diff --git a/docker/Containerfile-alpine-320 b/docker/Containerfile-alpine-320 index 90a16a3..a14d649 100644 --- a/docker/Containerfile-alpine-320 +++ b/docker/Containerfile-alpine-320 @@ -64,6 +64,6 @@ RUN mkdir -p /mnt/cache/packages /mnt/cache/pkgcache /mnt/cache/R-pkgs # encoding -> https://github.com/r-hub/r-minimal/blob/fa9c117313e05860a0d20b113e5f794c51be8b8c/Dockerfile#L84 RUN sed -i 's/,//g' /opt/R/${R_VERSION}/lib/R/library/utils/iconvlist -RUN R -q -e 'pak::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git", dependencies = TRUE)' +RUN R -q -e 'pak::pak("git::https://codefloe.com/rpkgs/bincraftr.git", dependencies = TRUE)' CMD ["/bin/bash"] diff --git a/docker/Containerfile-alpine-321 b/docker/Containerfile-alpine-321 index 75c4571..e655b88 100644 --- a/docker/Containerfile-alpine-321 +++ b/docker/Containerfile-alpine-321 @@ -5,7 +5,7 @@ RUN apk add -q --no-cache curl tar make lapack lapack-dev blas blas-dev gcc gfor # These usually are not packaged in OS repositories and need to be installed from source # - JAGS (needed for runjags which itself is again a dependency of many packages) RUN curl -s -L -O https://sourceforge.net/projects/mcmc-jags/files/JAGS/4.x/Source/JAGS-4.3.2.tar.gz && \ - tar -xzf JAGS-4.3.2.tar.gz && cd JAGS-4.3.2 && ./configure --enable-silent-rules && make 2>&1 + tar -xzf JAGS-4.3.2.tar.gz && cd JAGS-4.3.2 && ./configure --enable-silent-rules && make 2>&1 FROM alpine:3.21 AS final @@ -27,7 +27,7 @@ COPY --link --from=jags /JAGS-4.3.2 /JAGS-4.3.2 # # xvfb: for graphical pkgs requiring tcl, like gWidgets2tcltk RUN apk add -q --no-cache curl tar make blas blas-dev gcc gfortran g++ htop git cmake tk-dev xvfb xvfb-run xorg-server xauth xinit xz libdeflate libdeflate-dev -### CUSTOM DEPENDENCIES +### CUSTOM DEPENDENCIES # linux-headers: ps # libxml2-dev: xml2 @@ -43,7 +43,7 @@ RUN apk add --no-cache --update --repository=https://dl-cdn.alpinelinux.org/alpi # https://github.com/RcppCore/Rcpp/issues/448#issuecomment-220148774 # LDFLAGS+=-fPIC -> arrow (https://github.com/r-hub/r-minimal/blob/main/examples/arrow/Dockerfile) # dbarts: CFLAGS += -flax-vector-conversions (https://github.com/vdorie/dbarts/issues/66) -# CXXFLAGS: -> Rcpp +# CXXFLAGS: -> Rcpp # -DDMLC_USE_FOPEN64=0 -> xgboost (https://github.com/dmlc/xgboost/issues/8595) # can't set ccache for gfortran because of https://gitlab.com/roigrp/solver/highs/-/issues/4 RUN mkdir -p /root/.R && bash -c 'echo -e "CXX_STD = CXX14\nCXXFLAGS=-D__MUSL__ -DDMLC_USE_FOPEN64=0\nCPPFLAGS=-D__MUSL__ -DDMLC_USE_FOPEN64=0\nCFLAGS += -flax-vector-conversions\nLDFLAGS+=-fPIC\nCC=ccache gcc\nCPP=gcc -E\nCXXCPP=gcc -e\nCXX=ccache g++\nCXX11=ccache g++\nCXX14=ccache g++\nCXX17=ccache g++\nF77=gfortran\nFC=gfortran" > /root/.R/Makevars' @@ -64,6 +64,6 @@ RUN mkdir -p /mnt/cache/packages /mnt/cache/pkgcache /mnt/cache/R-pkgs # encoding -> https://github.com/r-hub/r-minimal/blob/fa9c117313e05860a0d20b113e5f794c51be8b8c/Dockerfile#L84 RUN sed -i 's/,//g' /opt/R/${R_VERSION}/lib/R/library/utils/iconvlist -RUN R -q -e 'pak::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git", dependencies = TRUE)' +RUN R -q -e 'pak::pak("git::https://codefloe.com/rpkgs/bincraftr.git", dependencies = TRUE)' -CMD ["/bin/bash"] \ No newline at end of file +CMD ["/bin/bash"] diff --git