@ def mergeDicts(dict1, dict2):
     merged = copy.deepcopy(dict1)  # Make a deep copy of the first dictionary
     for key, value in dict2.items():
         if key in merged:
+            if not value: continue
+
             if isinstance(merged[key], dict) and isinstance(value, dict):
                 merged[key] = mergeDicts(merged[key], value)
             elif isinstance(merged[key], list) and isinstance(value, list):

From 154a4167a89b577b9808347f343ddd6595106bff Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 09:27:46 +0100
Subject: [PATCH 36/56] fix arg name

---
 src/feelpp/benchmarking/scripts/girder.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/scripts/girder.py b/src/feelpp/benchmarking/scripts/girder.py
index b66ad469..9598f197 100644
--- a/src/feelpp/benchmarking/scripts/girder.py
+++ b/src/feelpp/benchmarking/scripts/girder.py
@@ -26,6 +26,6 @@ def upload_cli():
     args = parser.parse_args()
 
     girder_handler = GirderHandler(download_base_dir=None)
-    girder_handler.upload( args.directory, args.girder_id )
+    girder_handler.upload( args.item, args.girder_id )
 
     return 0
\ No newline at end of file

From 485afead504b600c7e3802d8ebb6b1ad8f3fb2db Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 09:34:29 +0100
Subject: [PATCH 37/56] return item id on upload #181

---
 src/feelpp/benchmarking/report/config/handlers.py | 7 ++++++-
 1 file changed, 6 insertions(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/report/config/handlers.py b/src/feelpp/benchmarking/report/config/handlers.py
index 2343f5da..8062bc13 100644
--- a/src/feelpp/benchmarking/report/config/handlers.py
+++ b/src/feelpp/benchmarking/report/config/handlers.py
@@ -60,7 +60,7 @@ def downloadFile(self, file_id, output_dir="",name=None):
 
         self.client.downloadFile(fileId=file_id,path=filepath)
 
-    def upload(self, file_pattern, parent_id,leaf_folder_as_items=True,reuse_existing=True):
+    def upload(self, file_pattern, parent_id,leaf_folder_as_items=True,reuse_existing=True, return_id=False):
         """ Upload a local file to an existing folder/item in Girder
         Args:
             file_pattern: The file pattern of the files to upload
@@ -70,6 +70,11 @@ def upload(self, file_pattern, parent_id,leaf_folder_as_items=True,reuse_existin
         """
         self.client.upload(filePattern=file_pattern, parentId=parent_id, parentType="folder",leafFoldersAsItems=leaf_folder_as_items, reuseExisting=reuse_existing)
 
+        if return_id:
+            items = list(self.client.listItem(folderId=parent_id, name=os.path.basename(file_pattern)))
+            assert len(items) >0, f"File not Found in Girder with the name {os.path.basename(file_pattern)}"
+            assert len(items) <=1, f"More than one file found with the same name {os.path.basename(file_pattern)}"
+            return items[0]["_id"]
 
 class ConfigHandler:
     def __init__(self, config_filepath):

From d3ef1dba1c330cfc515f9d6084f10d5198e30933 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 10:15:10 +0100
Subject: [PATCH 38/56] return id to find folder #181

---
 src/feelpp/benchmarking/report/config/handlers.py | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/report/config/handlers.py b/src/feelpp/benchmarking/report/config/handlers.py
index 8062bc13..ca33b4b5 100644
--- a/src/feelpp/benchmarking/report/config/handlers.py
+++ b/src/feelpp/benchmarking/report/config/handlers.py
@@ -72,8 +72,10 @@ def upload(self, file_pattern, parent_id,leaf_folder_as_items=True,reuse_existin
 
         if return_id:
             items = list(self.client.listItem(folderId=parent_id, name=os.path.basename(file_pattern)))
-            assert len(items) >0, f"File not Found in Girder with the name {os.path.basename(file_pattern)}"
+            if len(items) == 0:
+                items = list(self.client.listFolder(parentId=parent_id, name=os.path.basename(file_pattern)))
             assert len(items) <=1, f"More than one file found with the same name {os.path.basename(file_pattern)}"
+            assert len(items) >0, f"File not Found in Girder with the name {os.path.basename(file_pattern)}"
             return items[0]["_id"]
 
 class ConfigHandler:

From 3d0c030fa7108c476dc898c6dc5f5a871ba3600f Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 10:16:33 +0100
Subject: [PATCH 39/56] add script to handle stage configuration parsing #181

---
 pyproject.toml                          |  1 +
 src/feelpp/benchmarking/scripts/misc.py | 55 +++++++++++++++++++++++++
 2 files changed, 56 insertions(+)

diff --git a/pyproject.toml b/pyproject.toml
index 0ebff188..eb6f83c2 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -47,6 +47,7 @@ girder-download = "feelpp.benchmarking.scripts.girder:download_cli"
 girder-upload = "feelpp.benchmarking.scripts.girder:upload_cli"
 hpc-dispatch = "feelpp.benchmarking.scripts.hpcSystems:hpcSystemDispatcher_cli"
 merge-json-configs = "feelpp.benchmarking.scripts.misc:jsonConfigMerge_cli"
+update-stage-config = "feelpp.benchmarking.scripts.misc:upldateStageConfig_cli"
 
 [tool.pytest.ini_options]
 minversion = "6.0"
diff --git a/src/feelpp/benchmarking/scripts/misc.py b/src/feelpp/benchmarking/scripts/misc.py
index e43fbe81..5f9ab4eb 100644
--- a/src/feelpp/benchmarking/scripts/misc.py
+++ b/src/feelpp/benchmarking/scripts/misc.py
@@ -1,5 +1,6 @@
 from argparse import ArgumentParser
 import glob, json, copy, os
+from feelpp.benchmarking.report.config.handlers import GirderHandler
 
 def mergeDicts(dict1, dict2):
     """Recursively merges two dictionaries."""
@@ -47,4 +48,58 @@ def jsonConfigMerge_cli():
     with open(args.output_file_path,"w") as f:
         f.write(json.dumps(master_config))
 
