.gitignore

@@ -6,7 +6,6 @@ files/lost.json
 files/locked.json
 files/ufora_notifications.json
 files/compbio_benchmarks_2.json
-files/compbio_benchmarks_4.json
 .idea/
 __pycache__
 .env

cogs/help.py

@@ -50,16 +50,7 @@ class HelpCommand(commands.MinimalHelpCommand):
             return await self.send_bot_help(self.get_bot_mapping())
 
         # Turn dic to lowercase to allow proper name searching
-        all_commands = {}
-
-        for k, v in bot.all_commands.items():
-            if k is None or v is None:
-                continue
-
-            if isinstance(v, SlashCommand):
-                continue
-
-            all_commands[k.lower()] = v
+        all_commands = dict((k.lower(), v) for k, v in bot.all_commands.items() if not isinstance(v, SlashCommand))
 
         if spl[0].lower() not in all_commands:
             return await self.send_error_message(await self.command_not_found(spl[0]))

cogs/slash/school_slash.py

@@ -91,10 +91,9 @@ class SchoolSlash(commands.Cog):
 
     @_compbio_group.command(name="leaderboard", description="Gesorteerd en ingevuld leaderboard")
     async def _compbio_lb_slash(self, ctx: ApplicationContext,
-                                benchmark: Option(str, "De specifieke benchmark om op te halen (default 10000-10)", choices=["100-10", "100-100", "1000-100", "10000-10"], default="10000-10")):
+                                benchmark: Option(int, "De specifieke benchmark om op te halen (default k=600)", choices=[6, 10, 50, 600], default=600)):
         await ctx.response.defer()
-        size, amount = benchmark.split("-")
-        lb = leaderboards.CompbioLeaderboard(ctx, size=size, amount=amount)
+        lb = leaderboards.CompbioLeaderboard(ctx, kmer=benchmark)
         await lb.respond()
 
     @_compbio_group.command(name="submit", description="Link een Dodona-submission aan jouw username")
@@ -102,7 +101,7 @@ class SchoolSlash(commands.Cog):
                                     submission: Option(int, description="Id van je Dodona indiening.", required=True)):
         await ctx.response.defer(ephemeral=True)
 
-        with open("files/compbio_benchmarks_4.json", "r") as fp:
+        with open("files/compbio_benchmarks_2.json", "r") as fp:
             file = json.load(fp)
 
         submission = str(submission)
@@ -110,7 +109,7 @@ class SchoolSlash(commands.Cog):
         if submission in file:
             return await ctx.send_followup("❌ Deze submission is al aan iemand gelinkt.")
 
-        with open("files/compbio_benchmarks_4.json", "w") as fp:
+        with open("files/compbio_benchmarks_2.json", "w") as fp:
             file[submission] = ctx.user.id
             json.dump(file, fp)
 

data/menus/leaderboards.py

@@ -123,17 +123,16 @@ class BitcoinLeaderboard(Leaderboard):
 @dataclass
 class CompbioLeaderboard(Leaderboard):
     colour: discord.Colour = field(default=discord.Colour.green())
-    title: str = field(default="Leaderboard Computationele Biologie #4")
+    title: str = field(default="Leaderboard Computationele Biologie #2")
     reverse: bool = False
-    size: int = 10000
-    amount: int = 10
+    kmer: int = 600
 
     def __post_init__(self):
-        self.title += f" ({self.size}-{self.amount})"
+        self.title += f" (k = {self.kmer})"
         super().__post_init__()
 
     def get_submission_user(self, submission_id: str) -> str:
-        with open("files/compbio_benchmarks_4.json", "r") as fp:
+        with open("files/compbio_benchmarks_2.json", "r") as fp:
             file = json.load(fp)
 
         if submission_id in file:
@@ -143,7 +142,14 @@ class CompbioLeaderboard(Leaderboard):
         return f"[# {submission_id}]"
 
     def get_data(self) -> list[tuple]:
-        url = f"https://github.ugent.be/raw/computationele-biologie/benchmarks-2022/main/profile_hmm/size{self.size}-amount{self.amount}.md"
+        files = {
+            6: "J02459.1",
+            10: "J02459.1",
+            50: "J02459.1",
+            600: "AF033819.3"
+        }
+
+        url = f"https://github.ugent.be/raw/computationele-biologie/benchmarks-2022/main/reconstruction/{files[self.kmer]}.{self.kmer}mers.md"
         headers = {"Authorization": f"token {settings.UGENT_GH_TOKEN}"}
         result = requests.get(url, headers=headers).text