image regressions
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3C6318841EF78925
3 changed files with 29 additions and 11 deletions
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@ -12,6 +12,8 @@ FROM alpine:3.20.3 AS final
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ARG R_VERSION=4.4.2
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ENV PATH=/opt/R/${R_VERSION}/bin:$PATH
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ENV TZ="Europe/Berlin"
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ENV R_LIBS_USER=/mnt/cache/R-pkgs
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ENV R_PKG_CACHE_DIR=/mnt/cache/pkgcache
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ARG ARCH=arm64
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ENV NCPUS=2
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@ -39,13 +41,16 @@ RUN apk del lapack lapack-dev
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RUN apk add -q --no-cache R-dev curl ca-certificates bash g++ tzdata openjdk17 tar sed patch openblas-dev pkgconfig linux-headers ccache libxml2-dev libgit2-dev libpq-dev pkgconfig fftw-dev automake autoconf libtool elfutils-dev
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# - Chromium should be auto-installed once pkgdepends merges the latest system-requirements rule changes
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RUN apk add -q --no-cache chromium
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# FIXME: https://github.com/dmlc/xgboost/issues/8595
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RUN apk add --no-cache --update --repository=https://dl-cdn.alpinelinux.org/alpine/v3.16/main/ libexecinfo-dev
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# https://github.com/RcppCore/Rcpp/issues/448#issuecomment-220148774
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# LDFLAGS+=-fPIC -> arrow (https://github.com/r-hub/r-minimal/blob/main/examples/arrow/Dockerfile)
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# dbarts: CFLAGS += -flax-vector-conversions (https://github.com/vdorie/dbarts/issues/66)
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# CXXFLAGS: -> Rcpp
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# -DDMLC_USE_FOPEN64=0 -> xgboost (https://github.com/dmlc/xgboost/issues/8595)
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# can't set ccache for gfortran because of https://gitlab.com/roigrp/solver/highs/-/issues/4
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RUN mkdir -p /root/.R && bash -c 'echo -e "CXX_STD = CXX14\nCXXFLAGS=-D__MUSL__\nCPPFLAGS=-D__MUSL__\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'
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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'
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# R repos
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RUN bash -c 'echo -e "options(crayon.enabled = TRUE, Ncpus = ${NCPUS}, future.globals.onReference = NULL, repos = structure(c(CRAN = \"https://cran.devxy.io/$ARCH/alpine320/latest\", INLA = \"https://inla.r-inla-download.org/R/stable\")))" > /root/.Rprofile'
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@ -57,6 +62,9 @@ RUN apk add --allow-untrusted "r-${R_VERSION}_1_$(arch).apk" && rm "r-${R_VERSIO
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RUN R -q -e 'install.packages("pak", repos = sprintf("https://r-lib.github.io/p/pak/devel/%s/%s/%s", .Platform$pkgType, R.Version()$os, R.Version()$arch))'
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# these dirs will later be used by the CI with existing mounts
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RUN mkdir -p /mnt/cache/packages /mnt/cache/pkgcache /mnt/cache/R-pkgs
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# FIXME: switch to pak after https://github.com/r-lib/pak/issues/628
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# deps from pak::pkg_deps(".")$package
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RUN R -q -e 'pak::pak(c("DBI", "R6", "RPostgres", "Rcpp", "askpass", "base64enc", "bit64", "bit", "blob", "callr", "cli", "credentials", "curl", "data.table", "desc", "digest", "dplyr", "fansi", "fs", "future.apply", "future", "generics", "gert", "globals", "glue", "hms", "httr", "jsonlite", "lgr", "lifecycle", "listenv", "lubridate", "magrittr", "mime", "openssl", "parallelly", "paws.common", "paws.storage", "pillar", "pkgbuild", "pkgconfig", "processx", "progressr", "ps", "purrr", "rlang", "rstudioapi", "s3fs", "stringi", "stringr", "sys", "tibble", "tidyselect", "timechange", "utf8", "vctrs", "withr", "xml2", "zip", "codetools", "cranlike", "RSQLite", "cachem", "crayon", "debugme", "fastmap", "memoise", "progress", "future.callr", "dbplyr"))'
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@ -17,6 +17,8 @@ ARG R_VERSION=4.4.2
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ARG RED_HAT_DEV_PW
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ENV PATH=/opt/R/${R_VERSION}/bin:$PATH
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ENV TZ="Europe/Berlin"
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ENV R_LIBS_USER=/mnt/cache/R-pkgs
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ENV R_PKG_CACHE_DIR=/mnt/cache/pkgcache
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ENV ARCH=arm64
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ENV NCPUS=2
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@ -31,7 +33,7 @@ RUN dnf install -y https://dl.fedoraproject.org/pub/epel/epel-release-latest-8.n
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# ImageMagick-c++-devel ImageMagick-devel: boths are not auto-installed via pak sysreqs
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# mecab-devel: RcppMeCab -> no autodetection yet
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# libfftw3-dev: ravetools -> actually auto-detect but somehow doesn't work in container?