+    return 0
+
+
+def upldateStageConfig_cli():
+    """Upload new staged benchmarks to production and update production config"""
+    parser = ArgumentParser()
+    parser.add_argument("--stage_config", '-stag', required = True, type=str, help="File path of the stage configuration file")
+    parser.add_argument("--production_config","-prod",required=True,type=str,help="FIle path of the production configuration file")
+    parser.add_argument("--production_girder_id", "-prodid", required=True,type=str, help="Girder id of the production folder")
+    args = parser.parse_args()
+
+    with open(args.stage_config,"r") as f:
+        stage_cfg = json.load(f)
+    with open(args.production_config,"r") as f:
+        prod_cfg = json.load(f)
+
+    girder_client = GirderHandler(None)
+
+    for app_name, machines in stage_cfg["execution_mapping"].items():
+        for machine_name, use_cases in machines.items():
+            for use_case_name, info in use_cases.items():
+                stage_platform = info["platform"]
+                stage_path = info["path"]
+
+                if (
+                    app_name in prod_cfg["execution_mapping"] and
+                    machine_name in prod_cfg["execution_mapping"][app_name] and
+                    use_case_name in prod_cfg["execution_mapping"][app_name][machine_name]
+                ):
+                    prod_info = prod_cfg["execution_mapping"][app_name][machine_name][use_case_name]
+                    prod_platorm = prod_info["platform"]
+                    prod_path = prod_info["path"]
+
+                    if stage_platform == "local":
+                        for report_item_basename in os.listdir(report_item_basename):
+                            girder_client.upload( os.path.join(stage_path,report_item_basename), prod_path, reuse_existing=False)
+                        stage_cfg["execution_mapping"][app_name][machine_name][use_case_name]["path"] = prod_path
+                        stage_cfg["execution_mapping"][app_name][machine_name][use_case_name]["platform"] = prod_platorm
+                    else:
+                        raise ValueError("Unexpected: non local path but benchmark is staged")
+
+                else:
+                    print(f"{app_name}-{machine_name}-{use_case_name} not found in production... Adding it.")
+
+                    tmp_location = os.path.join("./tmp",f"{app_name}_{use_case_name}_{machine_name}")
+                    os.rename(stage_path,tmp_location)
+                    uploaded_id = girder_client.upload( tmp_location, args.production_girder_id, return_id=True )
+
+                    stage_cfg["execution_mapping"][app_name][machine_name][use_case_name]["path"] = uploaded_id
+                    stage_cfg["execution_mapping"][app_name][machine_name][use_case_name]["platform"] = "girder"
+
+    with open(args.stage_config,"w") as f:
+        json.dump(stage_cfg,f)
+
     return 0
\ No newline at end of file

From e71d2c4b488892949638b7100d449c53eff354e2 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 10:25:27 +0100
Subject: [PATCH 40/56] try fix girder upload of benchmarks in wf #181

---
 .github/workflows/benchmark.yml | 5 +----
 1 file changed, 1 insertion(+), 4 deletions(-)

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index 406eb730..7aa16dbf 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -160,11 +160,8 @@ jobs:
         -   name: Upload to girder
             run: |
                 source .venv/bin/activate
-                new_foldername=./tmp/$(date +"%Y_%m_%dT%H_%M_%S")
-                mv ./tmp/results/ $new_foldername
                 girder_staging_id=6752b5194c9ccbdde21a48b8
-                girder-upload --item $new_foldername --girder_id $girder_staging_id
-                rm -r $new_foldername
+                girder-upload --item ./tmp/results/ --girder_id $girder_staging_id
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}
         -   name: Update Index Date

From 82ba95c0823f1c3507968ace07b9eda7f11faa86 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 10:39:14 +0100
Subject: [PATCH 41/56] fix folder name in girder #181 [ci skip]

---
 .github/workflows/benchmark.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index 7aa16dbf..b13b371e 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -161,7 +161,7 @@ jobs:
             run: |
                 source .venv/bin/activate
                 girder_staging_id=6752b5194c9ccbdde21a48b8
-                girder-upload --item ./tmp/results/ --girder_id $girder_staging_id
+                girder-upload --item "./tmp/results/*" --girder_id $girder_staging_id
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}
         -   name: Update Index Date

From 0b47face999c5ebdcf9b86b0c46155c58e777ffd Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 11:38:59 +0100
Subject: [PATCH 42/56] add move cli #181

---
 src/feelpp/benchmarking/scripts/girder.py | 28 +++++++++++++++++++++--
 1 file changed, 26 insertions(+), 2 deletions(-)

diff --git a/src/feelpp/benchmarking/scripts/girder.py b/src/feelpp/benchmarking/scripts/girder.py
index 9598f197..767bd45d 100644
--- a/src/feelpp/benchmarking/scripts/girder.py
+++ b/src/feelpp/benchmarking/scripts/girder.py
@@ -1,6 +1,6 @@
 from feelpp.benchmarking.report.config.handlers import GirderHandler
 from argparse import ArgumentParser
-
+import requests, os
 
 
 def download_cli():
@@ -28,4 +28,28 @@ def upload_cli():
     girder_handler = GirderHandler(download_base_dir=None)
     girder_handler.upload( args.item, args.girder_id )
 
-    return 0
\ No newline at end of file
+    return 0
+
+def move_cli():
+    """Move all folder contents to another one"""
+    parser = ArgumentParser()
+    parser.add_argument("--old_id","-oid", required=True, help="Id of the folder to move the items from")
+    parser.add_argument("--new_id","-nid", required=True, help="Id of the folder to move the items to")
+    args = parser.parse_args()
+
+    girder_handler = GirderHandler(download_base_dir=None)
+    children = girder_handler.listChildren(args.old_id)
+
+    token = requests.post(
+        f"{girder_handler.base_url}/api_key/token",
+        params={"key":os.environ["GIRDER_API_KEY"]}
+    )
+
+    for child in children:
+        response = requests.put(
+            f"{girder_handler.base_url}/{child['_modelType']}/{child['_id']}",
+            params={"parentId":args.new_id,"parentType":"folder"},
+            headers={"Girder-Token":token.json()["authToken"]["token"]}
+        )
+
+        print(response.text)

From 1685903a445f36fb99f849452bd681dabefe475d Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 11:39:07 +0100
Subject: [PATCH 43/56] add move cli script #181

---
 pyproject.toml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/pyproject.toml b/pyproject.toml
index eb6f83c2..36d5620f 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -45,6 +45,7 @@ render-benchmarks = "feelpp.benchmarking.report.__main__:main_cli"
 execute-benchmark = "feelpp.benchmarking.reframe.__main__:main_cli"
 girder-download = "feelpp.benchmarking.scripts.girder:download_cli"
 girder-upload = "feelpp.benchmarking.scripts.girder:upload_cli"
+girder-move = "feelpp.benchmarking.scripts.girder:move_cli"
 hpc-dispatch = "feelpp.benchmarking.scripts.hpcSystems:hpcSystemDispatcher_cli"
 merge-json-configs = "feelpp.benchmarking.scripts.misc:jsonConfigMerge_cli"
 update-stage-config = "feelpp.benchmarking.scripts.misc:upldateStageConfig_cli"

From 7120ea97ea38b3290b370ec26fb1321f8ddcc024 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 11:39:22 +0100
Subject: [PATCH 44/56] factor id fetching #181

---
 .../benchmarking/report/config/handlers.py    | 20 +++++++++++++------
 1 file changed, 14 insertions(+), 6 deletions(-)

diff --git a/src/feelpp/benchmarking/report/config/handlers.py b/src/feelpp/benchmarking/report/config/handlers.py
index ca33b4b5..0f71cd23 100644
--- a/src/feelpp/benchmarking/report/config/handlers.py
+++ b/src/feelpp/benchmarking/report/config/handlers.py
@@ -60,6 +60,18 @@ def downloadFile(self, file_id, output_dir="",name=None):
 
         self.client.downloadFile(fileId=file_id,path=filepath)
 
