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Parallelize lipid Identification step #649

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PMSeitzer opened this issue May 30, 2023 · 1 comment
Open

Parallelize lipid Identification step #649

PMSeitzer opened this issue May 30, 2023 · 1 comment
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peakdetector specific to peakdetector performance Improve slow performance

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@PMSeitzer
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Try swapping

    for (auto& g : groups) {
        MzKitchenProcessor::assignBestLipidToGroup(
                    &g,
                    compoundIons,
                    params,
                    debug);
    }

With

    #pragma omp parallel for num_threads(16) schedule(dynamic)
    for (auto& g : groups) {
        MzKitchenProcessor::assignBestLipidToGroup(
                    &g,
                    compoundIons,
                    params,
                    debug);
    }

In MzKitchenProcessor::matchLipids_LC()
To speed up the identification process

@PMSeitzer PMSeitzer added peakdetector specific to peakdetector performance Improve slow performance labels May 30, 2023
@PMSeitzer PMSeitzer added this to the 2.10.5 milestone May 30, 2023
@PMSeitzer PMSeitzer self-assigned this May 30, 2023
@PMSeitzer
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As a part of this work, update the Execution time message to include timing for the lipid searching part.

@PMSeitzer PMSeitzer removed this from the 2.10.5 milestone Jun 16, 2023
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Labels
peakdetector specific to peakdetector performance Improve slow performance
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