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This commit is contained in:
Patrick Schratz 2024-12-16 09:38:00 +01:00
commit 42f702c4eb
Signed by: pat-s
GPG key ID: 3C6318841EF78925
3 changed files with 321 additions and 0 deletions
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107
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when:
- event: manual
evaluate: 'build == "all"'
# - event: manual
# evaluate: 'build == "alpine-321-amd64"'
- event: manual
evaluate: 'build == "alpine-321-amd64-2"'
- event: manual
evaluate: 'build == "all-amd64"'
skip_clone: true
steps:
- name: 'Build binaries'
image: docker.io/devxygmbh/amd64-binaries-r-alpine-321
pull: true
environment:
RED_HAT_DEV_PW:
from_secret: RED_HAT_DEV_PW
AWS_ACCESS_KEY_ID:
from_secret: AWS_ACCESS_KEY_ID
AWS_SECRET_ACCESS_KEY:
from_secret: AWS_SECRET_ACCESS_KEY
PGPASS:
from_secret: PGPASS
GIT_RO_TOKEN:
from_secret: GIT_RO_TOKEN
GITHUB_PAT:
from_secret: GITHUB_PAT
# normal env vars
GIT_USER: pat-s
# set the location of the 'pkgcache' cache dir which persists the R package dependencies needed to install the packages themselves
R_PKG_CACHE_DIR: /mnt/cache/pkgcache
R_LIBS_USER: /mnt/cache/R-pkgs
CCACHE_DIR: /mnt/cache/ccache
PLATFORM: alpine-321
BLOCK_START: 2201
BLOCK_END: 4400
ARCH: amd64
NCPUS: 2
STRATEGY: sequential
volumes:
- amd64-binaries-r-dep-cache-alpine-321:/mnt/cache
commands:
- git clone https://pat-s:$$GIT_RO_TOKEN@git.devxy.io/devxy/r-pkg-binaries.git .
- R -q -e 'packageVersion("bincraftR")'
- mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/ccache /mnt/cache/packages
# Windows-only: 'RInno', 'KeyboardSimulator', 'R2PPT', 'RWinEdt', 'blatr', 'excel.link', 'spectrino', 'taskscheduleR', 'MDSGUI', 'BiplotGUI', 'R2wd', 'rFUSION', 'MediaNews'
- xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL); pak::sysreqs_db_update(); if (file.exists(sprintf('/mnt/cache/%s.txt', Sys.getenv('CI_WORKFLOW_NAME')))) block_start = as.character(data.table::fread(sprintf('/mnt/cache/%s.txt', Sys.getenv('CI_WORKFLOW_NAME')), sep = '\t')) else block_start = Sys.getenv('BLOCK_START'); pkgs = as.character(available.packages('cloud.r-project.org/src/contrib')[, 'Package'])[block_start:$BLOCK_END]; pkgs = setdiff(pkgs, c('RInno', 'KeyboardSimulator', 'R2PPT', 'RWinEdt', 'blatr', 'excel.link', 'spectrino', 'taskscheduleR', 'MDSGUI', 'BiplotGUI', 'R2wd', 'rFUSION', 'MediaNews', 'DoE.base', 'DoE.wrapper', 'FrF2', 'FrF2.catlg128', 'eha', 'gRain', 'gRbase', 'doBy', 'IDPmisc', 'RVAideMemoire', 'pbkrtest', 'seewave', 'compareGroups', 'pls', 'SNPassoc', 'spdep', 'surveillance')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'alpine-321'))"