+    def listChildren(self,parent_id, children_name = None):
+        items = list(self.client.listItem(folderId=parent_id, name=children_name))
+        if len(items) == 0:
+            items = list(self.client.listFolder(parentId=parent_id, name=children_name))
+
+        if children_name:
+            assert len(items) <=1, f"More than one file found with the same name {children_name}"
+            assert len(items) >0, f"File not Found in Girder with the name {children_name}"
+            return items[0]
+
+        return items
+
     def upload(self, file_pattern, parent_id,leaf_folder_as_items=True,reuse_existing=True, return_id=False):
         """ Upload a local file to an existing folder/item in Girder
         Args:
@@ -71,12 +83,8 @@ def upload(self, file_pattern, parent_id,leaf_folder_as_items=True,reuse_existin
         self.client.upload(filePattern=file_pattern, parentId=parent_id, parentType="folder",leafFoldersAsItems=leaf_folder_as_items, reuseExisting=reuse_existing)
 
         if return_id:
-            items = list(self.client.listItem(folderId=parent_id, name=os.path.basename(file_pattern)))
-            if len(items) == 0:
-                items = list(self.client.listFolder(parentId=parent_id, name=os.path.basename(file_pattern)))
-            assert len(items) <=1, f"More than one file found with the same name {os.path.basename(file_pattern)}"
-            assert len(items) >0, f"File not Found in Girder with the name {os.path.basename(file_pattern)}"
-            return items[0]["_id"]
+            item = self.listChildren(parent_id,os.path.basename(file_pattern))
+            return item["_id"]
 
 class ConfigHandler:
     def __init__(self, config_filepath):

From d3c40803d2947a301263dfedfe3e55022be995a9 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 11:41:12 +0100
Subject: [PATCH 45/56] rm print #181

---
 src/feelpp/benchmarking/scripts/girder.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/scripts/girder.py b/src/feelpp/benchmarking/scripts/girder.py
index 767bd45d..b03efe2d 100644
--- a/src/feelpp/benchmarking/scripts/girder.py
+++ b/src/feelpp/benchmarking/scripts/girder.py
@@ -52,4 +52,4 @@ def move_cli():
             headers={"Girder-Token":token.json()["authToken"]["token"]}
         )
 
-        print(response.text)
+    return 0

From 1ffa0e13bd46ca97e4063627383ab1ea97968cd6 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 11:48:24 +0100
Subject: [PATCH 46/56] write deploy workflow #181 [ci skip]

---
 .github/workflows/benchmark_deploy.yml | 108 +++++++++++++++++++++++++
 1 file changed, 108 insertions(+)
 create mode 100644 .github/workflows/benchmark_deploy.yml

diff --git a/.github/workflows/benchmark_deploy.yml b/.github/workflows/benchmark_deploy.yml
new file mode 100644
index 00000000..16a0cfaf
--- /dev/null
+++ b/.github/workflows/benchmark_deploy.yml
@@ -0,0 +1,108 @@
+name: Benchmark Deploy
+
+on:
+    pull_request:
+        types: [closed]
+
+jobs:
+    build_wheel:
+        runs-on: self-ubuntu-22.04
+        name: Build wheel package
+        if: contains(github.event.pull_request.labels, 'new-benchmark')
+        steps:
+        -   uses: actions/checkout@v4
+        -   name: Build wheel
+            run: |
+                npm install
+                npx downdoc README.adoc
+                pip3 wheel --no-deps --wheel-dir dist .
+            env:
+                CXX: clang++
+        -   name: Upload Artifact
+            uses: actions/upload-artifact@v4
+            with:
+                name: wheel-artifacts
+                path: dist/*.whl
+
+    accepted:
+        if: github.event.pull_request.merged == true && contains(github.event.pull_request.labels, 'new-benchmark')
+        runs-on: self-ubuntu-22.04
+        name: Move to production
+        needs: build_wheel
+        steps:
+        -   name: Download wheel
+            uses: actions/download-artifact@v4
+            with:
+                name: wheel-artifacts
+                path: dist
+
+        -   name: Create Virtual Environment
+            run: |
+                python3 -m venv .venv
+                source .venv/bin/activate
+                pip3 install -r requirements.txt
+        -   name: Download stage reports
+            run: |
+                source .venv/bin/activate
+                config_id=6752b5194c9ccbdde21a48b8
+                girder-download -gid $config_id -o ./tmp/ -d
+            env:
+                GIRDER_API_KEY: ${{ secrets.GIRDER }}
+        -   name: Download Production config
+            run: |
+                source .venv/bin/activate
+                config_id=6752f0734c9ccbdde21a48ca
+                girder-download -gid $config_id -o ./configs_tmp/ -fn production_config.json
+            env:
+                GIRDER_API_KEY: ${{ secrets.GIRDER }}
+        -   name: Merge stage configs
+            run: |
+                source .venv/bin/activate
+                merge-json-configs -fp ./tmp/**/website_config.json -o ./configs_tmp/stage_config.json -u
+        -   name: Update Stage Config
+            run: |
+                source .venv/bin/activate
+                production_folder_id=6752efed4c9ccbdde21a48c7
+                update-stage-config -stag ./configs_tmp/stage_config.json -prod ./configs_tmp/production_config.json -prodid $production_folder_id
+            env:
+                GIRDER_API_KEY: ${{ secrets.GIRDER }}
+        -   name: Merge stage and prod configs
+            run: |
+                source .venv/bin/activate
+                merge-json-configs -fp ./configs_tmp/**/*.json -o ./configs_tmp/website_config.json
+        -   name: Upload New Website config
+            run: |
+                source .venv/bin/activate
+                girder-upload --item ./configs_tmp/website_config.json --girder_id 6752efed4c9ccbdde21a48c7
+            env:
+                GIRDER_API_KEY: ${{ secrets.GIRDER }}
+        -   name: Cleanup stage folder
+            run: |
+                echo "Moving all folders from staging/ to merged/"
+                source .venv/bin/activate
+                staging_id=6752b5194c9ccbdde21a48b8
+                merged_id=67580d534c9ccbdde21a4a75
+                girder-move -oid $staging_id -nid $merged_id
+    denied:
+        if: github.event.pull_request.merged == false && contains(github.event.pull_request.labels, 'new-benchmark')
+        runs-on: self-ubuntu-22.04
+        name: Move to denied
+        needs: build_wheel
+        steps:
+        -   name: Download wheel
+            uses: actions/download-artifact@v4
+            with:
+                name: wheel-artifacts
+                path: dist
+        -   name: Create Virtual Environment
+            run: |
+                python3 -m venv .venv
+                source .venv/bin/activate
+                pip3 install -r requirements.txt
+        -   name: Cleanup stage folder
+            run: |
+                echo "Moving all folders from staging/ to denied/"
+                source .venv/bin/activate
+                staging_id=6752b5194c9ccbdde21a48b8
+                denied_id=6752b66d4c9ccbdde21a48b9
+                girder-move -oid $staging_id -nid $denied_id
\ No newline at end of file

