chore(lint): improve code formatting and readability across multiple …

…files

pysus/ftp/__init__.py

@@ -22,11 +22,10 @@
 import humanize
 from aioftp import Client
 from loguru import logger
+from pysus.data.local import Data
 from tqdm import tqdm
 from typing_extensions import Self
 
-from pysus.data.local import Data
-
 # Type aliases
 PathLike = Union[str, pathlib.Path]
 FileContent = Dict[str, Union["Directory", "File"]]
@@ -400,13 +399,17 @@ def load_directory_content(path: str) -> FileContent:
         def line_parser(line: str):
             if "<DIR>" in line:
                 date, time, _, name = line.strip().split(maxsplit=3)
-                modify = datetime.strptime(f"{date} {time}", "%m-%d-%y %I:%M%p")
+                modify = datetime.strptime(
+                    f"{date} {time}", "%m-%d-%y %I:%M%p"
+                )
                 info = {"size": 0, "type": "dir", "modify": modify}
                 xpath = f"{path}/{name}"
                 content[name] = Directory(xpath)
             else:
                 date, time, size, name = line.strip().split(maxsplit=3)
-                modify = datetime.strptime(f"{date} {time}", "%m-%d-%y %I:%M%p")
+                modify = datetime.strptime(
+                    f"{date} {time}", "%m-%d-%y %I:%M%p"
+                )
                 info: FileInfo = {
                     "size": size,
                     "type": "file",
@@ -478,7 +481,9 @@ def content(self) -> List[Union[Directory, File]]:
         inside content, `load()` the directory and call `content` again.
         """
         if not self.__content__:
-            logger.info("content is not loaded, use `load()` to load default paths")
+            logger.info(
+                "content is not loaded, use `load()` to load default paths"
+            )
             return []
         return sorted(list(self.__content__.values()), key=str)
 
@@ -543,7 +548,9 @@ def get_files(self, *args, **kwargs) -> list[File]:
         """
         ...
 
-    def download(self, files: List[File], local_dir: str = CACHEPATH) -> List[str]:
+    def download(
+        self, files: List[File], local_dir: str = CACHEPATH
+    ) -> List[str]:
         """
         Downloads a list of Files.
         """
@@ -558,7 +565,9 @@ def download(self, files: List[File], local_dir: str = CACHEPATH) -> List[str]:
             return dfiles[0]
         return dfiles
 
-    async def async_download(self, files: List[File], local_dir: str = CACHEPATH):
+    async def async_download(
+        self, files: List[File], local_dir: str = CACHEPATH
+    ):
         """
         Asynchronously downloads a list of files
         """

pysus/online_data/ESUS.py

@@ -21,7 +21,7 @@ def download(uf, cache=True, checkmemory=True):
     today = date.today()
     dt = today.strftime("_%d_%m_%Y")
     base = f"desc-esus-notifica-estado-{uf}"  # desc-notificacoes-esusve-
-    url = f"https://{user}:{pwd}@elasticsearch-saps.saude.gov.br"
+    url = f"https://{user}:{pwd}@elasticsearch-saps.saude.gov.br"  # noqa: E231
     out = f"ESUS_{uf}_{dt}.parquet"
 
     cachefile = os.path.join(CACHEPATH, out)
@@ -36,7 +36,7 @@ def download(uf, cache=True, checkmemory=True):
         fname = fetch(base, uf, url)
         size = os.stat(fname).st_size
         if size > 50e6 and checkmemory:
-            print(f"Downloaded data is to large:{size / 1e6} MB compressed.")
+            print(f"Downloaded data is to large: {size / 1e6} MB compressed.")
             print(
                 "Only loading the first 1000 rows. If your computer has enough"
                 + " memory, set 'checkmemory' to False"

pysus/online_data/IBGE.py

@@ -1,6 +1,7 @@
 """
 Helper functions to download official statistics from IBGE SIDRA
 """
+
 import ssl  # Builtin
 from pathlib import Path
 from tempfile import TemporaryDirectory
@@ -142,7 +143,7 @@ def get_sidra_table(
 