### Manual pkg builds
# webshot2, tabledown, TestAnaAPP, trekcolors, Spectran, SimNPH, RPushbullet, SimDesign, simCAT, SIAmodules, shinytest2, ShinyItemAnalysis, shinyIRT, shiny.benchmark, scDIFtest, RSP, qtkit, PROsetta, prettifyAddins, PerFit, outlierensembles, nomnoml, mxfda, MultBiplotR, mstDIF, mdsr, makepipe, lordif, kequate, jstager, jrt, irtreliability, irtQ, irtpwr, irtGUI, irtawsi, GRShiny, GPCMlasso, googletraffic, giacR, flps, flow, faoutlier, equateIRT, EnrichIntersect, EFA.dimensions, DFIT, D3mirt, ctgdist, CoTiMA, ConvertPar, bscui, BifactorIndicesCalculator, autoFC, airt: wait for https://github.com/rstudio/r-system-requirements/pull/178
# RInno: Windows-only
# skedastic: waiting for ROI.plugin.qpoases (https://gitlab.com/roigrp/solver/ROI.plugin.qpoases/-/issues/1)
# rswipl: ccache issues: https://github.com/mgondan/rswipl/issues/3 -> solved
# Rpoppler: https://github.com/rstudio/r-system-requirements/pull/179/
# ROracle: sysdep missing -> create rule
# ROI.plugin.qpoases: https://gitlab.com/roigrp/solver/ROI.plugin.qpoases/-/issues/1
# ROI.plugin.cplex: checking for cplex... no -> requires propriatary software IBM Cplex
# RmecabKo: fatal error: mecab.h: No such file or directory
# rmarchingcubes: error: narrowing conversion of '-1' from 'int' to 'char' [-Wnarrowing] -> https://github.com/shwilks/rmarchingcubes/issues/3
# RcppMeCab: /bin/bash: line 2: mecab-config: command not found -> https://github.com/rstudio/r-system-requirements/pull/180
# Rcplex: checking for cplex... no -> requires propriatary software IBM Cplex
# Rblpapi: Unknown architecture: aarch64. Exiting. -> https://github.com/Rblp/Rblpapi/issues/399
# Rbeast: aarch64 issue -> https://github.com/zhaokg/Rbeast/issues/29
# ravetools: checking for FFTW... configure: error: Package requirements (fftw3) were not met: -> fftw3 rule needed
# Racmacs -> rmarchingcubes
# minic: /usr/include/c++/13/bits/stl_algo.h:5805:5: note: template argument deduction/substitution failed:
# KSgeneral -> aligned_mem.h:6:10: fatal error: mm_malloc.h: No such file or directory -> https://github.com/d-dimitrova/KSgeneral/issues/1
# gpuR -> /usr/bin/ld: cannot find -lOpenCL: No such file or directory -> no GPU avail
# clrng -> gpuR
# BRugs: configure: error: OpenBUGS 3.2.2 or later not found. as it is only one package, not doing anything
# gamstransfer -> gdx/src/gdlib/gmsstrm.cpp:85:70: error: narrowing conversion of '-1' from 'std::char_traits<char>::int_type' {aka 'int'} to 'char' [-Wnarrowing] -> https://github.com/GAMS-dev/transfer-r/issues/2
# filters: <simpleError: `target` must be a character vector containing no `NA` values.> -> email sent
# magickGUI, biplotbootGUI
# ymd (alpine, voi)
# tfrmtbuilder -> V8 (alpine)
# Rcmdr (alpine)
# readstata13 (alpine)
# - xvfb-run R -q -e 'options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL); pkgs = c( "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA", "RcmdrPlugin.WorldFlora", "streamDAG", "stan4bart", "snplinkage", "saeHB.panel.beta", "rTwig", "rswipl", "RPointCloud", "rPDBapi", "rolog", "rmcfs", "rjags", "ResultModelManager", "RcppCWB", "RcmdrPlugin.WorldFlora", "RcmdrPlugin.UCA", "RcmdrPlugin.temis", "RcmdrPlugin.TeachStat", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.survival", "RcmdrPlugin.sos", "RcmdrPlugin.ROC", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.PcaRobust", "RclusTool", "Rbeast", "rayrender", "quanteda.textmodels", "polmineR", "plotBart", "NlinTS", "ndtv", "overtureR", "mathml", "magickGUI", "lgpr", "KappaGUI", "historicalborrow", "GSODR", "GRIDCOPULA", "googleAnalyticsR", "fluidsynth", "EventDetectGUI", "evalITR", "EBcoBART", "deeptrafo", "dbarts", "CRE", "countSTAR", "bartMan", "bartCause", "altmeta", "EthSEQ", "dartR.spatial", "dartR.sim", "gwid", "Mega2R", "priorCON", "prior3D", "MCARtest", "designmatch", "highs", "ROI.plugin.highs", "GPCMlasso"); library(bincraftR); options(progressr.enable = TRUE); foo = lapply(pkgs, function(x) build_binary_package(x, debug = FALSE, force = TRUE, platform = "amd64"))'
backend_options:
kubernetes:
resources:
requests:
memory: 5Gi
cpu: 1000m
limits:
memory: 20Gi
cpu: 2000m
nodeSelector:
kubernetes.io/arch: amd64
node.kubernetes.io/instance-type: AX42
tolerations:
- key: 'CI'
operator: 'Equal'
value: 'true'
effect: 'NoSchedule'
- name: 'ntfy'
image: binwiederhier/ntfy:v2.11.0
when:
- status: [failure]
environment:
NTFY_TOKEN:
from_secret: ntfy_token
commands: |
BUILD_INDEX=$(cat build_index.txt)
ntfy publish --tags=no_entry_sign --token $NTFY_TOKEN -t "Run '${CI_REPO}' failed at $BUILD_INDEX" --click="${CI_PIPELINE_URL}" --actions="view, Open build, ${CI_PIPELINE_URL}, clear=true;" ntfy.devxy.io/ci-builds Workflow: ${CI_WORKFLOW_NAME} Commit message: ${CI_COMMIT_MESSAGE} Commit Author: ${CI_COMMIT_AUTHOR}

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.woodpecker/build-alpine-321-amd64-single.yaml Normal file
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@ -0,0 +1,107 @@
when:
- event: manual
evaluate: 'build == "all"'
# - event: manual
# evaluate: 'build == "alpine-321-amd64"'
- event: manual
evaluate: 'build == "alpine-321-amd64-0"'
- event: manual
evaluate: 'build == "all-amd64"'
skip_clone: true
steps:
- name: 'Build binaries'
image: docker.io/devxygmbh/amd64-binaries-r-alpine-321
pull: true
environment:
RED_HAT_DEV_PW:
from_secret: RED_HAT_DEV_PW
AWS_ACCESS_KEY_ID:
from_secret: AWS_ACCESS_KEY_ID
AWS_SECRET_ACCESS_KEY:
from_secret: AWS_SECRET_ACCESS_KEY
PGPASS:
from_secret: PGPASS
GIT_RO_TOKEN:
from_secret: GIT_RO_TOKEN
GITHUB_PAT:
from_secret: GITHUB_PAT
# normal env vars
GIT_USER: pat-s
# set the location of the 'pkgcache' cache dir which persists the R package dependencies needed to install the packages themselves
R_PKG_CACHE_DIR: /mnt/cache/pkgcache
R_LIBS_USER: /mnt/cache/R-pkgs
CCACHE_DIR: /mnt/cache/ccache
PLATFORM: alpine-321
BLOCK_START: 17601
BLOCK_END: 19800
ARCH: amd64
NCPUS: 2
STRATEGY: sequential
volumes:
- amd64-binaries-r-dep-cache-alpine-321:/mnt/cache
commands:
- git clone https://pat-s:$$GIT_RO_TOKEN@git.devxy.io/devxy/r-pkg-binaries.git .