From 04fc7431c0f933efde30e099d76b352ed8d3a758 Mon Sep 17 00:00:00 2001
From: JavierCladellas <82624449+JavierCladellas@users.noreply.github.com>
Date: Tue, 10 Dec 2024 11:52:10 +0100
Subject: [PATCH 47/56] [create-pull-request] automated change

---
 docs/modules/ROOT/pages/index.adoc | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/docs/modules/ROOT/pages/index.adoc b/docs/modules/ROOT/pages/index.adoc
index da23ccb8..736ae7fe 100644
--- a/docs/modules/ROOT/pages/index.adoc
+++ b/docs/modules/ROOT/pages/index.adoc
@@ -4,4 +4,4 @@ ifdef::env-github,env-browser,env-vscode[:imagesprefix: ../images/]
 = Benchmarking
 :page-layout: toolboxes
 :page-tags: catalog, catalog-index
-:docdatetime: 2024-12-09T10:48:30
\ No newline at end of file
+:docdatetime: 2024-12-10T11:52:09
\ No newline at end of file

From 63c85e25b5c4bc125064c4874c7b140020502997 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 11:56:03 +0100
Subject: [PATCH 48/56] bug fix [ci skip]

---
 src/feelpp/benchmarking/scripts/misc.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/feelpp/benchmarking/scripts/misc.py b/src/feelpp/benchmarking/scripts/misc.py
index 5f9ab4eb..3c9340d6 100644
--- a/src/feelpp/benchmarking/scripts/misc.py
+++ b/src/feelpp/benchmarking/scripts/misc.py
@@ -82,7 +82,7 @@ def upldateStageConfig_cli():
                     prod_path = prod_info["path"]
 
                     if stage_platform == "local":
-                        for report_item_basename in os.listdir(report_item_basename):
+                        for report_item_basename in os.listdir(stage_path):
                             girder_client.upload( os.path.join(stage_path,report_item_basename), prod_path, reuse_existing=False)
                         stage_cfg["execution_mapping"][app_name][machine_name][use_case_name]["path"] = prod_path
                         stage_cfg["execution_mapping"][app_name][machine_name][use_case_name]["platform"] = prod_platorm

From cacfba52b867711f3d2212f4aea41b7a8958eb56 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 12:29:50 +0100
Subject: [PATCH 49/56] factor girder ids #181

---
 .github/workflows/benchmark.yml        |  4 ++--
 .github/workflows/benchmark_deploy.yml | 22 ++++++++++------------
 .github/workflows/ci.yml               |  4 ++--
 configs_tmp/production_config.json     |  1 +
 configs_tmp/stage_config.json          |  1 +
 configs_tmp/website_config.json        |  1 +
 girder_deploy_config.sh                |  7 +++++++
 netlify-build.sh                       |  7 +++----
 8 files changed, 27 insertions(+), 20 deletions(-)
 create mode 100644 configs_tmp/production_config.json
 create mode 100644 configs_tmp/stage_config.json
 create mode 100644 configs_tmp/website_config.json
 create mode 100644 girder_deploy_config.sh

diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml
index b13b371e..2baee8dd 100644
--- a/.github/workflows/benchmark.yml
+++ b/.github/workflows/benchmark.yml
@@ -160,8 +160,8 @@ jobs:
         -   name: Upload to girder
             run: |
                 source .venv/bin/activate
-                girder_staging_id=6752b5194c9ccbdde21a48b8
-                girder-upload --item "./tmp/results/*" --girder_id $girder_staging_id
+                source ./girder_deploy_config.sh
+                girder-upload --item "./tmp/results/*" --girder_id $staging_folder_id
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}
         -   name: Update Index Date
diff --git a/.github/workflows/benchmark_deploy.yml b/.github/workflows/benchmark_deploy.yml
index 16a0cfaf..ac0bba79 100644
--- a/.github/workflows/benchmark_deploy.yml
+++ b/.github/workflows/benchmark_deploy.yml
@@ -44,15 +44,15 @@ jobs:
         -   name: Download stage reports
             run: |
                 source .venv/bin/activate
-                config_id=6752b5194c9ccbdde21a48b8
-                girder-download -gid $config_id -o ./tmp/ -d
+                source ./girder_deploy_config.sh
+                girder-download -gid $staging_folder_id -o ./tmp/ -d
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}
         -   name: Download Production config
             run: |
                 source .venv/bin/activate
-                config_id=6752f0734c9ccbdde21a48ca
-                girder-download -gid $config_id -o ./configs_tmp/ -fn production_config.json
+                source ./girder_deploy_config.sh
+                girder-download -gid $production_website_config_id -o ./configs_tmp/ -fn production_config.json
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}
         -   name: Merge stage configs
@@ -62,7 +62,7 @@ jobs:
         -   name: Update Stage Config
             run: |
                 source .venv/bin/activate
-                production_folder_id=6752efed4c9ccbdde21a48c7
+                source ./girder_deploy_config.sh
                 update-stage-config -stag ./configs_tmp/stage_config.json -prod ./configs_tmp/production_config.json -prodid $production_folder_id
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}
@@ -73,16 +73,15 @@ jobs:
         -   name: Upload New Website config
             run: |
                 source .venv/bin/activate
-                girder-upload --item ./configs_tmp/website_config.json --girder_id 6752efed4c9ccbdde21a48c7
+                girder-upload --item ./configs_tmp/website_config.json --girder_id $production_folder_id
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}
         -   name: Cleanup stage folder
             run: |
                 echo "Moving all folders from staging/ to merged/"
                 source .venv/bin/activate
-                staging_id=6752b5194c9ccbdde21a48b8
-                merged_id=67580d534c9ccbdde21a4a75
-                girder-move -oid $staging_id -nid $merged_id
+                source ./girder_deploy_config.sh
+                girder-move -oid $staging_folder_id -nid $accepted_folder_id
     denied:
         if: github.event.pull_request.merged == false && contains(github.event.pull_request.labels, 'new-benchmark')
         runs-on: self-ubuntu-22.04
@@ -103,6 +102,5 @@ jobs:
             run: |
                 echo "Moving all folders from staging/ to denied/"
                 source .venv/bin/activate
-                staging_id=6752b5194c9ccbdde21a48b8
-                denied_id=6752b66d4c9ccbdde21a48b9
-                girder-move -oid $staging_id -nid $denied_id
\ No newline at end of file
+                source ./girder_deploy_config.sh
+                girder-move -oid $staging_folder_id -nid $denied_folder_id
\ No newline at end of file
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 9bb8f4f1..139de6fa 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -102,8 +102,8 @@ jobs:
     - name: Download website config
       run: |
         source .venv/bin/activate
-        config_id=6752f0734c9ccbdde21a48ca
-        girder-download --girder_id=$config_id --output_dir=./tmp/ --filename=website_config.json
+        source ./girder_deploy_config.sh
+        girder-download --girder_id=$production_website_config_id --output_dir=./tmp/ --filename=website_config.json
       env:
         GIRDER_API_KEY: ${{secrets.GIRDER}}
     - name: Render reports
diff --git a/configs_tmp/production_config.json b/configs_tmp/production_config.json
new file mode 100644
index 00000000..845e7fde
--- /dev/null
+++ b/configs_tmp/production_config.json
@@ -0,0 +1 @@
+{"execution_mapping": {"feelpp_toolbox_heat": {"gaya": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49a0"}, "thermal_bridges_case_2": {"platform": "girder", "path": "673da5c0b0e95728eb010c1b"}, "thermal_bridges_case_3": {"platform": "girder", "path": "673da5c7b0e95728eb010c1c"}}, "discoverer": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49ab"}}}, "feelpp_toolbox_thermoelectric": {"gaya": {"HL_31": {"platform": "girder", "path": "673da5e2b0e95728eb010c1e"}}}, "feelpp_toolbox_heatfluid": {"gaya": {"eye": {"platform": "girder", "path": "673da5d4b0e95728eb010c1d"}}}, "feelpp_kub_cem": {"gaya": {"poznan": {"platform": "girder", "path": "673da5a6b0e95728eb010c1a"}}}}, "machines": {"gaya": {"display_name": "Gaya", "description": "Strasbourg, France"}, "discoverer": {"display_name": "Discoverer", "description": "Sofia, Bulgaria"}, "meluxina": {"display_name": "MeluXina", "description": "Bissen, Luxembourg"}, "lumi": {"display_name": "Lumi", "description": "Kajaani, Finland"}, "karolina": {"display_name": "Karolina", "description": "Ostrava, Czech Republic"}}, "use_cases": {"ThermalBridgesENISO10211": {"display_name": "ThermalBridgesENISO10211", "description": ""}, "busbar2d": {"display_name": "Busbar 2D", "description": "Busbar 2D simulation"}, "busbar3d": {"display_name": "Busbar 3D", "description": "Busbar 3D simulation"}, "thermal_bridges_case_1": {"display_name": "Thermal Bridges Case 1", "description": "Thermal bridges case 1 simulation"}, "thermal_bridges_case_2": {"display_name": "Thermal Bridges Case 2", "description": "Thermal bridges case 2 simulation"}, "thermal_bridges_case_3": {"display_name": "Thermal Bridges Case 3", "description": "Thermal bridges case 3 simulation"}, "thermal_bridges_case_4": {"display_name": "Thermal Bridges Case 4", "description": "Thermal bridges case 4 simulation"}, "laminar2d": {"display_name": "Laminar 2D", "description": "Laminar 2D simulation"}, "laminar3d": {"display_name": "Laminar 3D", "description": "Laminar 3D simulation"}, "quarter_turn_3d": {"display_name": "Quarter Turn 3D", "description": "Quarter Turn 3D simulation"}, "HL_31": {"display_name": "HL-31", "description": "HL-31"}, "poznan": {"display_name": "Poznan", "description": "Poznan, Poland"}, "eye": {"display_name": "Eye", "description": "steady aqueous humor (AH) flow in the posterior and anterior chambers of the human eyeball, coupled with the overall heat transfer"}, "default": {"display_name": "Default", "description": "Unkown test case"}}, "applications": {"feelpp_toolbox_heat": {"display_name": "Feel++ heat toolbox", "description": "Feel++ heat toolbox", "main_variables": ["Solve_solve", "PostProcessing_exportResults", "Constructor_init"]}, "feelpp_toolbox_electric": {"display_name": "Feel++ electric toolbox", "description": "Feel++ electric toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_toolbox_heatfluid": {"display_name": "Feel++ Heat Fluid toolbox", "description": "Feel++ Heat Fluid toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_toolbox_thermoelectric": {"display_name": "Feel++ Thermo-electric toolbox", "description": "Feel++ Thermo-electric toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_kub_cem": {"display_name": "KUB", "description": "Ktirio Urban Buildings", "main_variables": ["constructor", "updateForUse", "execute", "simulate", "postprocess"]}}}
\ No newline at end of file
diff --git a/configs_tmp/stage_config.json b/configs_tmp/stage_config.json
new file mode 100644
index 00000000..be1d113a
--- /dev/null
+++ b/configs_tmp/stage_config.json
@@ -0,0 +1 @@
+{"execution_mapping": {"feelpp_toolbox_heat": {"gaya": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49a0"}}}}, "machines": {"gaya": {"display_name": "gaya", "description": ""}}, "use_cases": {"ThermalBridgesENISO10211": {"display_name": "ThermalBridgesENISO10211", "description": ""}}, "applications": {"feelpp_toolbox_heat": {"display_name": "feelpp_toolbox_heat", "description": "", "main_variables": []}}}
\ No newline at end of file
diff --git a/configs_tmp/website_config.json b/configs_tmp/website_config.json
new file mode 100644
index 00000000..24bee281
--- /dev/null
+++ b/configs_tmp/website_config.json
@@ -0,0 +1 @@
+{"execution_mapping": {"feelpp_toolbox_heat": {"gaya": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49a0"}, "thermal_bridges_case_2": {"platform": "girder", "path": "673da5c0b0e95728eb010c1b"}, "thermal_bridges_case_3": {"platform": "girder", "path": "673da5c7b0e95728eb010c1c"}}, "discoverer": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49ab"}}}, "feelpp_toolbox_thermoelectric": {"gaya": {"HL_31": {"platform": "girder", "path": "673da5e2b0e95728eb010c1e"}}}, "feelpp_toolbox_heatfluid": {"gaya": {"eye": {"platform": "girder", "path": "673da5d4b0e95728eb010c1d"}}}, "feelpp_kub_cem": {"gaya": {"poznan": {"platform": "girder", "path": "673da5a6b0e95728eb010c1a"}}}}, "machines": {"gaya": {"display_name": "Gaya", "description": "Strasbourg, France"}, "discoverer": {"display_name": "Discoverer", "description": "Sofia, Bulgaria"}, "meluxina": {"display_name": "MeluXina", "description": "Bissen, Luxembourg"}, "lumi": {"display_name": "Lumi", "description": "Kajaani, Finland"}, "karolina": {"display_name": "Karolina", "description": "Ostrava, Czech Republic"}}, "use_cases": {"ThermalBridgesENISO10211": {"display_name": "ThermalBridgesENISO10211", "description": ""}, "busbar2d": {"display_name": "Busbar 2D", "description": "Busbar 2D simulation"}, "busbar3d": {"display_name": "Busbar 3D", "description": "Busbar 3D simulation"}, "thermal_bridges_case_1": {"display_name": "Thermal Bridges Case 1", "description": "Thermal bridges case 1 simulation"}, "thermal_bridges_case_2": {"display_name": "Thermal Bridges Case 2", "description": "Thermal bridges case 2 simulation"}, "thermal_bridges_case_3": {"display_name": "Thermal Bridges Case 3", "description": "Thermal bridges case 3 simulation"}, "thermal_bridges_case_4": {"display_name": "Thermal Bridges Case 4", "description": "Thermal bridges case 4 simulation"}, "laminar2d": {"display_name": "Laminar 2D", "description": "Laminar 2D simulation"}, "laminar3d": {"display_name": "Laminar 3D", "description": "Laminar 3D simulation"}, "quarter_turn_3d": {"display_name": "Quarter Turn 3D", "description": "Quarter Turn 3D simulation"}, "HL_31": {"display_name": "HL-31", "description": "HL-31"}, "poznan": {"display_name": "Poznan", "description": "Poznan, Poland"}, "eye": {"display_name": "Eye", "description": "steady aqueous humor (AH) flow in the posterior and anterior chambers of the human eyeball, coupled with the overall heat transfer"}, "default": {"display_name": "Default", "description": "Unkown test case"}}, "applications": {"feelpp_toolbox_heat": {"display_name": "Feel++ heat toolbox", "description": "Feel++ heat toolbox", "main_variables": ["Solve_solve", "Constructor_init", "PostProcessing_exportResults"]}, "feelpp_toolbox_electric": {"display_name": "Feel++ electric toolbox", "description": "Feel++ electric toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_toolbox_heatfluid": {"display_name": "Feel++ Heat Fluid toolbox", "description": "Feel++ Heat Fluid toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_toolbox_thermoelectric": {"display_name": "Feel++ Thermo-electric toolbox", "description": "Feel++ Thermo-electric toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_kub_cem": {"display_name": "KUB", "description": "Ktirio Urban Buildings", "main_variables": ["constructor", "updateForUse", "execute", "simulate", "postprocess"]}}}
\ No newline at end of file
diff --git a/girder_deploy_config.sh b/girder_deploy_config.sh
new file mode 100644
index 00000000..7ba9f78e
--- /dev/null
+++ b/girder_deploy_config.sh
@@ -0,0 +1,7 @@
+#!/bin/bash
+
+production_website_config_id=6752f0734c9ccbdde21a48ca
+staging_folder_id=6752b5194c9ccbdde21a48b8
+production_folder_id=6752efed4c9ccbdde21a48c7
+accepted_folder_id=67580d534c9ccbdde21a4a75
+denied_folder_id=6752b66d4c9ccbdde21a48b9
\ No newline at end of file
diff --git a/netlify-build.sh b/netlify-build.sh
index 4b6bff38..ffd2b5a6 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -8,15 +8,14 @@ pip3 install -r requirements.txt
 pip3 wheel --no-deps --wheel-dir dist .
 pip3 install dist/*.whl
 npm i
+source ./girder_deploy_config.sh
 if [[ $HEAD == *"new-benchmark"* ]]; then
     echo "Downloading Staging benchmarks"
-    config_id=6752b5194c9ccbdde21a48b8
-    girder-download -gid $config_id -o ./tmp/ -d
+    girder-download -gid $staging_folder_id -o ./tmp/ -d
     merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u
 else
     echo "Downloading Production benchmarks"
-    config_id=6752f0734c9ccbdde21a48ca
-    girder-download -gid $config_id -o ./tmp/ -fn website_config.json
+    girder-download -gid $production_website_config_id -o ./tmp/ -fn website_config.json
 fi
 render-benchmarks --config_file=./tmp/website_config.json
 npx antora --stacktrace generate --cache-dir cache --clean --html-url-extension-style=indexify site.yml

