Add table with all tools

galaxyproject · Nov 2, 2023 · 2d8ad6e · 2d8ad6e
1 parent 205e641
commit 2d8ad6e
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Showing 5 changed files with 25,974 additions and 62 deletions.
diff --git a/bin/create_interactive_table.py b/bin/create_interactive_table.py
@@ -33,8 +33,10 @@ def generate_table(
     output_path: str,
 ) -> None:
     df = pd.read_csv(tsv_path, sep="\t").assign(Expand=lambda df: "").fillna("")
-    df["To keep"] = df["To keep"].replace("", True)
-    df = df.query("`To keep`").loc[:, COLUMNS].reindex(columns=COLUMNS)
+    if "To keep" in df.columns:
+        df["To keep"] = df["To keep"].replace("", True)
+        df = df.query("`To keep`")
+    df = df.loc[:, COLUMNS].reindex(columns=COLUMNS)
     table = df.to_html(border=0, table_id="dataframe", classes=["display", "nowrap"], index=False)
 
     with open(template_path) as template_file:

diff --git a/bin/extract_all_tools.sh b/bin/extract_all_tools.sh
@@ -5,4 +5,9 @@ mkdir -p 'results/'
 python bin/extract_galaxy_tools.py \
         extractools \
         --api $GITHUB_API_KEY \
-        --all_tools 'results/all_tools.tsv'
+        --all_tools 'results/all_tools.tsv'
+
+python bin/create_interactive_table.py \
+        --table "results/all_tools.tsv" \
+        --template "data/interactive_table_template.html" \
+        --output "results/index.html"
diff --git a/data/datatable_template.html b/data/datatable_template.html
diff --git a/data/interactive_table_template.html b/data/interactive_table_template.html
@@ -23,7 +23,7 @@
     background-color: #00FFFF;
     color: #000000;
     min-width: 400px;
-  }   
+  }
   </style>
 
 <script>