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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
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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
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### CUSTOM DEPENDENCIES
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# These usually are not packaged in OS repositories and need to be installed from source
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@ -54,6 +56,9 @@ RUN mkdir -p /root/.R && bash -c 'echo -e "CXX_STD = CXX14\nCFLAGS += -flax-vect
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RUN bash -c 'echo -e "options(crayon.enabled = TRUE, Ncpus = ${NCPUS}, future.globals.onReference = NULL, repos = structure(c(CRAN = \"https://cran.devxy.io/$ARCH/rhel8/latest\", INLA = \"https://inla.r-inla-download.org/R/stable\")))" > /root/.Rprofile'
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RUN bash -c 'echo -e "PKG_SYSREQS = TRUE\nPKG_SYSREQS_VERBOSE = TRUE\nPKG_SYSREQS_PLATFORM=\"redhat-8\"" > /root/.Renviron'
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# these dirs will later be used by the CI with existing mounts
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RUN mkdir -p /mnt/cache/packages /mnt/cache/pkgcache /mnt/cache/R-pkgs
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# FIXME: switch to pak after https://github.com/r-lib/pak/issues/628
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# deps from pak::pkg_deps(".")$package
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RUN R -q -e 'pak::pak(c("DBI", "R6", "RPostgres", "Rcpp", "askpass", "base64enc", "bit64", "bit", "blob", "callr", "cli", "credentials", "curl", "data.table", "desc", "digest", "dplyr", "fansi", "fs", "future.apply", "future", "generics", "gert", "globals", "glue", "hms", "httr", "jsonlite", "lgr", "lifecycle", "listenv", "lubridate", "magrittr", "mime", "openssl", "parallelly", "paws.common", "paws.storage", "pillar", "pkgbuild", "pkgconfig", "processx", "progressr", "ps", "purrr", "rlang", "rstudioapi", "s3fs", "stringi", "stringr", "sys", "tibble", "tidyselect", "timechange", "utf8", "vctrs", "withr", "xml2", "zip", "codetools", "cranlike", "RSQLite", "cachem", "crayon", "debugme", "fastmap", "memoise", "progress", "future.callr", "dbplyr"))'
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@ -17,6 +17,8 @@ ARG R_VERSION=4.4.2
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ARG RED_HAT_DEV_PW
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ENV PATH=/opt/R/${R_VERSION}/bin:$PATH
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ENV TZ="Europe/Berlin"
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ENV R_LIBS_USER=/mnt/cache/R-pkgs
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ENV R_PKG_CACHE_DIR=/mnt/cache/pkgcache
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ENV ARCH=arm64
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ENV NCPUS=2
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@ -31,7 +33,7 @@ RUN dnf install -y https://dl.fedoraproject.org/pub/epel/epel-release-latest-9.n
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# ImageMagick-c++-devel ImageMagick-devel: boths are not auto-installed via pak sysreqs
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# mecab-devel: RcppMeCab -> no autodetection yet
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# libfftw3-dev: ravetools -> actually auto-detect but somehow doesn't work in container?
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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
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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
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### CUSTOM DEPENDENCIES
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# These usually are not packaged in OS repositories and need to be installed from source
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@ -41,7 +43,7 @@ RUN cd /JAGS-4.3.2 && make 2>&1 && make install 2>&1 >/dev/null && rm -rf JAGS-4
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RUN dnf install -y chromium
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### INSTALL R
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RUN curl -O "https://devxy-r-builds.s3.eu-central-003.backblazeb2.com/el8/R-${R_VERSION}-1-1.$(arch).rpm"
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RUN curl -O "https://devxy-r-builds.s3.eu-central-003.backblazeb2.com/el9/R-${R_VERSION}-1-1.$(arch).rpm"
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RUN dnf install -q -y "R-${R_VERSION}-1-1.$(arch).rpm" && rm "R-${R_VERSION}-1-1.$(arch).rpm"
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RUN R -q -e 'install.packages("pak", repos = sprintf("https://r-lib.github.io/p/pak/stable/%s/%s/%s", .Platform$pkgType, R.Version()$os, R.Version()$arch))'
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@ -54,6 +56,9 @@ RUN mkdir -p /root/.R && bash -c 'echo -e "CXX_STD = CXX14\nCFLAGS += -flax-vect
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RUN bash -c 'echo -e "options(crayon.enabled = TRUE, Ncpus = ${NCPUS}, future.globals.onReference = NULL, repos = structure(c(CRAN = \"https://cran.devxy.io/$ARCH/rhel9/latest\", INLA = \"https://inla.r-inla-download.org/R/stable\")))" > /root/.Rprofile'
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RUN bash -c 'echo -e "PKG_SYSREQS = TRUE\nPKG_SYSREQS_VERBOSE = TRUE\nPKG_SYSREQS_PLATFORM=\"redhat-9\"" > /root/.Renviron'
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# these dirs will later be used by the CI with existing mounts
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RUN mkdir -p /mnt/cache/packages /mnt/cache/pkgcache /mnt/cache/R-pkgs
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# FIXME: switch to pak after https://github.com/r-lib/pak/issues/628
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# deps from pak::pkg_deps(".")$package
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RUN R -q -e 'pak::pak(c("DBI", "R6", "RPostgres", "Rcpp", "askpass", "base64enc", "bit64", "bit", "blob", "callr", "cli", "credentials", "curl", "data.table", "desc", "digest", "dplyr", "fansi", "fs", "future.apply", "future", "generics", "gert", "globals", "glue", "hms", "httr", "jsonlite", "lgr", "lifecycle", "listenv", "lubridate", "magrittr", "mime", "openssl", "parallelly", "paws.common", "paws.storage", "pillar", "pkgbuild", "pkgconfig", "processx", "progressr", "ps", "purrr", "rlang", "rstudioapi", "s3fs", "stringi", "stringr", "sys", "tibble", "tidyselect", "timechange", "utf8", "vctrs", "withr", "xml2", "zip", "codetools", "cranlike", "RSQLite", "cachem", "crayon", "debugme", "fastmap", "memoise", "progress", "future.callr", "dbplyr"))'
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