From 306908e059777c98ad6283ddbe0520827fb87101 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 12:33:31 +0100
Subject: [PATCH 50/56] fix sourced var [ci skip]

---
 .github/workflows/benchmark_deploy.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/.github/workflows/benchmark_deploy.yml b/.github/workflows/benchmark_deploy.yml
index ac0bba79..624d74e7 100644
--- a/.github/workflows/benchmark_deploy.yml
+++ b/.github/workflows/benchmark_deploy.yml
@@ -73,6 +73,7 @@ jobs:
         -   name: Upload New Website config
             run: |
                 source .venv/bin/activate
+                source ./girder_deploy_config.sh
                 girder-upload --item ./configs_tmp/website_config.json --girder_id $production_folder_id
             env:
                 GIRDER_API_KEY: ${{ secrets.GIRDER }}

From 3b62c8a55fbe4b5f2dbfc9b6044074dd70a726a2 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Tue, 10 Dec 2024 12:59:52 +0100
Subject: [PATCH 51/56] rm tmp files from git tree... #181 [ci skip] (Oopsie)

---
 configs_tmp/production_config.json | 1 -
 configs_tmp/stage_config.json      | 1 -
 configs_tmp/website_config.json    | 1 -
 3 files changed, 3 deletions(-)
 delete mode 100644 configs_tmp/production_config.json
 delete mode 100644 configs_tmp/stage_config.json
 delete mode 100644 configs_tmp/website_config.json

