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feat(config): add Ebola Sudan to values.yaml, replace sequences with urls #1980

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merged 22 commits into from
May 21, 2024
Merged

feat(config): add Ebola Sudan to values.yaml, replace sequences with urls #1980

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8c38167
wrong ref but otherwise ok
corneliusroemer May 21, 2024
a77f6a1
Strip whitespace in config-processor
corneliusroemer May 21, 2024
b64990e
Use urls for ebola-sudan
corneliusroemer May 21, 2024
cec9a05
Use proper name
corneliusroemer May 21, 2024
52cc097
Use correct ingest config for ebola-sudan
corneliusroemer May 21, 2024
2d29e53
Minor changes
corneliusroemer May 21, 2024
7c033ba
Replace ebola-zaire sequences
corneliusroemer May 21, 2024
53789cf
Replace mpox and west-nile with urls
corneliusroemer May 21, 2024
b18efbf
Replace rest
corneliusroemer May 21, 2024
026aa3e
Use version 1 for preprocessing pipelines
corneliusroemer May 21, 2024
9a19bec
wrong ref but otherwise ok
corneliusroemer May 21, 2024
74e74eb
Strip whitespace in config-processor
corneliusroemer May 21, 2024
39fb55e
Use urls for ebola-sudan
corneliusroemer May 21, 2024
2aef250
Use proper name
corneliusroemer May 21, 2024
40cd798
Use correct ingest config for ebola-sudan
corneliusroemer May 21, 2024
484008d
Minor changes
corneliusroemer May 21, 2024
59a5086
Replace ebola-zaire sequences
corneliusroemer May 21, 2024
8149e9a
Replace mpox and west-nile with urls
corneliusroemer May 21, 2024
5206633
Replace rest
corneliusroemer May 21, 2024
c030a1a
Use version 1 for preprocessing pipelines
corneliusroemer May 21, 2024
da5f173
Merge branch 'ebola-sudan' of https://github.com/loculus-project/locu…
corneliusroemer May 21, 2024
c9206d5
f
corneliusroemer May 21, 2024
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2 changes: 1 addition & 1 deletion kubernetes/config-processor/config-processor.py
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Original file line number Diff line number Diff line change
Expand Up @@ -21,7 +21,7 @@ def replace_url_with_content(file_content):
for url in set(urls):
response = requests.get(url)
if response.status_code == 200:
file_content = file_content.replace(f"[[URL:{url}]]", response.text)
file_content = file_content.replace(f"[[URL:{url}]]", response.text.strip())
return file_content

def make_substitutions(file_content, substitutions):
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