Data

Tools

Indexes

Applications

Experiments

Open Source Science

https://github.com/ajinkya-kulkarni/mpinat-lsm-application

Streamlit app for scientific data management at the Max Planck Institute for Multidisciplinary Sciences.

https://github.com/ajinkya-kulkarni/mpinat-lsm-application

Science Score: 13.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (10.7%) to scientific vocabulary

Keywords

data-management python research-management streamlit-application
Last synced: 6 months ago · JSON representation

Repository

Streamlit app for scientific data management at the Max Planck Institute for Multidisciplinary Sciences.

Basic Info
  • Host: GitHub
  • Owner: ajinkya-kulkarni
  • License: gpl-3.0
  • Language: Python
  • Default Branch: main
  • Homepage:
  • Size: 65.6 MB
Statistics
  • Stars: 4
  • Watchers: 3
  • Forks: 1
  • Open Issues: 1
  • Releases: 0
Topics
data-management python research-management streamlit-application
Created about 3 years ago · Last pushed almost 2 years ago
Metadata Files
Readme License

README.md

License: GPL v3

LSM Scan Uploader

This is a repository for accessing the source codes for the interface used in the ABA project at the Max Planck Institute for Multidisciplinary Sciences, Göttingen. This is a Python script that can be used to upload LSM scan images and metadata to an Amazon S3 bucket and a CaosDB server, respectively. It is designed to work with light sheet microscopy files, two photon images and CT scans.

Prerequisites

  • Python 3.6 or higher
  • pip package manager
  • os, urllib, subprocess, json, datetime, streamlit, caosdb, time, logging, threading, io, urllib3, boto3, botocorepackages

Use pip install package_name to install all these packages)

How to Use

  1. Open the terminal or command prompt.
  2. Clone or download the repository and navigate to the project directory.
  3. Run python MainProgram.py.
  4. Enter the required information when prompted (sample ID/barcode, image and metadata paths, etc.).
  5. Wait for the program to finish uploading the images and metadata.

Credits

This web application was developed, tested, and maintained by Ajinkya Kulkarni at the Max Planck Institute for Multidisciplinary Sciences, Göttingen.

License

This project is licensed under the GNU General Public License v3.0 - see the LICENSE file for details.

Contact

For more information or to provide feedback, please visit the project repository or contact the developer directly.

Owner

  • Name: Ajinkya Kulkarni
  • Login: ajinkya-kulkarni
  • Kind: user
  • Location: Göttingen
  • Company: Max Planck Institute for Multidisciplinary Sciences

Image Data Scientist @mpi_nat working in Translational Oncology

GitHub Events

Total
Last Year

Committers

Last synced: over 1 year ago

All Time
  • Total Commits: 223
  • Total Committers: 1
  • Avg Commits per committer: 223.0
  • Development Distribution Score (DDS): 0.0
Past Year
  • Commits: 6
  • Committers: 1
  • Avg Commits per committer: 6.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Ajinkya Kulkarni k****a@g****m 223

Issues and Pull Requests

Last synced: over 1 year ago

All Time
  • Total issues: 0
  • Total pull requests: 3
  • Average time to close issues: N/A
  • Average time to close pull requests: 7 days
  • Total issue authors: 0
  • Total pull request authors: 2
  • Average comments per issue: 0
  • Average comments per pull request: 0.33
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 2
Past Year
  • Issues: 0
  • Pull requests: 3
  • Average time to close issues: N/A
  • Average time to close pull requests: 7 days
  • Issue authors: 0
  • Pull request authors: 2
  • Average comments per issue: 0
  • Average comments per pull request: 0.33
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 2
View more stats
Top Authors
Issue Authors
Pull Request Authors
  • dependabot[bot] (2)
  • ajinkya-kulkarni (1)
Top Labels
Issue Labels
Pull Request Labels
dependencies (2)

Dependencies

requirements.txt pypi
  • altair <5
  • boto3 ==1.26.50
  • botocore ==1.29.50
  • caosadvancedtools ==0.6.1
  • caosdb ==0.11.0
  • streamlit ==1.17.0
  • urllib3 ==1.26.12