diff --git a/configs_tmp/production_config.json b/configs_tmp/production_config.json
deleted file mode 100644
index 845e7fde..00000000
--- a/configs_tmp/production_config.json
+++ /dev/null
@@ -1 +0,0 @@
-{"execution_mapping": {"feelpp_toolbox_heat": {"gaya": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49a0"}, "thermal_bridges_case_2": {"platform": "girder", "path": "673da5c0b0e95728eb010c1b"}, "thermal_bridges_case_3": {"platform": "girder", "path": "673da5c7b0e95728eb010c1c"}}, "discoverer": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49ab"}}}, "feelpp_toolbox_thermoelectric": {"gaya": {"HL_31": {"platform": "girder", "path": "673da5e2b0e95728eb010c1e"}}}, "feelpp_toolbox_heatfluid": {"gaya": {"eye": {"platform": "girder", "path": "673da5d4b0e95728eb010c1d"}}}, "feelpp_kub_cem": {"gaya": {"poznan": {"platform": "girder", "path": "673da5a6b0e95728eb010c1a"}}}}, "machines": {"gaya": {"display_name": "Gaya", "description": "Strasbourg, France"}, "discoverer": {"display_name": "Discoverer", "description": "Sofia, Bulgaria"}, "meluxina": {"display_name": "MeluXina", "description": "Bissen, Luxembourg"}, "lumi": {"display_name": "Lumi", "description": "Kajaani, Finland"}, "karolina": {"display_name": "Karolina", "description": "Ostrava, Czech Republic"}}, "use_cases": {"ThermalBridgesENISO10211": {"display_name": "ThermalBridgesENISO10211", "description": ""}, "busbar2d": {"display_name": "Busbar 2D", "description": "Busbar 2D simulation"}, "busbar3d": {"display_name": "Busbar 3D", "description": "Busbar 3D simulation"}, "thermal_bridges_case_1": {"display_name": "Thermal Bridges Case 1", "description": "Thermal bridges case 1 simulation"}, "thermal_bridges_case_2": {"display_name": "Thermal Bridges Case 2", "description": "Thermal bridges case 2 simulation"}, "thermal_bridges_case_3": {"display_name": "Thermal Bridges Case 3", "description": "Thermal bridges case 3 simulation"}, "thermal_bridges_case_4": {"display_name": "Thermal Bridges Case 4", "description": "Thermal bridges case 4 simulation"}, "laminar2d": {"display_name": "Laminar 2D", "description": "Laminar 2D simulation"}, "laminar3d": {"display_name": "Laminar 3D", "description": "Laminar 3D simulation"}, "quarter_turn_3d": {"display_name": "Quarter Turn 3D", "description": "Quarter Turn 3D simulation"}, "HL_31": {"display_name": "HL-31", "description": "HL-31"}, "poznan": {"display_name": "Poznan", "description": "Poznan, Poland"}, "eye": {"display_name": "Eye", "description": "steady aqueous humor (AH) flow in the posterior and anterior chambers of the human eyeball, coupled with the overall heat transfer"}, "default": {"display_name": "Default", "description": "Unkown test case"}}, "applications": {"feelpp_toolbox_heat": {"display_name": "Feel++ heat toolbox", "description": "Feel++ heat toolbox", "main_variables": ["Solve_solve", "PostProcessing_exportResults", "Constructor_init"]}, "feelpp_toolbox_electric": {"display_name": "Feel++ electric toolbox", "description": "Feel++ electric toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_toolbox_heatfluid": {"display_name": "Feel++ Heat Fluid toolbox", "description": "Feel++ Heat Fluid toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_toolbox_thermoelectric": {"display_name": "Feel++ Thermo-electric toolbox", "description": "Feel++ Thermo-electric toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_kub_cem": {"display_name": "KUB", "description": "Ktirio Urban Buildings", "main_variables": ["constructor", "updateForUse", "execute", "simulate", "postprocess"]}}}
\ No newline at end of file
diff --git a/configs_tmp/stage_config.json b/configs_tmp/stage_config.json
deleted file mode 100644
index be1d113a..00000000
--- a/configs_tmp/stage_config.json
+++ /dev/null
@@ -1 +0,0 @@
-{"execution_mapping": {"feelpp_toolbox_heat": {"gaya": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49a0"}}}}, "machines": {"gaya": {"display_name": "gaya", "description": ""}}, "use_cases": {"ThermalBridgesENISO10211": {"display_name": "ThermalBridgesENISO10211", "description": ""}}, "applications": {"feelpp_toolbox_heat": {"display_name": "feelpp_toolbox_heat", "description": "", "main_variables": []}}}
\ No newline at end of file
diff --git a/configs_tmp/website_config.json b/configs_tmp/website_config.json
deleted file mode 100644
index 24bee281..00000000
--- a/configs_tmp/website_config.json
+++ /dev/null
@@ -1 +0,0 @@
-{"execution_mapping": {"feelpp_toolbox_heat": {"gaya": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49a0"}, "thermal_bridges_case_2": {"platform": "girder", "path": "673da5c0b0e95728eb010c1b"}, "thermal_bridges_case_3": {"platform": "girder", "path": "673da5c7b0e95728eb010c1c"}}, "discoverer": {"ThermalBridgesENISO10211": {"platform": "girder", "path": "675801b64c9ccbdde21a49ab"}}}, "feelpp_toolbox_thermoelectric": {"gaya": {"HL_31": {"platform": "girder", "path": "673da5e2b0e95728eb010c1e"}}}, "feelpp_toolbox_heatfluid": {"gaya": {"eye": {"platform": "girder", "path": "673da5d4b0e95728eb010c1d"}}}, "feelpp_kub_cem": {"gaya": {"poznan": {"platform": "girder", "path": "673da5a6b0e95728eb010c1a"}}}}, "machines": {"gaya": {"display_name": "Gaya", "description": "Strasbourg, France"}, "discoverer": {"display_name": "Discoverer", "description": "Sofia, Bulgaria"}, "meluxina": {"display_name": "MeluXina", "description": "Bissen, Luxembourg"}, "lumi": {"display_name": "Lumi", "description": "Kajaani, Finland"}, "karolina": {"display_name": "Karolina", "description": "Ostrava, Czech Republic"}}, "use_cases": {"ThermalBridgesENISO10211": {"display_name": "ThermalBridgesENISO10211", "description": ""}, "busbar2d": {"display_name": "Busbar 2D", "description": "Busbar 2D simulation"}, "busbar3d": {"display_name": "Busbar 3D", "description": "Busbar 3D simulation"}, "thermal_bridges_case_1": {"display_name": "Thermal Bridges Case 1", "description": "Thermal bridges case 1 simulation"}, "thermal_bridges_case_2": {"display_name": "Thermal Bridges Case 2", "description": "Thermal bridges case 2 simulation"}, "thermal_bridges_case_3": {"display_name": "Thermal Bridges Case 3", "description": "Thermal bridges case 3 simulation"}, "thermal_bridges_case_4": {"display_name": "Thermal Bridges Case 4", "description": "Thermal bridges case 4 simulation"}, "laminar2d": {"display_name": "Laminar 2D", "description": "Laminar 2D simulation"}, "laminar3d": {"display_name": "Laminar 3D", "description": "Laminar 3D simulation"}, "quarter_turn_3d": {"display_name": "Quarter Turn 3D", "description": "Quarter Turn 3D simulation"}, "HL_31": {"display_name": "HL-31", "description": "HL-31"}, "poznan": {"display_name": "Poznan", "description": "Poznan, Poland"}, "eye": {"display_name": "Eye", "description": "steady aqueous humor (AH) flow in the posterior and anterior chambers of the human eyeball, coupled with the overall heat transfer"}, "default": {"display_name": "Default", "description": "Unkown test case"}}, "applications": {"feelpp_toolbox_heat": {"display_name": "Feel++ heat toolbox", "description": "Feel++ heat toolbox", "main_variables": ["Solve_solve", "Constructor_init", "PostProcessing_exportResults"]}, "feelpp_toolbox_electric": {"display_name": "Feel++ electric toolbox", "description": "Feel++ electric toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_toolbox_heatfluid": {"display_name": "Feel++ Heat Fluid toolbox", "description": "Feel++ Heat Fluid toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_toolbox_thermoelectric": {"display_name": "Feel++ Thermo-electric toolbox", "description": "Feel++ Thermo-electric toolbox", "main_variables": ["Constructor_init", "PostProcessing_exportResults", "Solve_solve"]}, "feelpp_kub_cem": {"display_name": "KUB", "description": "Ktirio Urban Buildings", "main_variables": ["constructor", "updateForUse", "execute", "simulate", "postprocess"]}}}
\ No newline at end of file

