gain.gene_scores.implementations package

Submodules

gain.gene_scores.implementations.gene_scores_impl module

class GeneScoreImplementation(resource: GenomicResource)

Bases: ScoreImplementationBase

Class used to represent gene score resource implementations.

calc_info_hash() → bytes

Compute the digest of the inputs of the info page.

The page is rendered again only when the digest changes.

Returns:

The digest of everything that get_info depends on.

Return type:

bytes

calc_statistics_hash() → bytes

Compute the digest of the inputs of the statistics build.

grr_manage compares the digest with the stored one to decide whether it must compute the statistics again.

Returns:

The digest of everything that the statistics tasks read.

Return type:

bytes

create_statistics_build_tasks(*, region_size: int = 3000000000, grr: GenomicResourceRepo | None = None) → list[TaskDesc]

Create tasks for calculating resource statistics for task graph.

Kept abstract: gene and genomic scores build statistics with genuinely different task shapes (a single DataFrame scan versus a region-split DAG), so each family provides its own.

get_info(**kwargs: Any) → str

Render the HTML of the info page of the resource.

Parameters:

**kwargs (Any) – Options of the renderer. The caller defines them.

Returns:

The HTML of the page.

Return type:

str

get_statistics_info(**kwargs: Any) → str

Render the HTML of the statistics page of the resource.

Parameters:

**kwargs (Any) – Options of the renderer. The caller defines them.

Returns:

The HTML of the page.

Return type:

str

styles_template_name: ClassVar[str] = 'gene_score_styles.jinja'

template_name: ClassVar[str] = 'gene_score.jinja'

Module contents