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Merged
dfrll merged 2 commits into from
Jan 27, 2026
Merged

public method #10

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e406421
public method
dfrll Jan 27, 2026
91af2ed
public method
dfrll Jan 27, 2026
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14 changes: 7 additions & 7 deletions src/pyrecount/accessor.py
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Original file line number Diff line number Diff line change
Expand Up @@ -78,7 +78,7 @@ def __post_init__(self):
root_url=self.root_url, organism=self.organism
)

def _get_project_urls(self, dtype) -> List[str]:
def get_project_urls(self, dtype) -> List[str]:
project = ProjectLocator(
root_organism_url=self.endpoints.root_organism_url,
data_sources=self.endpoints.data_sources,
Expand All @@ -99,7 +99,7 @@ async def cache(self) -> None:
if dtype not in CACHEABLE_DTYPES:
continue

for url in self._get_project_urls(dtype):
for url in self.get_project_urls(dtype):
fpath = urlparse(url).path.lstrip("/")
if path.exists(fpath):
continue
Expand Down Expand Up @@ -139,7 +139,7 @@ def _valid_metadata_url(self, url: str, project_id: str) -> bool:
def _metadata_load(self) -> pl.DataFrame:
cache_meta: list[pl.DataFrame] = []
join_cols = ["rail_id", "external_id", "study"]
urls = self._get_project_urls(Dtype.METADATA)
urls = self.get_project_urls(Dtype.METADATA)

for project_id in self.project_ids:
dfs_for_project: list[pl.DataFrame] = []
Expand Down Expand Up @@ -210,7 +210,7 @@ def _jxn_load(self) -> Tuple[pl.DataFrame, pl.DataFrame]:
cache_mm: List[pl.DataFrame] = []
cache_meta: List[pl.DataFrame] = []

urls = self._get_project_urls(Dtype.JXN)
urls = self.get_project_urls(Dtype.JXN)

for project_id in self.project_ids:
project_urls = [
Expand Down Expand Up @@ -261,7 +261,7 @@ def _jxn_load(self) -> Tuple[pl.DataFrame, pl.DataFrame]:
)

def _bw_load(self) -> pl.DataFrame:
urls = self._get_project_urls(Dtype.BW)
urls = self.get_project_urls(Dtype.BW)

for project_id in self.project_ids:
project_urls = [
Expand Down Expand Up @@ -328,7 +328,7 @@ def _read_counts(self, rname: str):
return counts_dataframe

def _gene_load(self) -> pl.DataFrame:
for url in self._get_project_urls(Dtype.GENE):
for url in self.get_project_urls(Dtype.GENE):
fpath = urlparse(url).path.lstrip("/")
if self.annotation.value in fpath:
if any(fpath.endswith(ext) for ext in Extensions.GENE.value):
Expand All @@ -338,7 +338,7 @@ def _gene_load(self) -> pl.DataFrame:
return annotation, counts

def _exon_load(self) -> pl.DataFrame:
for url in self._get_project_urls(Dtype.EXON):
for url in self.get_project_urls(Dtype.EXON):
fpath = urlparse(url).path.lstrip("/")
if self.annotation.value in fpath:
if any(url.endswith(ext) for ext in Extensions.EXON.value):
Expand Down