From 1204fe6e28e9e60e6b122282462029eef6f8e0c6 Mon Sep 17 00:00:00 2001
From: Remi PLANEL <rplanel@pasteur.fr>
Date: Thu, 28 Mar 2024 17:27:30 +0100
Subject: [PATCH] add command to modify markdown
---
.../df-wiki-cli/df_wiki_cli/content/main.py | 39 +++++++++++++++++++
1 file changed, 39 insertions(+)
diff --git a/packages/df-wiki-cli/df_wiki_cli/content/main.py b/packages/df-wiki-cli/df_wiki_cli/content/main.py
index ac707257..751e7d48 100644
--- a/packages/df-wiki-cli/df_wiki_cli/content/main.py
+++ b/packages/df-wiki-cli/df_wiki_cli/content/main.py
@@ -413,6 +413,45 @@ def refseq_type_count(
grouped_per_type.reset_index().to_csv(output, index=False)
+@app.command()
+def markdown(
+ dir: Annotated[
+ Path,
+ typer.Option(
+ exists=True,
+ file_okay=False,
+ writable=True,
+ readable=True,
+ resolve_path=True,
+ help="Dir where all systems article are",
+ ),
+ ],
+ # output: Annotated[
+ # Path,
+ # typer.Option(
+ # file_okay=True,
+ # dir_okay=False,
+ # writable=True,
+ # resolve_path=True,
+ # ),
+ # ],
+):
+
+ for file in dir.iterdir():
+ if file.suffix == ".md":
+
+ console.rule(f"[bold blue]{file.name}", style="blue")
+ with open(file, "r+") as f:
+ new_f = re.sub(
+ r"##\s+Structure\n.+##\s+Experimental\s+validation",
+ "## Structure\n\n::article-structure\n::\n\n## Experimental validation",
+ f.read(),
+ flags=re.DOTALL,
+ )
+ f.seek(0, 0)
+ f.write(new_f)
+
+
def remove_version(assembly):
return assembly.split(".")[0]
--
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