- R -q -e 'packageVersion("bincraftR")'
- mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/ccache /mnt/cache/packages
# Windows-only: 'RInno', 'KeyboardSimulator', 'R2PPT', 'RWinEdt', 'blatr', 'excel.link', 'spectrino', 'taskscheduleR', 'MDSGUI', 'BiplotGUI', 'R2wd', 'rFUSION', 'MediaNews'
- xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL); pkgs = c('adas.utils', 'BAREB', 'catalytic', 'compareGroups', 'displease', 'doBy', 'DoE.base', 'DoE.wrapper', 'eha', 'elrm', 'exhaustiveRasch', 'fasterRaster', 'FrF2', 'FrF2.catlg128', 'fuseMLR', 'gRain', 'gRbase', 'greta.gam', 'GrowthCurveME', 'IDPmisc', 'imputeREE', 'ImputeRobust', 'imputeTestbench', 'imputeTS', 'iMRMC', 'imsig', 'imt', 'IMTest', 'imuf', 'IRISMustangMetrics', 'IRISSeismic', 'iso8601', 'pacu', 'pbkrtest', 'pprof', 'PSGD', 'pwrFDR', 'qPRAentry', 'rBeta2009', 'RBF', 'rbgm', 'rbi', 'rbi.helpers', 'rBiasCorrection', 'rbibutils', 'rbin', 'rbioacc', 'rbioapi', 'rbiom', 'rbiouml', 'rbit', 'RblDataLicense', 'Rblpapi', 'rblt', 'rBMF', 'rbmi', 'rbmn', 'RBNZ', 'rbooster', 'Rborist', 'rbounds', 'RBPcurve', 'rbridge', 'RVAideMemoire', 'SeaVal', 'SeBR', 'SECFISH', 'SECP', 'secr', 'secrdesign', 'secret', 'secretbase', 'secrettext', 'secrlinear', 'secsse', 'sectorgap', 'secure', 'secuTrialR', 'sedproxy', 'see', 'seeclickfixr', 'seecolor', 'SeedCalc', 'seedCCA', 'seededlda', 'SeedImbibition', 'SeedMatchR', 'seedr', 'seedreg', 'seeds', 'SeedVigorIndex', 'seeker', 'seer', 'seewave', 'shinychat', 'spanishoddata', 'spEDM', 'splineCox', 'spphpr', 'stepSplitReg', 'tatooheene', 'teal', 'teal.data', 'teal.logger', 'teal.modules.clinical', 'teal.modules.general', 'teal.reporter', 'treeclim'); pkgs = setdiff(pkgs, c('RInno', 'KeyboardSimulator', 'R2PPT', 'RWinEdt', 'blatr', 'excel.link', 'spectrino', 'taskscheduleR', 'MDSGUI', 'BiplotGUI', 'R2wd', 'rFUSION', 'MediaNews', 'DoE.base', 'DoE.wrapper', 'FrF2', 'FrF2.catlg128', 'eha', 'gRain', 'gRbase', 'doBy', 'IDPmisc', 'RVAideMemoire', 'pbkrtest', 'seewave', 'compareGroups', 'pls', 'SNPassoc', 'spdep', 'surveillance')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'alpine-321'))"
### Manual pkg builds
# webshot2, tabledown, TestAnaAPP, trekcolors, Spectran, SimNPH, RPushbullet, SimDesign, simCAT, SIAmodules, shinytest2, ShinyItemAnalysis, shinyIRT, shiny.benchmark, scDIFtest, RSP, qtkit, PROsetta, prettifyAddins, PerFit, outlierensembles, nomnoml, mxfda, MultBiplotR, mstDIF, mdsr, makepipe, lordif, kequate, jstager, jrt, irtreliability, irtQ, irtpwr, irtGUI, irtawsi, GRShiny, GPCMlasso, googletraffic, giacR, flps, flow, faoutlier, equateIRT, EnrichIntersect, EFA.dimensions, DFIT, D3mirt, ctgdist, CoTiMA, ConvertPar, bscui, BifactorIndicesCalculator, autoFC, airt: wait for https://github.com/rstudio/r-system-requirements/pull/178
# RInno: Windows-only
# skedastic: waiting for ROI.plugin.qpoases (https://gitlab.com/roigrp/solver/ROI.plugin.qpoases/-/issues/1)
# rswipl: ccache issues: https://github.com/mgondan/rswipl/issues/3 -> solved
# Rpoppler: https://github.com/rstudio/r-system-requirements/pull/179/
# ROracle: sysdep missing -> create rule
