These are my recommendations for developing modular augur pathogen builds in per-pathogen repositories. They're based on my experience creating such a build using zika as an example while developing the Nextstrain base container and CLI.
gwangjinkim
/ install-and-start-postgresql-in-conda-locally
Last active
February 17, 2026 10:06
How to install and run postgresql in conda
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| This gist I write, because I couldn't find any step by step instructions | |
| how to install and start postgresql locally (using conda within a conda environment - with the result | |
| that you can run it without sudo/admin rights on your machine!) | |
| and not globally in the operating system (which requires sudo/admin rights on that machine). | |
| I hope, this will help especially people new to postgresql | |
| (and those who don't have sudo/admin rights on a specific machine but want | |
| to run postgresql there)! | |
| Prerequisite is to have miniconda already installed in your Computer. |
tsibley
/ build-recommendations.md
Last active
March 20, 2020 18:12
nh2
/ rigid-transform-with-scale.py
Last active
July 17, 2024 14:03
Rigidly (+scale) aligns two point clouds with know point-to-point correspondences, in Python with numpy
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| import numpy as np | |
| import numpy.linalg | |
| # Relevant links: | |
| # - http://stackoverflow.com/a/32244818/263061 (solution with scale) | |
| # - "Least-Squares Rigid Motion Using SVD" (no scale but easy proofs and explains how weights could be added) | |
| # Rigidly (+scale) aligns two point clouds with know point-to-point correspondences | |
| # with least-squares error. |
jwebcat
/ gist:5122366
Last active
October 9, 2025 13:52
— forked from lemenkov/gist:1674929
Properly download from github using wget and curl
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| wget --no-check-certificate --content-disposition https://github.com/joyent/node/tarball/v0.7.1 | |
| # --no-check-cerftificate was necessary for me to have wget not puke about https | |
| curl -LJO https://github.com/joyent/node/tarball/v0.7.1 |