     print(f"Requesting data from {url}")
     try:
-        with (get_legacy_session() as s, s.get(url) as response):
+        with get_legacy_session() as s, s.get(url) as response:
             df = pd.DataFrame(response.json())
     except HTTPError:
         response = requests.get(url)
@@ -163,7 +164,7 @@ def list_agregados(**kwargs):
     url += "&".join([f"{k}={v}" for k, v in kwargs.items()])
     print(f"Fetching Data groupings from {url}")
     try:
-        with (get_legacy_session() as s, s.get(url) as response):
+        with get_legacy_session() as s, s.get(url) as response:
             table = pd.DataFrame(response.json())
     except requests.exceptions.SSLError as e:
         print(f"Failed fetching aggregates: {e}")
@@ -183,7 +184,7 @@ def localidades_por_agregado(agregado: int, nivel: str):
     """
     url = APIBASE + f"agregados/{agregado}/localidades/{nivel}"
     try:
-        with (get_legacy_session() as s, s.get(url) as response):
+        with get_legacy_session() as s, s.get(url) as response:
             table = pd.DataFrame(response.json())
     except Exception as e:
         print(f"Could not download from {url}\n{e}")
@@ -199,7 +200,7 @@ def metadados(agregado: int):
     """
     url = APIBASE + f"agregados/{agregado}/metadados"
     try:
-        with (get_legacy_session() as s, s.get(url) as response):
+        with get_legacy_session() as s, s.get(url) as response:
             data = response.json()
     except Exception as e:
         print(f"Could not download from {url}\n{e}")
@@ -215,7 +216,7 @@ def lista_periodos(agregado: int):
     """
     url = APIBASE + f"agregados/{agregado}/periodos"
     try:
-        with (get_legacy_session() as s, s.get(url) as response):
+        with get_legacy_session() as s, s.get(url) as response:
             table = pd.DataFrame(response.json())
     except Exception:
         return None
@@ -309,10 +310,10 @@ def __init__(
     def _fetch_JSON(self):
         try:
             print(f"Fetching {self.url}")
-            with (get_legacy_session() as s, s.get(self.url) as response):
+            with get_legacy_session() as s, s.get(self.url) as response:
                 self.JSON = response.json()
         except Exception as e:
-            print(f"Couldn't download data:\n{e}")
+            print("Couldn't download data:", e, sep="\n")
 
     def to_dataframe(self):
         return pd.DataFrame(self.JSON)
@@ -389,7 +390,7 @@ def get_population(
         opts = ["ALF", "ESCA", "ESCB", "IDOSO", "RENDA"]
         if not censo_data or censo_data not in opts:
             raise ValueError(
-                f"Incorrect `censo_data` parameter. Options: {opts}"
+                f"Incorrect 'censo_data' parameter. Options: {opts}"
             )
         file = [f for f in files if censo_data in f.name][0].download()
     else:

pysus/online_data/Infogripe.py

@@ -18,6 +18,6 @@ def list_datasets():
 
 
 def download(dataset_name):
-    url = BASEURL + DATASETS[dataset_name]
+    url = BASEURL + DATASETS[dataset_name] + "?inline=false"
     df = pd.read_csv(url, delimiter=";", decimal=",")
     return df

pysus/preprocessing/ESUS.py

@@ -26,8 +26,8 @@ def cases_by_age_and_sex(UF, start="2020-03-01", end="2020-08-31"):
         inplace=True,
     )
     print(
-        f"Removed {old_size - len(df)} rows with missing dates of symptoms,"
-        " notification or testing"
+        f"Removed {old_size - len(df)} rows with missing dates of symptoms, "
+        "notification or testing"
     )
 
     # Desconsiderando os resultados negativos ou inconclusivos
@@ -52,7 +52,9 @@ def cases_by_age_and_sex(UF, start="2020-03-01", end="2020-08-31"):
     ini = np.arange(0, 81, 5)
     fin = np.arange(5, 86, 5)
     fin[-1] = 120
-    faixa_etaria = {f"[{i},{f})": (i, f) for i, f in zip(ini, fin)}
+    faixa_etaria = {
+        f"[{i},{f})": (i, f) for i, f in zip(ini, fin)  # noqa: E231
+    }
 
     labels = list(faixa_etaria.keys())
     df["faixa_etaria"] = [

pysus/tests/test_ftp.py

@@ -2,7 +2,6 @@
 from pathlib import Path
 
 import pandas as pd
-
 from pysus.data.local import ParquetSet
 from pysus.ftp import DIRECTORY_CACHE, Database, Directory, File
 from pysus.ftp.databases import (
@@ -41,7 +40,9 @@ def _test_database(testcase: unittest.TestCase, database: Database):
     )
     testcase.assertTrue(isinstance(downloaded_file, ParquetSet))
     testcase.assertTrue(Path(downloaded_file.path).exists())
-    testcase.assertTrue(isinstance(downloaded_file.to_dataframe(), pd.DataFrame))
+    testcase.assertTrue(
+        isinstance(downloaded_file.to_dataframe(), pd.DataFrame)
+    )
     testcase.assertTrue(not downloaded_file.to_dataframe().empty)