a/docker/Containerfile-redhat-8 b/docker/Containerfile-redhat-8 index ed48469..f733aa0 100644 --- a/docker/Containerfile-redhat-8 +++ b/docker/Containerfile-redhat-8 @@ -3,16 +3,16 @@ ARG RED_HAT_DEV_PW RUN subscription-manager register --username mail@devxy.io --password "$RED_HAT_DEV_PW" && subscription-manager repos --enable codeready-builder-for-rhel-8-$(arch)-rpms RUN dnf install -y https://dl.fedoraproject.org/pub/epel/epel-release-latest-8.noarch.rpm && dnf install -y epel-release -RUN dnf install -y -q gcc-c++ lapack-devel make git ca-certificates +RUN dnf install -y -q gcc-c++ lapack-devel make git ca-certificates # These usually are not packaged in OS repositories and need to be installed from source # - JAGS (needed for runjags which itself is again a dependency of many packages) RUN curl -s -L -O https://sourceforge.net/projects/mcmc-jags/files/JAGS/4.x/Source/JAGS-4.3.2.tar.gz && \ - tar -xzf JAGS-4.3.2.tar.gz && cd JAGS-4.3.2 && ./configure --enable-silent-rules && make 2>&1 + tar -xzf JAGS-4.3.2.tar.gz && cd JAGS-4.3.2 && ./configure --enable-silent-rules && make 2>&1 FROM redhat/ubi8 AS final -# renovate datasource=docker depName=rocker/r-ver +# renovate datasource=docker depName=rocker/r-ver ARG R_VERSION=4.4.3 ARG RED_HAT_DEV_PW ENV PATH=/opt/R/${R_VERSION}/bin:$PATH @@ -35,7 +35,7 @@ RUN dnf install -y https://dl.fedoraproject.org/pub/epel/epel-release-latest-8.n # libfftw3-dev: ravetools -> actually auto-detect but somehow doesn't work in container? RUN dnf install -y -q make lapack-devel git gcc gcc-c++ fontconfig-devel fribidi-devel libjpeg-turbo-devel libtiff-devel postgresql-devel htop libgit2_1.7-devel libxml2-devel hiredis ccache cmake xorg-x11-server-Xvfb ImageMagick-c++-devel ImageMagick-devel xz pkg-config mecab-devel fftw-devel tk-devel automake readline-devel -### CUSTOM DEPENDENCIES +### CUSTOM DEPENDENCIES # - Chromium should be auto-installed once pkgdepends merges the latest system-requirements rule changes RUN dnf install -y chromium @@ -57,6 +57,6 @@ RUN bash -c 'echo -e "PKG_SYSREQS = TRUE\nPKG_SYSREQS_VERBOSE = TRUE\nPKG_SYSREQ RUN mkdir -p /mnt/cache/packages /mnt/cache/pkgcache /mnt/cache/R-pkgs RUN R -q -e 'install.packages("gert", repos = "cloud.r-project.org")' -RUN R -q -e 'pak::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git", dependencies = TRUE)' +RUN R -q -e 'pak::pak("git::https://codefloe.com/rpkgs/bincraftr.git", dependencies = TRUE)' -CMD ["/bin/bash"] \ No newline at end of file +CMD ["/bin/bash"] diff --git a/docker/Containerfile-redhat-9 b/docker/Containerfile-redhat-9 index f9ac6bd..e0ef1fd 100644 --- a/docker/Containerfile-redhat-9 +++ b/docker/Containerfile-redhat-9 @@ -3,16 +3,16 @@ ARG RED_HAT_DEV_PW RUN subscription-manager register --username mail@devxy.io --password "$RED_HAT_DEV_PW" && subscription-manager repos --enable codeready-builder-for-rhel-9-$(arch)-rpms RUN dnf install -y https://dl.fedoraproject.org/pub/epel/epel-release-latest-9.noarch.rpm && dnf install -y epel-release -RUN dnf install -y -q gcc-c++ lapack-devel make git ca-certificates +RUN dnf install -y -q gcc-c++ lapack-devel make git ca-certificates # These usually are not packaged in OS repositories and need to be installed from source # - JAGS (needed for runjags which itself is again a dependency of many packages) RUN