Automate FLoRA citation update from FReD-data

.github/workflows/data-processing.yml

@@ -474,6 +474,12 @@ jobs:
             mkdir -p /tmp/generated-resources/static/data
             cp static/data/fred_citation.txt /tmp/generated-resources/static/data/fred_citation.txt
           fi
+
+          # Copy updated FLoRA index if it exists
+          if [ -f content/replication-hub/flora/_index.md ]; then
+            mkdir -p /tmp/generated-resources/flora
+            cp content/replication-hub/flora/_index.md /tmp/generated-resources/flora/_index.md
+          fi
 
           # Copy additional generated files
           mkdir -p /tmp/generated-resources/contributor-analysis
@@ -506,7 +512,7 @@ jobs:
           pushd "$WORKTREE_DIR"
 
           # Ensure target directories exist
-          mkdir -p content/curated_resources content/contributors data content/contributor-analysis content/publications static/data
+          mkdir -p content/curated_resources content/contributors data content/contributor-analysis content/publications static/data content/replication-hub/flora
 
           # Remove old generated resource files (but keep _index.md)
           find content/curated_resources -type f ! -name '_index.md' -delete 2>/dev/null || true
@@ -525,6 +531,9 @@ jobs:
           if [ -f /tmp/generated-resources/static/data/fred_citation.txt ]; then
             cp /tmp/generated-resources/static/data/fred_citation.txt static/data/fred_citation.txt
           fi
+          if [ -f /tmp/generated-resources/flora/_index.md ]; then
+            cp /tmp/generated-resources/flora/_index.md content/replication-hub/flora/_index.md
+          fi
           if [ -f /tmp/generated-resources/summaries.json ]; then
             cp /tmp/generated-resources/summaries.json data/summaries.json
           fi
@@ -559,6 +568,7 @@ jobs:
             git add scripts/forrt_contribs/contributors_cache.csv 2>/dev/null || true
             git add data/ga_data.json 2>/dev/null || true
             git add static/data/fred_citation.txt 2>/dev/null || true
+            git add content/replication-hub/flora/_index.md 2>/dev/null || true
             git add data/summaries.json 2>/dev/null || true
             git add content/contributor-analysis/ 2>/dev/null || true
             git add content/publications/citation_chart.webp 2>/dev/null || true

content/replication-hub/flora/_index.md

@@ -0,0 +1,26 @@
+---
+title: "FORRT Library of Reproduction and Replication Attempts"
+url: "/replication-hub/flora/"
+date: 2026-02-26
+aliases:
+  - /flora/
+---
+
+The aim of the FORRT Library of Reproduction and Replication Attempts (FLoRA) is to track all attempts to repeatedly test published findings across the sciences and humanities. In contrast to the FORRT Replication Database (FReD), FLoRA does not contain statistical data. This allows FLoRA to include references from any field of research, and to be maintained with limited resources.
+
+# Structure of FLoRA
+
+1.  Link repetition (replication/reproduction) references to original references
+
+2.  Provide a standardized outcome (e.g., success, failure) based on the repetition report
+
+With this simple structure FLoRA allows for tracking of replication rates across time, disciplines, academic journals, and more. FLoRA is used for a wide range of existing projects, such as the [FLoRA Annotator](https://forrt.org/apps/fred_annotator.html), a tool that lists replication and reproduction attempts for the reference that you provide it with.
+
+In FLoRA, years of work from a large community of volunteers culminate. If you would like to contribute to the project or use the data for your own research, we would strongly appreciate you reaching out to us.
+
+::: {.callout-note icon="false"}
+## How to cite:
+
+{{flora-ref}}
+
+:::

scripts/update_fred_citation.py

@@ -24,6 +24,8 @@
 # Constants
 CITATION_URL = "https://raw.githubusercontent.com/forrtproject/FReD-data/refs/heads/main/output/citation.txt"
 OUTPUT_FILE = "static/data/fred_citation.txt"
+FLORA_INDEX_FILE = "content/replication-hub/flora/_index.md"
+FLORA_PLACEHOLDER = "{{flora-ref}}"
 
 def fetch_fred_citation():
     """
@@ -90,21 +92,69 @@ def repl(match):
         logger.error(f"Failed to save citation: {e}")
         return False
 
+def update_flora_index(citation_html):
+    """
+    Replace the {{flora-ref}} placeholder in the FLoRA _index.md with the citation HTML.
+
+    Args:
+        citation_html: The processed citation HTML string (same as saved to fred_citation.txt)
+
+    Returns:
+        bool: True if successful or placeholder not present, False on error
+    """
+    try:
+        index_file = Path(FLORA_INDEX_FILE)
+        if not index_file.exists():
+            logger.warning(f"FLoRA index file not found: {FLORA_INDEX_FILE}")
+            return False
+
+        content = index_file.read_text(encoding='utf-8')
+        if FLORA_PLACEHOLDER not in content:
+            logger.info("No {{flora-ref}} placeholder found in FLoRA index, skipping")
+            return True
+
+        updated = content.replace(FLORA_PLACEHOLDER, citation_html.strip())
+        index_file.write_text(updated, encoding='utf-8')
+        logger.info(f"Successfully updated {FLORA_INDEX_FILE}")
+        return True
+    except Exception as e:
+        logger.error(f"Failed to update FLoRA index: {e}")
+        return False
+
+
 def main():
     """Main function to fetch and save the FReD citation."""
     logger.info("Starting FReD citation update")
-    
+
     # Fetch citation
     citation = fetch_fred_citation()
     if not citation:
         logger.error("Failed to fetch citation, exiting")
         return 1
-    
-    # Save citation
+
+    # Save citation to static data file
     if not save_citation(citation, OUTPUT_FILE):
         logger.error("Failed to save citation, exiting")
         return 1
-
+
+    # Build the HTML-formatted citation string (same logic as save_citation)
+    import re
+    citation_stripped = citation.strip()
+    note = "* These authors contributed equally to this work."
+    citation_main = citation_stripped
+    if note in citation_stripped:
+        citation_main = citation_stripped.split(note)[0].strip()
+    doi_pattern = r'(https://doi\.org/[\w\./-]+)'
+    def repl(match):
+        url = match.group(1)
+        return f'<a href="{url}">{url}</a>'
+    citation_html = re.sub(doi_pattern, repl, citation_main) + "\n\n" + note
+
+    # Replace placeholder in FLoRA _index.md
+    if not update_flora_index(citation_html):
+        logger.error("Failed to update FLoRA index, exiting")
+        return 1
+
     logger.info("FReD citation update completed successfully")
     return 0