jmatsushita

###
### [2023-06-19] UPDATE: Just tried to use my instructions again on a fresh install and it failed in a number of places. 
###.   Not sure if I'll update this gist (though I realise it seems to still have some traffic), but here's a list of 
###.   things to watch out for:
###      - Check out the `nix-darwin` instructions, as they have changed.
###      - There's a home manager gotcha https://github.com/nix-community/home-manager/issues/4026
###

# I found some good resources but they seem to do a bit too much (maybe from a time when there were more bugs).
# So here's a minimal Gist which worked for me as an install on a new M1 Pro.

gnanderson

fif() {
	rg  \
	--column \
	--line-number \
	--no-column \
	--no-heading \
	--fixed-strings \
	--ignore-case \
	--hidden \
	--follow \

doi-t

AWS Batch

• Ref. https://docs.aws.amazon.com/batch/latest/userguide/what-is-batch.html

The goal of this document is submitting a job to AWS Batch and confirming the result in CloudWatch Logs.

Since I've worked on ap-northeast-1 region, The following examples includes this region name.

Setting Up with AWS Batch

• Ref. https://docs.aws.amazon.com/batch/latest/userguide/get-set-up-for-aws-batch.html

jdiamond

FROM alpine

# Install OpenSSH:
RUN apk -U add openssh

# Generate host keys:
RUN ssh-keygen -A

# Create users:
RUN adduser -D user1

gdlmx

List

• Wikipage: Scientific workflow system
• Awesome pipeline
• CWL: Existing workflow systems

Requirements

1. Dynamic workflow
2. Environment encapsulation

Onurtag

#SingleInstance Force
#NoTrayIcon     ;Comment this line by adding a ; in front of # if you want the tray icon to be visible. Like ;#NoTrayIcon

EverythingPath := "C:\Program Files\Everything\Everything.exe"    ;Set this to your everything.exe path. Keep the quotes.

;---Optional setup for special folders---
MyRecycleBin := "Recycle Bin"   ;If your OS is not English, go to your explorer's "Recycle Bin" (🚮) folder and change this to the title of that window. Keep the quotes.
MyThisPC := "This PC"           ;If your OS is not English, go to your explorer's "This PC" (💻) folder and change this to the title of that window. Keep the quotes.
MyHome := "Home"                ;(Windows 11) If your OS is not English, go to your explorer's "Home" (🏠) folder and change this to the title of that window. Keep the quotes.

pditommaso

#!/bin/env nextflow

Channel 
  .from('abc')
  .map { tuple(0,it) }
  .set { foo }

Channel.create().set { feedback }

index = 0 

jennybc

There are packages for this now!

2017-08-03: Since I wrote this in 2014, the universe, specifically Kirill Müller (https://github.com/krlmlr), has provided better solutions to this problem. I now recommend that you use one of these two packages:

• rprojroot: This is the main package with functions to help you express paths in a way that will "just work" when developing interactively in an RStudio Project and when you render your file.
• here: A lightweight wrapper around rprojroot that anticipates the most likely scenario: you want to write paths relative to the top-level directory, defined as an RStudio project or Git repo. TRY THIS FIRST.

I love these packages so much I wrote an ode to here.

I use these packages now instead of what I describe below. I'll leave this gist up for historical interest. 😆

mckaydavis

#!/usr/bin/env python

# File: log_exec.py
# Author: McKay Davis
# Date: Jun 23, 2014
# Non-blocking stdout and stderr read from a
# Popen process

import os
import subprocess

samtkaplan

function laplace_idiomatic (del_x::Array{Float64, 3}, x::Array{Float64, 3})

        n1, n2, n3 = size (x)
        for i3 = 2:n3-1, i2 = 2:n2-1, i1 = 2:n1-1

                del_x[i1,i2,i3] =
                        x[i1+1,i2,i3] + x[i1-1,i2,i3] +
                        x[i1,i2+1,i3] + x[i1,i2-1,i3] +
                        x[i1,i2,i3+1] + x[i1,i2,i3-1] -
                        6.0 * x[i1,i2,i3]