curl -s -L -O https://sourceforge.net/projects/mcmc-jags/files/JAGS/4.x/Source/JAGS-4.3.2.tar.gz && \ - tar -xzf JAGS-4.3.2.tar.gz && cd JAGS-4.3.2 && ./configure --enable-silent-rules && make 2>&1 + tar -xzf JAGS-4.3.2.tar.gz && cd JAGS-4.3.2 && ./configure --enable-silent-rules && make 2>&1 FROM redhat/ubi9 AS final -# renovate datasource=docker depName=rocker/r-ver +# renovate datasource=docker depName=rocker/r-ver ARG R_VERSION=4.4.3 ARG RED_HAT_DEV_PW ENV PATH=/opt/R/${R_VERSION}/bin:$PATH @@ -35,7 +35,7 @@ RUN dnf install -y https://dl.fedoraproject.org/pub/epel/epel-release-latest-9.n # libfftw3-dev: ravetools -> actually auto-detect but somehow doesn't work in container? RUN dnf install -y -q make lapack-devel git gcc gcc-c++ fontconfig-devel fribidi-devel libjpeg-turbo-devel libtiff-devel postgresql-devel htop libgit2-devel libxml2-devel hiredis ccache cmake xorg-x11-server-Xvfb ImageMagick-c++-devel ImageMagick-devel xz pkg-config mecab-devel fftw-devel tk-devel automake readline-devel -### CUSTOM DEPENDENCIES +### CUSTOM DEPENDENCIES # - Chromium should be auto-installed once pkgdepends merges the latest system-requirements rule changes RUN dnf install -y chromium @@ -56,6 +56,6 @@ RUN bash -c 'echo -e "PKG_SYSREQS = TRUE\nPKG_SYSREQS_VERBOSE = TRUE\nPKG_SYSREQ # these dirs will later be used by the CI with existing mounts RUN mkdir -p /mnt/cache/packages /mnt/cache/pkgcache /mnt/cache/R-pkgs -RUN R -q -e 'pak::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git", dependencies = TRUE)' +RUN R -q -e 'pak::pak("git::https://codefloe.com/rpkgs/bincraftr.git", dependencies = TRUE)' -CMD ["/bin/bash"] \ No newline at end of file +CMD ["/bin/bash"] diff --git a/docker/Containerfile-ubuntu-2204 b/docker/Containerfile-ubuntu-2204 index 053993a..51249f3 100644 --- a/docker/Containerfile-ubuntu-2204 +++ b/docker/Containerfile-ubuntu-2204 @@ -54,6 +54,6 @@ RUN apt install -y locales && echo "en_US.UTF-8 UTF-8" >> /etc/locale.gen \ && locale-gen en_US.utf8 \ && /usr/sbin/update-locale LANG=en_US.UTF-8 -RUN R -q -e 'pak::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git", dependencies = TRUE)' +RUN R -q -e 'pak::pak("git::https://codefloe.com/rpkgs/bincraftr.git", dependencies = TRUE)' CMD ["/bin/bash"] diff --git a/docker/Containerfile-ubuntu-2404 b/docker/Containerfile-ubuntu-2404 index 1165c70..c9334fe 100644 --- a/docker/Containerfile-ubuntu-2404 +++ b/docker/Containerfile-ubuntu-2404 @@ -3,14 +3,14 @@ FROM ubuntu:noble AS jags RUN apt update && apt install -y --no-install-recommends curl make ca-certificates gcc g++ gfortran liblapack-dev # These usually are not packaged in OS repositories and need to be installed from source # - JAGS (needed for runjags which itself is again a dependency of many packages) -RUN curl -q -L -O https://sourceforge.net/projects/mcmc-jags/files/JAGS/4.x/Source/JAGS-4.3.2.tar.gz && tar -xzf JAGS-4.3.2.tar.gz && cd JAGS-4.3.2 && ./configure --enable-silent-rules && make 2>&1 +RUN curl -q -L -O https://sourceforge.net/projects/mcmc-jags/files/JAGS/4.x/Source/JAGS-4.3.2.tar.gz && tar -xzf JAGS-4.3.2.tar.gz && cd JAGS-4.3.2 && ./configure --enable-silent-rules && make 2>&1 FROM ubuntu:noble AS final ARG R_VERSION=4.4.3 ENV PATH=/opt/R/${R_VERSION}/bin:$PATH ENV TZ="Europe/Berlin" -ENV DEBIAN_FRONTEND=noninteractive +ENV DEBIAN_FRONTEND=noninteractive ARG ARCH=arm64 ENV NCPUS=2 @@ -27,7 +27,7 @@ COPY --link --from=jags /JAGS-4.3.2 /JAGS-4.3.2 # libfftw3-dev: ravetools -> actually auto-detect but somehow doesn't work in container? RUN apt update && apt install -y --no-install-recommends gdebi-core g++ gfortran libbz2-dev libblas-dev libicu-dev liblapack-dev liblzma-dev libpaper-utils libpcre2-dev libtcl8.6 libtk8.6 libxt6 unzip zip zlib1g-dev libpcre3-dev libopenblas-dev curl ca-certificates make ccache htop libgit2-dev git libpq-dev libxml2-dev libgit2-dev cmake xvfb libcurl4-openssl-dev xz-utils tcl tk tk-dev tk-table pkg-config libmecab-dev libfftw3-dev automake -### CUSTOM DEPENDENCIES +### CUSTOM DEPENDENCIES # - Chromium should be auto-installed once pkgdepends merges the latest system-requirements rule changes RUN apt-get install -y software-properties-common && \ add-apt-repository -y ppa:xtradeb/apps && \ @@ -54,6 +54,6 @@ RUN apt install -y locales && echo "en_US.UTF-8 UTF-8" >> /etc/locale.gen \ && locale-gen en_US.utf8 \ && /usr/sbin/update-locale LANG=en_US.UTF-8 -RUN R -q -e 'pak::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git", dependencies = TRUE)' +RUN R -q -e 'pak::pak("git::https://codefloe.com/rpkgs/bincraftr.git", dependencies = TRUE)' -CMD ["/bin/bash"] \ No newline at end of file +CMD ["/bin/bash"] diff --git a/local/manual-package-index-update.R b/local/manual-package-index-update.R index 8cc2cd1..c786c1f 100644 --- a/local/manual-package-index-update.R +++ b/local/manual-package-index-update.R @@ -1,4 +1,4 @@ -# R -q -e 'pak::pak("git::https://gitlab.com/devxy/r-package-binaries/bincraftr.git")' +# R -q -e 'pak::pak("git::https://codefloe.com/rpkgs/bincraftr.git")' # remotes::install_gitlab("devxy/r-package-binaries/bincraftR") library(bincraftR) diff --git a/scripts/purge_cdn_cache.sh b/scripts/purge_cdn_cache.sh index 22feba6..a4e34c3 100644 --- a/scripts/purge_cdn_cache.sh +++ b/scripts/purge_cdn_cache.sh @@ -20,7 +20,7 @@ generate_urls() { local domain="$1" local arch="$2" local os_id="$3" - + # Array of resource paths (can be modified or extended as needed) local resources=( "src/contrib/PACKAGES" @@ -28,7 +28,7 @@ generate_urls() { "src/contrib/PACKAGES.rds" "src/contrib/PACKAGES.db" ) - + local urls=() for resource in "${resources[@]}"; do local target_url="https://${domain}/${arch}/${os_id}/latest/${resource}" @@ -36,23 +36,23 @@ generate_urls() { encoded=$(urlencode "$target_url") urls+=( "https://api.bunny.net/purge?url=${encoded}&async=false" ) done - + echo "${urls[@]}" } # Function to process multiple domains. -# Usage: process_domains domain1 [domain2 ... domainN] +# Usage: process_domains domain1 [domain2 ... domainN] purge_cdn_cache() { local api_key="$1" local arch="$2" local os_id="$3" shift 3 # Remove the first three arguments, leaving the domains - + for domain in "$@"; do # Generate the list of URLs for the current domain local urls urls=($(generate_urls "$domain" "$arch" "$os_id")) - + # Purge each URL for url in "${urls[@]}"; do purge "$api_key" "$url" @@ -61,4 +61,4 @@ purge_cdn_cache() { } # Example usage: -# purge_cdn_cache "$BUNNY_API_KEY" "$ARCH" "$OS_ID" "domain1.com" "domain2.com" \ No newline at end of file +# purge_cdn_cache "$BUNNYNET_API_KEY" "$ARCH" "$OS_ID" "domain1.com" "domain2.com"