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Merged
bilalebi merged 4 commits into from
Aug 10, 2026
Merged

Switch from beta.ensembl.org to www.ensembl.org #38

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2594db1
:arrow_up: WIP update URLs to point to the www Ensembl site
bilalebi Aug 10, 2026
916738f
Merge branch 'main' into www-it
bilalebi Aug 10, 2026
6d08e06
:rocket: update legacy URL mappings to use www.ensembl.org instead of…
bilalebi Aug 10, 2026
4fb1688
:pencil: update default path for SPECIES_MAPPING_DB_PATH in config
bilalebi Aug 10, 2026
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4 changes: 2 additions & 2 deletions app/api/resources/templates/rapid/rapid_content.html
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Expand Up @@ -33,12 +33,12 @@
</div>
{{ url_helper.render_url("Redirecting to", response.resolved_url) }}
{% else %}
{{ url_helper.render_url("Redirecting to", "https://beta.ensembl.org/") }}
{{ url_helper.render_url("Redirecting to", "https://www.ensembl.org/") }}
{% endif %}
</div>
<div class="redirect-text">
<span>
You will be redirected to the new Ensembl website, where you will find the latest genomic information
</span>
</div>
</div>
</div>
4 changes: 2 additions & 2 deletions app/api/resources/templates/shared/appbar.html
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@@ -1,7 +1,7 @@
<div class="topbar">
<div class="topbar-left">
<div class="home-link">
<a href="https://beta.ensembl.org/" aria-label="Ensembl home page">
<a href="https://www.ensembl.org/" aria-label="Ensembl home page">
{% include "shared/_home_icon.html" %}
</a>
</div>
Expand All @@ -22,4 +22,4 @@
<div class="topbar-right">
<span>Genome data & annotation</span>
</div>
</div>
</div>
2 changes: 1 addition & 1 deletion app/api/resources/templates/shared/id_content.html
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Expand Up @@ -10,7 +10,7 @@
<div class="error-message">
{{ response.message }}
</div>
{{ url_helper.render_url("Go to", "https://beta.ensembl.org/genome-selector") }}
{{ url_helper.render_url("Go to", "https://www.ensembl.org/genome-selector") }}
{% if response.archive_url %}
{{ url_helper.render_url("Go to archive", response.archive_url) }}
{% endif %}
Expand Down
4 changes: 2 additions & 2 deletions app/core/config.py
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Expand Up @@ -47,15 +47,15 @@ def normalize_app_prefix(prefix: str) -> str:
FAST_MATCH_ENABLED: bool = config("FAST_MATCH_ENABLED", cast=bool, default=True)
FAST_MATCH_DB_PATH: str = config("FAST_MATCH_DB_PATH", cast=str, default="")
DEFAULT_APP = config("DEFAULT_APP", cast=str, default="feature-explorer")
ENSEMBL_URL = config("ENSEMBL_URL", cast=str, default="https://beta.ensembl.org")
ENSEMBL_URL = config("ENSEMBL_URL", cast=str, default="https://www.ensembl.org")
STATIC_PATH = config("STATIC_PATH", cast=str, default="/resolver-static")
RAPID_ARCHIVE_URL = config(
"RAPID_ARCHIVE_URL", cast=str, default="https://rapid-archive.ensembl.org"
)
NCBI_DATASETS_URL = config(
"NCBI_DATASETS_URL", cast=str, default="https://api.ncbi.nlm.nih.gov/datasets/v2"
)
SPECIES_MAPPING_DB_PATH = config("SPECIES_MAPPING_DB_PATH", cast=str, default="")
SPECIES_MAPPING_DB_PATH = config("SPECIES_MAPPING_DB_PATH", cast=str, default="./resolver_mappings.db")
SPECIES_MAPPING_TABLE = config(
"SPECIES_MAPPING_TABLE", cast=str, default="species_genome_uuid_mapping"
)
Expand Down
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6 changes: 3 additions & 3 deletions sample-env
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@@ -1,11 +1,11 @@
PORT=8001
ENSEMBL_SEARCH_HUB_API=https://beta.ensembl.org/api/search/stable-id
ENSEMBL_SEARCH_HUB_API=https://www.ensembl.org/api/search/stable-id
DEFAULT_APP=feature-explorer
ENSEMBL_URL=http://beta.ensembl.org
ENSEMBL_URL=http://www.ensembl.org
DEBUG=true
NCBI_DATASETS_URL=https://api.ncbi.nlm.nih.gov/datasets/v2
SPECIES_MAPPING_DB_PATH=./resolver_mappings.db
SPECIES_MAPPING_TABLE=species_genome_uuid_mapping
APP_PREFIX=/
FAST_MATCH_ENABLED=true
FAST_MATCH_DB_PATH=/path/to/your/fast_match_db.redb
FAST_MATCH_DB_PATH=/path/to/your/fast_match_db.redb
31 changes: 15 additions & 16 deletions sql/legacy_url_path_mappings.sql
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@@ -1,5 +1,4 @@
-- Support both staging and production legacy Ensembl hosts.
-- on the day of the switch to www, we replace beta.ensembl.org with www.ensembl.org

