Add `iskylims` upload to `pipeline_manager` and improve platform configuration

[saramonzon]

Current behavior

• pipeline_manager currently uploads sample metadata only to relecov-platform.
• It does not upload to iskylims
• The upload behavior is controlled through the extra_config dictionary, which can specify either relecov or iskylims as a target platform — but not both - this is:
  • Not consistently enforced.
  • Not a fixed schema, which makes usage unclear and validation difficult.
  • Also used by the validate module, which relies on it to check for duplicates in relecov-platform.

Expected behavior

• pipeline_manager should be able to upload to both relecov-platform and iskylims, according to configuration.
• The decision on which platform(s) to use should be based on the central configuration.json, not hardcoded conditions or loosely structured extra_config.

1. Extend pipeline_manager to support iskylims upload

• Reuse or generalize existing upload logic UploadDatabase class as for relecov-platform

2. Refactor how platforms are configured

• Define a new field in configuration.json, e.g.:

  "platforms": {
    "upload": ["relecov", "iskylims"],
    "relecov": {
      "url": "https://relecov-platform/api",
      "token": "xxxxx"
    },
    "iskylims": {
      "url": "https://iskylims/api",
      "token": "yyyyy"
    }
  }
  

3. Use this configuration for both validate and pipeline-manager. Ensure that relecov-platform is uploaded first so you can get the unique_sample_id