# ROI.plugin.qpoases: https://gitlab.com/roigrp/solver/ROI.plugin.qpoases/-/issues/1
# ROI.plugin.cplex: checking for cplex... no -> requires propriatary software IBM Cplex
# RmecabKo: fatal error: mecab.h: No such file or directory
# rmarchingcubes: error: narrowing conversion of '-1' from 'int' to 'char' [-Wnarrowing] -> https://github.com/shwilks/rmarchingcubes/issues/3
# RcppMeCab: /bin/bash: line 2: mecab-config: command not found -> https://github.com/rstudio/r-system-requirements/pull/180
# Rcplex: checking for cplex... no -> requires propriatary software IBM Cplex
# Rblpapi: Unknown architecture: aarch64. Exiting. -> https://github.com/Rblp/Rblpapi/issues/399
# Rbeast: aarch64 issue -> https://github.com/zhaokg/Rbeast/issues/29
# ravetools: checking for FFTW... configure: error: Package requirements (fftw3) were not met: -> fftw3 rule needed
# Racmacs -> rmarchingcubes
# minic: /usr/include/c++/13/bits/stl_algo.h:5805:5: note: template argument deduction/substitution failed:
# KSgeneral -> aligned_mem.h:6:10: fatal error: mm_malloc.h: No such file or directory -> https://github.com/d-dimitrova/KSgeneral/issues/1
# gpuR -> /usr/bin/ld: cannot find -lOpenCL: No such file or directory -> no GPU avail
# clrng -> gpuR
# BRugs: configure: error: OpenBUGS 3.2.2 or later not found. as it is only one package, not doing anything
# gamstransfer -> gdx/src/gdlib/gmsstrm.cpp:85:70: error: narrowing conversion of '-1' from 'std::char_traits<char>::int_type' {aka 'int'} to 'char' [-Wnarrowing] -> https://github.com/GAMS-dev/transfer-r/issues/2
# filters: <simpleError: `target` must be a character vector containing no `NA` values.> -> email sent
# magickGUI, biplotbootGUI
# ymd (alpine, voi)
# tfrmtbuilder -> V8 (alpine)
# Rcmdr (alpine)
# readstata13 (alpine)
# - xvfb-run R -q -e 'options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL); pkgs = c( "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA", "RcmdrPlugin.WorldFlora", "streamDAG", "stan4bart", "snplinkage", "saeHB.panel.beta", "rTwig", "rswipl", "RPointCloud", "rPDBapi", "rolog", "rmcfs", "rjags", "ResultModelManager", "RcppCWB", "RcmdrPlugin.WorldFlora", "RcmdrPlugin.UCA", "RcmdrPlugin.temis", "RcmdrPlugin.TeachStat", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.survival", "RcmdrPlugin.sos", "RcmdrPlugin.ROC", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.PcaRobust", "RclusTool", "Rbeast", "rayrender", "quanteda.textmodels", "polmineR", "plotBart", "NlinTS", "ndtv", "overtureR", "mathml", "magickGUI", "lgpr", "KappaGUI", "historicalborrow", "GSODR", "GRIDCOPULA", "googleAnalyticsR", "fluidsynth", "EventDetectGUI", "evalITR", "EBcoBART", "deeptrafo", "dbarts", "CRE", "countSTAR", "bartMan", "bartCause", "altmeta", "EthSEQ", "dartR.spatial", "dartR.sim", "gwid", "Mega2R", "priorCON", "prior3D", "MCARtest", "designmatch", "highs", "ROI.plugin.highs", "GPCMlasso"); library(bincraftR); options(progressr.enable = TRUE); foo = lapply(pkgs, function(x) build_binary_package(x, debug = FALSE, force = TRUE, platform = "amd64"))'
backend_options:
kubernetes:
resources:
requests:
