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Update compbio leaderboard to assignment 4

pull/136/head
stijndcl 2022-03-31 20:12:18 +02:00
parent b156f90ea0
commit 0151913e61
3 changed files with 10 additions and 14 deletions
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1
.gitignore vendored
View File

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

5
cogs/slash/school_slash.py
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@ -91,9 +91,10 @@ class SchoolSlash(commands.Cog):
@_compbio_group.command(name="leaderboard", description="Gesorteerd en ingevuld leaderboard") @_compbio_group.command(name="leaderboard", description="Gesorteerd en ingevuld leaderboard")
async def _compbio_lb_slash(self, ctx: ApplicationContext, async def _compbio_lb_slash(self, ctx: ApplicationContext,
benchmark: Option(int, "De specifieke benchmark om op te halen (default k=600)", choices=[6, 10, 50, 600], default=600)): 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")):
await ctx.response.defer() await ctx.response.defer()
lb = leaderboards.CompbioLeaderboard(ctx, kmer=benchmark) size, amount = benchmark.split("-")
lb = leaderboards.CompbioLeaderboard(ctx, size=size, amount=amount)
await lb.respond() await lb.respond()
@_compbio_group.command(name="submit", description="Link een Dodona-submission aan jouw username") @_compbio_group.command(name="submit", description="Link een Dodona-submission aan jouw username")

18
data/menus/leaderboards.py
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@ -123,16 +123,17 @@ class BitcoinLeaderboard(Leaderboard):
@dataclass @dataclass
class CompbioLeaderboard(Leaderboard): class CompbioLeaderboard(Leaderboard):
colour: discord.Colour = field(default=discord.Colour.green()) colour: discord.Colour = field(default=discord.Colour.green())
title: str = field(default="Leaderboard Computationele Biologie #2") title: str = field(default="Leaderboard Computationele Biologie #4")
reverse: bool = False reverse: bool = False
kmer: int = 600 size: int = 10000
amount: int = 10
def __post_init__(self): def __post_init__(self):
self.title += f" (k = {self.kmer})" self.title += f" ({self.size}-{self.amount})"
super().__post_init__() super().__post_init__()
def get_submission_user(self, submission_id: str) -> str: def get_submission_user(self, submission_id: str) -> str:
with open("files/compbio_benchmarks_2.json", "r") as fp: with open("files/compbio_benchmarks_4.json", "r") as fp:
file = json.load(fp) file = json.load(fp)
if submission_id in file: if submission_id in file:
@ -142,14 +143,7 @@ class CompbioLeaderboard(Leaderboard):
return f"[# {submission_id}]" return f"[# {submission_id}]"
def get_data(self) -> list[tuple]: def get_data(self) -> list[tuple]:
files = { url = f"https://github.ugent.be/raw/computationele-biologie/benchmarks-2022/tree/main/profile_hmm/size{self.size}-amount{self.amount}.md"
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}"} headers = {"Authorization": f"token {settings.UGENT_GH_TOKEN}"}
result = requests.get(url, headers=headers).text result = requests.get(url, headers=headers).text