Jeroen Ooms jeroen

## bioc.R
library(curl)
library(yaml)

parse_raw_gitpack <- function(buf){
  con <- rawConnection(buf)
  on.exit(close(con))
  txt <- readLines(con, warn = FALSE)
  stopifnot(grepl('^[0-9a-f]{4}#', txt[1]))
  stopifnot(grepl('service=', txt[1]))
  if(length(txt) == 2 && txt[2] == '00000000'){

## tor.R
# Installing TOR on mac: brew install tor
# Run TOR on custom port: tor --SOCKSPort 9050

# Check the 'origin' field in the response to verify TOR is working.
library(httr)
GET("https://httpbin.org/get", use_proxy("socks5://localhost:9050"))

# Set proxy in curl
library(curl)
h <- new_handle(proxy = "socks5://localhost:9050")

## v8-wasm.cpp
#include <v8.h>
#include <libplatform/libplatform.h>

using v8::HandleScope;
using v8::Isolate;
using v8::MemorySpan;
using v8::WasmModuleObject;
using v8::Context;
using v8::Local;
using v8::Value;

## arrow-ubuntu.sh
# Import the GPG key
wget https://dist.apache.org/repos/dist/dev/arrow/KEYS
apt-key add < KEYS

# Install libarrow
DISTRO=$(lsb_release --codename --short)
add-apt-repository "deb [arch=amd64] http://dl.bintray.com/apache/arrow/ubuntu $DISTRO main"
apt-get install libarrow-dev libparquet-dev

# Install the R package

## build-r-arm.sh
#!/bin/sh
set -e
set -x
cd ~
export R_CRAN_WEB="https://cran.rstudio.com"
export CRAN_RSYNC='mirrors.nic.cz::CRAN'

# Some prereqs
pacman -S --needed --noconfirm wget git make perl curl texinfo texinfo-tex rsync unzip diffutils
if [ ! -d "aarch64-w64-mingw32.static.posix" ]; then

## fdtest.c
#include <curl/curl.h>
#include <stdlib.h>
#include <string.h>

size_t do_nothing(void *contents, size_t sz, size_t nmemb, void *ctx){
  return sz * nmemb;
}

CURL *make_handle(char *url){
  CURL *handle = curl_easy_init();

## webr-csv.html
<!DOCTYPE html>
<html lang="en">
  <head>
    <meta charset="UTF-8">
    <meta name="viewport" content="width=device-width, initial-scale=1.0">
    <title>Hello World! Site Title</title>
    <script src="https://cdnjs.cloudflare.com/ajax/libs/FileSaver.js/2.0.0/FileSaver.min.js"></script>
    <script>
import('https://webr.r-wasm.org/latest/webr.mjs').then(function(x){
    const webR = new x.WebR();

## mingw.sh
# We use Ubuntu 14.04 to build a native gcc for win32 with multilib support
#
# Based on:
# http://sourceforge.net/p/mingw-w64/wiki2/Native%20Win64%20compiler/
# http://sourceforge.net/p/mingw-w64/code/HEAD/tree/stable/v3.x/mingw-w64-doc/howto-build/mingw-w64-howto-build.txt?format=raw
#
# Cross compiling notes:
# - The minor version of gcc must match that of our cross compiler (4.8 in this case)
# - Important parameters: http://gcc.gnu.org/onlinedocs/gccint/Configure-Terms.html
#

## build-v8-solaris.sh
#VERSION=v8.17.0
VERSION=v10.24.1
PATH=/opt/csw/bin:$PATH
export CC="gcc"
export CXX="g++"
curl -OL "https://nodejs.org/download/release/${VERSION}/node-${VERSION}.tar.gz"
gunzip node-${VERSION}.tar.gz
rm -Rf node-${VERSION}
gtar xf node-${VERSION}.tar
cd node-${VERSION}

## Dockerfile
FROM fedora:36

# Simulate the clang location from CRAN
RUN ln -s /usr /usr/local/clang15
RUN dnf install -y clang llvm lld

COPY script.sh .