CREATE TABLE IF NOT EXISTS legacy_url_path_mappings (
source_host TEXT NOT NULL DEFAULT '',
Expand Down Expand Up @@ -70,14 +69,14 @@ VALUES
(
'',
'/multi/tools/blast',
'https://beta.ensembl.org/tools/blast',
'https://www.ensembl.org/tools/blast',
TRUE
),
-- VEP mappings
(
'',
'/multi/tools/vep',
'https://beta.ensembl.org/tools/vep',
'https://www.ensembl.org/tools/vep',
TRUE
),
(
Expand All @@ -89,21 +88,21 @@ VALUES
(
'',
'/tools/vep',
'https://beta.ensembl.org/tools/vep',
'https://www.ensembl.org/tools/vep',

@azangru azangru Aug 10, 2026

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Sorry, what's happening here? /tools/vep is redirected to /tools/vep?

@bilalebi bilalebi Aug 10, 2026 •
edited
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You're right, there is no point in having that mapping any more 👍

Wait! that means:

Any host with /tools/vep will take you to https://www.ensembl.org/tools/vep

Examples:

You can try it now with those links above, though it will still be taking you to beta

TRUE
),
-- Search mappings
(
'',
'/multi/search/results',
'https://beta.ensembl.org/genome-selector',
'https://www.ensembl.org/genome-selector',
TRUE
),
-- Legacy division landing pages now share the new Ensembl homepage.
(
'',
'/index.html',
'https://beta.ensembl.org/',
'https://www.ensembl.org/',
TRUE
);

Expand All @@ -122,51 +121,51 @@ VALUES
-- Map divisions to the new Ensembl.
(
'staging-plants.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'plants.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'staging-metazoa.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'metazoa.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'staging-fungi.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'fungi.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'staging-bacteria.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'bacteria.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'staging-protists.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
),
(
'protists.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
);
44 changes: 22 additions & 22 deletions tests/test_legacy_url_mapping.py
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Expand Up @@ -34,13 +34,13 @@ def setUp(self):
(
'',
'/multi/tools/blast',
'https://beta.ensembl.org/tools/blast',
'https://www.ensembl.org/tools/blast',
TRUE
),
(
'',
'/multi/search/results',
'https://beta.ensembl.org/genome-selector',
'https://www.ensembl.org/genome-selector',
TRUE
),
(
Expand All @@ -52,7 +52,7 @@ def setUp(self):
(
'',
'/tools/vep',
'https://beta.ensembl.org/tools/vep',
'https://www.ensembl.org/tools/vep',
TRUE
),
(
Expand All @@ -72,7 +72,7 @@ def setUp(self):
VALUES
(
'staging-protists.ensembl.org',
'https://beta.ensembl.org',
'https://www.ensembl.org',
TRUE
);
""")
Expand All @@ -92,18 +92,18 @@ def test_get_static_mapping_ignores_host_for_path_mappings(self):
get_static_legacy_url_mapping(
"https://staging-plants.ensembl.org/Multi/Tools/Blast"
),
"https://beta.ensembl.org/tools/blast",
"https://www.ensembl.org/tools/blast",
)
self.assertEqual(
get_static_legacy_url_mapping("https://www.ensembl.org/Multi/Tools/Blast"),
"https://beta.ensembl.org/tools/blast",
"https://www.ensembl.org/tools/blast",
)

def test_get_static_mapping_normalizes_path_case_and_trailing_slash(self):
"""Treat case and a final slash as insignificant for exact path matches."""
self.assertEqual(
get_static_legacy_url_mapping("https://www.ensembl.org/multi/tools/blast/"),
"https://beta.ensembl.org/tools/blast",
"https://www.ensembl.org/tools/blast",
)
self.assertEqual(
get_static_legacy_url_mapping("https://staging.ensembl.org/VEP/"),
Expand All @@ -116,7 +116,7 @@ def test_get_static_mapping_discards_query_string(self):
get_static_legacy_url_mapping(
"https://www.ensembl.org/Multi/Search/Results?q=brca2"
),
"https://beta.ensembl.org/genome-selector",
"https://www.ensembl.org/genome-selector",
)