From 80bc4a62ec18cb26d4f3d76f9922d083f97ed968 Mon Sep 17 00:00:00 2001
From: JavierCladellas <82624449+JavierCladellas@users.noreply.github.com>
Date: Thu, 12 Dec 2024 09:10:55 +0100
Subject: [PATCH 52/56] [create-pull-request] automated change

---
 docs/modules/ROOT/pages/index.adoc | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/docs/modules/ROOT/pages/index.adoc b/docs/modules/ROOT/pages/index.adoc
index 736ae7fe..dbef1161 100644
--- a/docs/modules/ROOT/pages/index.adoc
+++ b/docs/modules/ROOT/pages/index.adoc
@@ -4,4 +4,4 @@ ifdef::env-github,env-browser,env-vscode[:imagesprefix: ../images/]
 = Benchmarking
 :page-layout: toolboxes
 :page-tags: catalog, catalog-index
-:docdatetime: 2024-12-10T11:52:09
\ No newline at end of file
+:docdatetime: 2024-12-12T09:10:54
\ No newline at end of file

From 7b71257d11c0bee468af9a706d81706f03600f1f Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Thu, 12 Dec 2024 10:39:07 +0100
Subject: [PATCH 53/56] trigger netlify


From d61ca70423368bb5a7c49ab850ddc6769bb66efd Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Thu, 12 Dec 2024 10:46:02 +0100
Subject: [PATCH 54/56] fix merge-json-config args #181

---
 .github/workflows/benchmark_deploy.yml | 4 ++--
 netlify-build.sh                       | 2 +-
 2 files changed, 3 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/benchmark_deploy.yml b/.github/workflows/benchmark_deploy.yml
index 624d74e7..67f0f193 100644
--- a/.github/workflows/benchmark_deploy.yml
+++ b/.github/workflows/benchmark_deploy.yml
@@ -58,7 +58,7 @@ jobs:
         -   name: Merge stage configs
             run: |
                 source .venv/bin/activate
-                merge-json-configs -fp ./tmp/**/website_config.json -o ./configs_tmp/stage_config.json -u
+                merge-json-configs -fp "./tmp/**/website_config.json" -o ./configs_tmp/stage_config.json -u
         -   name: Update Stage Config
             run: |
                 source .venv/bin/activate
@@ -69,7 +69,7 @@ jobs:
         -   name: Merge stage and prod configs
             run: |
                 source .venv/bin/activate
-                merge-json-configs -fp ./configs_tmp/**/*.json -o ./configs_tmp/website_config.json
+                merge-json-configs -fp "./configs_tmp/**/*.json" -o ./configs_tmp/website_config.json
         -   name: Upload New Website config
             run: |
                 source .venv/bin/activate
diff --git a/netlify-build.sh b/netlify-build.sh
index ffd2b5a6..245f45fa 100755
--- a/netlify-build.sh
+++ b/netlify-build.sh
@@ -12,7 +12,7 @@ source ./girder_deploy_config.sh
 if [[ $HEAD == *"new-benchmark"* ]]; then
     echo "Downloading Staging benchmarks"
     girder-download -gid $staging_folder_id -o ./tmp/ -d
-    merge-json-configs -fp ./tmp/**/website_config.json -o ./tmp/website_config.json -u
+    merge-json-configs -fp "./tmp/**/website_config.json" -o ./tmp/website_config.json -u
 else
     echo "Downloading Production benchmarks"
     girder-download -gid $production_website_config_id -o ./tmp/ -fn website_config.json

From 0e91697b3876c553363beb0901b28e6bdf8caa66 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Thu, 12 Dec 2024 10:59:52 +0100
Subject: [PATCH 55/56] try fix label recognition [ci skip]

---
 .github/workflows/benchmark_deploy.yml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/benchmark_deploy.yml b/.github/workflows/benchmark_deploy.yml
index 67f0f193..1579f68c 100644
--- a/.github/workflows/benchmark_deploy.yml
+++ b/.github/workflows/benchmark_deploy.yml
@@ -8,7 +8,7 @@ jobs:
     build_wheel:
         runs-on: self-ubuntu-22.04
         name: Build wheel package
-        if: contains(github.event.pull_request.labels, 'new-benchmark')
+        if: contains(github.event.pull_request.labels.*.name, 'new-benchmark')
         steps:
         -   uses: actions/checkout@v4
         -   name: Build wheel
@@ -25,7 +25,7 @@ jobs:
                 path: dist/*.whl
 
     accepted:
-        if: github.event.pull_request.merged == true && contains(github.event.pull_request.labels, 'new-benchmark')
+        if: github.event.pull_request.merged == true && contains(github.event.pull_request.labels.*.name, 'new-benchmark')
         runs-on: self-ubuntu-22.04
         name: Move to production
         needs: build_wheel
@@ -84,7 +84,7 @@ jobs:
                 source ./girder_deploy_config.sh
                 girder-move -oid $staging_folder_id -nid $accepted_folder_id
     denied:
-        if: github.event.pull_request.merged == false && contains(github.event.pull_request.labels, 'new-benchmark')
+        if: github.event.pull_request.merged == false && contains(github.event.pull_request.labels.*.name, 'new-benchmark')
         runs-on: self-ubuntu-22.04
         name: Move to denied
         needs: build_wheel

From 9b82dc2c4efdcddefaf2eb296c7b3e70e18b1f35 Mon Sep 17 00:00:00 2001
From: Javier Cladellas <javiercladellas@gmail.com>
Date: Thu, 12 Dec 2024 11:22:27 +0100
Subject: [PATCH 56/56] forgot girder api key #181 :p [ci skip]

---
 .github/workflows/benchmark_deploy.yml | 6 +++++-
 1 file changed, 5 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/benchmark_deploy.yml b/.github/workflows/benchmark_deploy.yml
index 1579f68c..7e7cd6f4 100644
--- a/.github/workflows/benchmark_deploy.yml
+++ b/.github/workflows/benchmark_deploy.yml
@@ -83,6 +83,8 @@ jobs:
                 source .venv/bin/activate
                 source ./girder_deploy_config.sh
                 girder-move -oid $staging_folder_id -nid $accepted_folder_id
+            env:
+                GIRDER_API_KEY: ${{ secrets.GIRDER }}
     denied:
         if: github.event.pull_request.merged == false && contains(github.event.pull_request.labels.*.name, 'new-benchmark')
         runs-on: self-ubuntu-22.04
@@ -104,4 +106,6 @@ jobs:
                 echo "Moving all folders from staging/ to denied/"
                 source .venv/bin/activate
                 source ./girder_deploy_config.sh
-                girder-move -oid $staging_folder_id -nid $denied_folder_id
\ No newline at end of file
+                girder-move -oid $staging_folder_id -nid $denied_folder_id
+            env:
+                GIRDER_API_KEY: ${{ secrets.GIRDER }}
\ No newline at end of file