RUN ./script.sh
	library(curl)
	library(yaml)

	parse_raw_gitpack <- function(buf){
	con <- rawConnection(buf)
	on.exit(close(con))
	txt <- readLines(con, warn = FALSE)
	stopifnot(grepl('^[0-9a-f]{4}#', txt[1]))
	stopifnot(grepl('service=', txt[1]))
	if(length(txt) == 2 && txt[2] == '00000000'){
	# Installing TOR on mac: brew install tor
	# Run TOR on custom port: tor --SOCKSPort 9050

	# Check the 'origin' field in the response to verify TOR is working.
	library(httr)
	GET("https://httpbin.org/get", use_proxy("socks5://localhost:9050"))

	# Set proxy in curl
	library(curl)
	h <- new_handle(proxy = "socks5://localhost:9050")
	#include <v8.h>
	#include <libplatform/libplatform.h>

	using v8::HandleScope;
	using v8::Isolate;
	using v8::MemorySpan;
	using v8::WasmModuleObject;
	using v8::Context;
	using v8::Local;
	using v8::Value;
	# Import the GPG key
	wget https://dist.apache.org/repos/dist/dev/arrow/KEYS
	apt-key add < KEYS

	# Install libarrow
	DISTRO=$(lsb_release --codename --short)
	add-apt-repository "deb [arch=amd64] http://dl.bintray.com/apache/arrow/ubuntu $DISTRO main"
	apt-get install libarrow-dev libparquet-dev

	# Install the R package
	#!/bin/sh
	set -e
	set -x
	cd ~
	export R_CRAN_WEB="https://cran.rstudio.com"
	export CRAN_RSYNC='mirrors.nic.cz::CRAN'

	# Some prereqs
	pacman -S --needed --noconfirm wget git make perl curl texinfo texinfo-tex rsync unzip diffutils
	if [ ! -d "aarch64-w64-mingw32.static.posix" ]; then
	#include <curl/curl.h>
	#include <stdlib.h>
	#include <string.h>

	size_t do_nothing(void contents, size_t sz, size_t nmemb, void ctx){
	return sz * nmemb;
	}

	CURL make_handle(char url){
	CURL *handle = curl_easy_init();
	<!DOCTYPE html>
	<html lang="en">
	<head>
	<meta charset="UTF-8">
	<meta name="viewport" content="width=device-width, initial-scale=1.0">
	<title>Hello World! Site Title</title>
	<script src="https://cdnjs.cloudflare.com/ajax/libs/FileSaver.js/2.0.0/FileSaver.min.js"></script>
	<script>
	import('https://webr.r-wasm.org/latest/webr.mjs').then(function(x){
	const webR = new x.WebR();
	# We use Ubuntu 14.04 to build a native gcc for win32 with multilib support
	#
	# Based on:
	# http://sourceforge.net/p/mingw-w64/wiki2/Native%20Win64%20compiler/
	# http://sourceforge.net/p/mingw-w64/code/HEAD/tree/stable/v3.x/mingw-w64-doc/howto-build/mingw-w64-howto-build.txt?format=raw
	#
	# Cross compiling notes:
	# - The minor version of gcc must match that of our cross compiler (4.8 in this case)
	# - Important parameters: http://gcc.gnu.org/onlinedocs/gccint/Configure-Terms.html
	#
	#VERSION=v8.17.0
	VERSION=v10.24.1
	PATH=/opt/csw/bin:$PATH
	export CC="gcc"
	export CXX="g++"
	curl -OL "https://nodejs.org/download/release/${VERSION}/node-${VERSION}.tar.gz"
	gunzip node-${VERSION}.tar.gz
	rm -Rf node-${VERSION}
	gtar xf node-${VERSION}.tar
	cd node-${VERSION}
	FROM fedora:36

	# Simulate the clang location from CRAN
	RUN ln -s /usr /usr/local/clang15
	RUN dnf install -y clang llvm lld

	COPY script.sh .

	RUN ./script.sh