Bump staging to e5c508

[github-actions]

@anna-parker wants to update the staging deployment from pathoplexus/pathoplexus@e32c767 to pathoplexus/pathoplexus@e5c5084.

Commit date: 2025-09-04T13:29:04Z

Changelog

• Update Loculus version to aefc02 pathoplexus#632
• Update list of pathogens available and how to find url to use pathoplexus#626

Comparison

pathoplexus/pathoplexus@e32c767...e5c5084

[anna-parker]

Testing:

• confirmed with regression test script that no differences between staging and prod before merging

[anna-parker]

Testing:

• ENA deposition is working well (no errors in logs after performing a test submission)
• Ingest is happy (no errors in logs)
• Submission: checked that submitting as OPEN works, also with errors and correction, then also revoked for testing: https://staging.pathoplexus.org/seq/PP_003RX73.1
• Download of fasta: downloaded aligned and unaligned segments of CCHF, also with gzip compression without any issues

Side note: prepro pods crashed while I was submitting due to time outs talking to the backend which is an indication that we are overloaded atm

[anna-parker]

Finally regression test results (2hours after submission which means ingest has run >3times since update):

• CCHF sequence I submitted -> expected
• mpox, 198 rows have biosample and bioproject (due to test submission on staging) -> expected
• rsv-a 72 new sequences (as this PR fixes ingest)
• rsv-b 50 new sequences (") -> expected