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waters_connect support in Skyline and pwiz #3170

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@chambm chambm commented Sep 25, 2024

  • added support for downloading data from waters_connect with a URL like: https://devconnect.waters.com:48444/?sampleSetId=<sample set id>&injectionId=<injection id>
  • added support for connecting to and browsing waters_connect servers in Skyline
  • redirected UNIFI to use ABI's protobuf-net.dll (I don't think it was ever actually using the unifi-protobuf-net.dll)
  • refactored ParallelDownloadQueue into a separate class shared by UnifiData::Impl and WatersConnectImpl (a new implementation derived from UnifiData::Impl, but WatersConnect uses a separate queue for each channel)
  • added optional performance timers in VendorReaderTestHarness
  • disabled lockmass prompt for UNIFI in Skyline as it does not support it
  • improved error handling in Skyline UNIFI browsing
  • Refactor pwiz UNIFI stuff as RemoteApi (e.g. SpectrumList_RemoteApi)?

…ike: https://devconnect.waters.com:48444/?sampleSetId=<sample set id>&injectionId=<injection id>

- added support for connecting to and browsing waters_connect servers in Skyline
* redirected UNIFI to use ABI's protobuf-net.dll (I don't think it was ever actually using the unifi-protobuf-net.dll)
* refactored ParallelDownloadQueue into a separate class shared by UnifiData::Impl and WatersConnectImpl (a new implementation derived from UnifiData::Impl, but WatersConnect uses a separate queue for each channel)
* added optional performance timers in VendorReaderTestHarness
* disabled lockmass prompt for UNIFI in Skyline as it does not support it
* improved error handling in Skyline UNIFI browsing
* fixed Linux compile
* fixed advanced connection settings (identity server) not being shown for waters_connect
* fixed XML serialization for waters_connect_account
* added tests for the above issues (refactored and renamed existing Unifi tests to work for both APIs)
* added extraction of precursor and product m/z for SIM/SRM chromatograms from metadata first rather than parsing id
* reverted ChromKey.FromId behavior change so it uses values parsed from ID first and falls back to metadata if parsing fails
…ull-scan graph but ensure the chromatogram curves are loaded
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