def test_get_static_mapping_prefers_host_specific_path_mapping(self):
Expand All @@ -136,30 +136,30 @@ def test_get_static_mapping_uses_generic_path_when_host_has_no_override(self):
get_static_legacy_url_mapping(
"https://www.ensembl.org/Multi/Search/Results"
),
"https://beta.ensembl.org/genome-selector",
"https://www.ensembl.org/genome-selector",
)
self.assertEqual(
get_static_legacy_url_mapping(
"https://plants.ensembl.org/Multi/Search/Results"
),
"https://beta.ensembl.org/genome-selector",
"https://www.ensembl.org/genome-selector",
)
self.assertEqual(
get_static_legacy_url_mapping("https://staging.ensembl.org/Tools/VEP"),
"https://beta.ensembl.org/tools/vep",
"https://www.ensembl.org/tools/vep",
)
self.assertEqual(
get_static_legacy_url_mapping(
"https://staging-plants.ensembl.org/Tools/VEP"
),
"https://beta.ensembl.org/tools/vep",
"https://www.ensembl.org/tools/vep",
)

def test_get_static_mapping_handles_bare_host_homepage(self):
"""Resolve configured scheme-less host homepages."""
self.assertEqual(
get_static_legacy_url_mapping("staging-protists.ensembl.org"),
"https://beta.ensembl.org",
"https://www.ensembl.org",
)

def test_get_static_mapping_does_not_apply_host_mapping_to_paths(self):
Expand Down Expand Up @@ -213,39 +213,39 @@ def test_seeded_static_mappings_resolve_current_legacy_urls(self):
),
(
"https://staging.ensembl.org/Tools/VEP",
"https://beta.ensembl.org/tools/vep",
"https://www.ensembl.org/tools/vep",
),
(
"https://staging-plants.ensembl.org/Tools/VEP",
"https://beta.ensembl.org/tools/vep",
"https://www.ensembl.org/tools/vep",
),
(
"https://staging-metazoa.ensembl.org/Tools/VEP",
"https://beta.ensembl.org/tools/vep",
"https://www.ensembl.org/tools/vep",
),
(
"https://staging-fungi.ensembl.org/Tools/VEP",
"https://beta.ensembl.org/tools/vep",
"https://www.ensembl.org/tools/vep",
),
(
"https://staging-protists.ensembl.org/Tools/VEP",
"https://beta.ensembl.org/tools/vep",
"https://www.ensembl.org/tools/vep",
),
(
"https://staging-bacteria.ensembl.org/Tools/VEP",
"https://beta.ensembl.org/tools/vep",
"https://www.ensembl.org/tools/vep",
),
(
"https://bacteria.ensembl.org/index.html",
"https://beta.ensembl.org/",
"https://www.ensembl.org/",
),
(
"https://plants.ensembl.org/index.html",
"https://beta.ensembl.org/",
"https://www.ensembl.org/",
),
(
"https://staging-metazoa.ensembl.org/index.html",
"https://beta.ensembl.org/",
"https://www.ensembl.org/",
),
]

Expand Down
8 changes: 4 additions & 4 deletions tests/test_legacy_url_resolver.py
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Expand Up @@ -46,7 +46,7 @@ def tearDown(self):
)
def test_resolve_static_path_mapping_with_redirect(self, mock_species_lookup):
"""Resolve configured static legacy paths before species URL rules."""
self.mock_static_mapping.return_value = "https://beta.ensembl.org/tools/blast"
self.mock_static_mapping.return_value = "https://www.ensembl.org/tools/blast"

response = self.client.get(
self.mock_url_resolver_api_url,
Expand All @@ -62,7 +62,7 @@ def test_resolve_static_path_mapping_with_redirect(self, mock_species_lookup):
self.assertEqual(response.status_code, 308)
self.assertEqual(
response.headers["location"],
"https://beta.ensembl.org/tools/blast",
"https://www.ensembl.org/tools/blast",
)
self.assertEqual(response.headers["cache-control"], "no-store, max-age=0")
self.mock_static_mapping.assert_called_once_with(
Expand All @@ -76,7 +76,7 @@ def test_resolve_static_path_mapping_with_redirect(self, mock_species_lookup):
)
def test_resolve_static_host_mapping_with_json_response(self, mock_species_lookup):
"""Return configured static host mappings for JSON clients."""
self.mock_static_mapping.return_value = "https://beta.ensembl.org"
self.mock_static_mapping.return_value = "https://www.ensembl.org"

response = self.client.get(
self.mock_url_resolver_api_url,
Expand All @@ -88,7 +88,7 @@ def test_resolve_static_host_mapping_with_json_response(self, mock_species_looku
self.assertEqual(response.status_code, 200)
self.assertEqual(
response.json(),
{"resolved_url": "https://beta.ensembl.org"},
{"resolved_url": "https://www.ensembl.org"},
)
self.assertEqual(response.headers["cache-control"], "no-store, max-age=0")
self.mock_static_mapping.assert_called_once_with("staging-protists.ensembl.org")
Expand Down
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