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// Dont know why but it requires java 17 fx

// sdk install 17.0.8.fx-zulu
// sdk use java 17.0.8.fx-zulu

@Grapes([
        @Grab(group='org.scalamolecule', module='datomic-client-api-java-scala_2.13', version='1.0.3'),
        @Grab(group='com.datomic', module='local', version='1.0.267'),
        @Grab(group='com.cognitect', module='http-client', version='1.0.126'),
])

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from azure.identity import DefaultAzureCredential
from azure.mgmt.batch import BatchManagementClient
import os
from dotenv import load_dotenv
import sys

load_dotenv()

AZURE_SUBSCRIPTION_ID = os.getenv('AZURE_SUBSCRIPTION_ID')
AZURE_BATCH_RESOURCE_GROUP_NAME = os.getenv('AZURE_BATCH_RESOURCE_GROUP_NAME')

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So, it has been an interesting journey, but time to remove git-lfs. Here follows a summary of the approach I used to safely remove git-lfs,

• commit & push everything
• create a branch, something like fix/remove-lfs
• remove hooks git lfs uninstall
• remove lfs stuff from .gitattributes (open file, delete content - don't delete the file!)
• list all lfs files, git lfs ls-files
• run git rm --cached for each file
  • if your list is big, copy the contents into a file.txt
• make sure you remove the number and asterik on each line, you only want the paths to the files

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#! /usr/bin/env nextflow
import groovy.json.JsonSlurper
import groovy.text.SimpleTemplateEngine
import groovy.util.FileNameByRegexFinder
import java.nio.file.Path
import java.nio.file.Paths
import nextflow.util.SysHelper
PROGRAM_NAME = workflow.manifest.name
VERSION = workflow.manifest.version

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Genomics - A programmer's guide.

Andy Thomason is a Senior Programmer at Genomics PLC. He has been witing graphics systems, games and compilers since the '70s and specialises in code performance.

https://www.genomicsplc.com

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About

Example on how to run locally an AWS Lambda via API Gateway using localstack.

Based on...

1. https://stackoverflow.com/questions/44547574/create-api-gateway-in-localstack/48682628
2. https://ig.nore.me/2016/03/setting-up-lambda-and-a-gateway-through-the-cli/

Usage

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(use srfi-27)
(use srfi-42)

(define-macro (swap! a b)
  (let1 t (gensym)
    `(let1 ,t ,a
       (set! ,a ,b)
       (set! ,b ,t))))

(define (bubble-sort v)

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; sets as unordered lists:

; a set for now is defined as as being able 
; to undergo the following operations

; 1)  element-of-set? checks if x is in set
(define (element-of-set? x set)
  (cond ((null? set) false)
        ((equal? x (car set)) true)
        (else (element-of-set? x (cdr set)))))

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Mounting VirtualBox shared folders on Ubuntu Server 18.04 LTS (Bionic Beaver)

This guide will walk you through the steps on how to setup a VirtualBox shared folder inside your Ubuntu Server guest.

Prerequisites

This guide assumes that you are using the following setup:

• Oracle VM VirtualBox version 6.0.10 with Extension Pack installed
• Microsoft Windows 7 SP1 as the host OS
• A fresh install of Ubuntu Server 18.04.2 LTS as the guest OS

You could still make this guide work with other setups (possibly with some modifications to the commands and whatnot).

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Update 7/28/2019: An updated version of this guide for Ubuntu Server 18.04 LTS is now available. Feel free to check it out.

Mounting VirtualBox shared folders on Ubuntu Server 16.04 LTS

This guide will walk you through steps on how to setup a VirtualBox shared folder inside your Ubuntu Server guest. Tested on Ubuntu Server 16.04.3 LTS (Xenial Xerus)

Steps:

1. Open VirtualBox
2. Right-click your VM, then click Settings
3. Go to Shared Folders section