remove comment references to deleted file

broadinstitute · Nov 25, 2024 · 1e29b6d · 1e29b6d
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diff --git a/v03_pipeline/lib/reference_datasets/dbnsfp.py b/v03_pipeline/lib/reference_datasets/dbnsfp.py
@@ -55,7 +55,6 @@ def predictor_parse(field: hl.StringExpression) -> hl.StringExpression:
     return field.split(';').find(lambda p: p != '.')
 
 
-# adapted from download_and_create_reference_datasets/v02/hail_scripts/write_dbnsfp_ht.py
 def get_ht(path: str, reference_genome: ReferenceGenome) -> hl.Table:
     types = TYPES[reference_genome]
     rename = RENAME[reference_genome]

diff --git a/v03_pipeline/lib/reference_datasets/mitomap.py b/v03_pipeline/lib/reference_datasets/mitomap.py
@@ -3,7 +3,6 @@
 from v03_pipeline.lib.model import ReferenceGenome
 
 
-# adapted from download_and_create_reference_datasets/v02/mito/write_mito_mitomap_ht.py
 def get_ht(path: str, reference_genome: ReferenceGenome) -> hl.Table:
     ht = hl.import_table(
         path,

diff --git a/v03_pipeline/lib/reference_datasets/screen.py b/v03_pipeline/lib/reference_datasets/screen.py
@@ -10,7 +10,6 @@
 )
 
 
-# Adapted from download_and_create_reference_datasets/v02/hail_scripts/write_ccREs_ht.py
 def get_ht(path: str, reference_genome: ReferenceGenome) -> hl.Table:
     with tempfile.NamedTemporaryFile(
         suffix='.bed',

diff --git a/v03_pipeline/lib/reference_datasets/splice_ai.py b/v03_pipeline/lib/reference_datasets/splice_ai.py
@@ -4,7 +4,6 @@
 from v03_pipeline.lib.reference_datasets.misc import vcf_to_ht
 
 
-# adapted from download_and_create_reference_datasets/v02/hail_scripts/write_splice_ai.py
 def get_ht(
     paths: list[str],
     reference_genome: ReferenceGenome,

diff --git a/v03_pipeline/lib/reference_datasets/topmed.py b/v03_pipeline/lib/reference_datasets/topmed.py
@@ -13,7 +13,6 @@
 }
 
 
-# adapted from download_and_create_reference_datasets/v02/create_ht__topmed.py
 def get_ht(path: str, reference_genome: ReferenceGenome) -> hl.Table:
     ht = vcf_to_ht(path, reference_genome)
     return ht.select(