Giter Club home page Giter Club logo

Comments (4)

joewandy avatar joewandy commented on July 19, 2024

Is it slow because of this? https://github.com/kmcluskey/FlyMet/blob/master/met_explore/pathway_analysis.py#L194-L220

from flymet.

kmcluskey avatar kmcluskey commented on July 19, 2024

I'll need to check - this is code from PiMP so not entirely sure - I'll check what parts are slow.

from flymet.

joewandy avatar joewandy commented on July 19, 2024

Many codes that need to reconstruct dataframes from a large number of individual cells, stored as records in the database seem slow too? For example,

https://github.com/kmcluskey/FlyMet/blob/master/met_explore/compound_selection.py#L142-L159

2020-10-30 13:15:34.888 | INFO     | met_explore.compound_selection:get_group_df:145 - Getting the peak group DF
2020-10-30 13:17:24.568 | INFO     | met_explore.compound_selection:get_group_df:165 - Generating the peak group dataframe took: 109.6802543 
2020-10-30 13:17:24.639 | INFO     | met_explore.views:peak_data:633 - returning the peak data
1:18

took nearly 2 minutes to run.

from flymet.

kmcluskey avatar kmcluskey commented on July 19, 2024

A dump of the pals_df has now been added which helps with this but may not be ideal.

from flymet.

Related Issues (20)

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.