memory: 5Gi
cpu: 1000m
limits:
memory: 20Gi
cpu: 2000m
nodeSelector:
kubernetes.io/arch: amd64
node.kubernetes.io/instance-type: AX42
tolerations:
- key: 'CI'
operator: 'Equal'
value: 'true'
effect: 'NoSchedule'
- name: 'ntfy'
image: binwiederhier/ntfy:v2.11.0
when:
- status: [failure]
environment:
NTFY_TOKEN:
from_secret: ntfy_token
commands: |
BUILD_INDEX=$(cat build_index.txt)
ntfy publish --tags=no_entry_sign --token $NTFY_TOKEN -t "Run '${CI_REPO}' failed at $BUILD_INDEX" --click="${CI_PIPELINE_URL}" --actions="view, Open build, ${CI_PIPELINE_URL}, clear=true;" ntfy.devxy.io/ci-builds Workflow: ${CI_WORKFLOW_NAME} Commit message: ${CI_COMMIT_MESSAGE} Commit Author: ${CI_COMMIT_AUTHOR}

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.woodpecker/build-alpine-321-arm64-single.yaml Normal file
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@ -0,0 +1,107 @@
when:
- event: manual
evaluate: 'build == "all"'
# - event: manual
# evaluate: 'build == "alpine-321-arm64"'
- event: manual
evaluate: 'build == "alpine-321-arm64-0"'
- event: manual
evaluate: 'build == "all-arm64"'
skip_clone: true
steps:
- name: 'Build binaries'
image: docker.io/devxygmbh/arm64-binaries-r-alpine-321
pull: true
environment:
RED_HAT_DEV_PW:
from_secret: RED_HAT_DEV_PW
AWS_ACCESS_KEY_ID:
from_secret: AWS_ACCESS_KEY_ID
AWS_SECRET_ACCESS_KEY:
from_secret: AWS_SECRET_ACCESS_KEY
PGPASS:
from_secret: PGPASS
GIT_RO_TOKEN:
from_secret: GIT_RO_TOKEN
GITHUB_PAT:
from_secret: GITHUB_PAT
# normal env vars
GIT_USER: pat-s
# set the location of the 'pkgcache' cache dir which persists the R package dependencies needed to install the packages themselves
R_PKG_CACHE_DIR: /mnt/cache/pkgcache
R_LIBS_USER: /mnt/cache/R-pkgs
CCACHE_DIR: /mnt/cache/ccache
PLATFORM: alpine-321
BLOCK_START: 17601
BLOCK_END: 19800
ARCH: arm64
NCPUS: 2
STRATEGY: sequential
volumes:
- arm64-binaries-r-dep-cache-alpine-321:/mnt/cache
commands:
- git clone https://pat-s:$$GIT_RO_TOKEN@git.devxy.io/devxy/r-pkg-binaries.git .
- R -q -e 'packageVersion("bincraftR")'
- mkdir -p /mnt/cache/pkgcache /mnt/cache/R-pkgs /mnt/cache/ccache /mnt/cache/packages
# Windows-only: 'RInno', 'KeyboardSimulator', 'R2PPT', 'RWinEdt', 'blatr', 'excel.link', 'spectrino', 'taskscheduleR', 'MDSGUI', 'BiplotGUI', 'R2wd', 'rFUSION', 'MediaNews'
- xvfb-run R -q -e "options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL); pkgs = c('adas.utils', 'BAREB', 'catalytic', 'datacutr', 'doBy', 'DoE.base', 'DoE.wrapper', 'eha', 'elrm', 'exhaustiveRasch', 'fasterRaster', 'FrF2', 'FrF2.catlg128', 'fuseMLR', 'gRain', 'gRbase', 'greta.gam', 'GrowthCurveME', 'IDPmisc', 'pacu', 'pbkrtest', 'PSGD', 'pwrFDR', 'qPRAentry', 'RVAideMemoire', 'seewave', 'shinychat', 'SNPassoc', 'spanishoddata', 'spdep', 'splineCox', 'stepSplitReg', 'surveillance', 'tatooheene'); pkgs = setdiff(pkgs, c('RInno', 'KeyboardSimulator', 'R2PPT', 'RWinEdt', 'blatr', 'excel.link', 'spectrino', 'taskscheduleR', 'MDSGUI', 'BiplotGUI', 'R2wd', 'rFUSION', 'MediaNews', 'DoE.base', 'DoE.wrapper', 'FrF2', 'FrF2.catlg128', 'eha', 'gRain', 'gRbase', 'doBy', 'IDPmisc', 'RVAideMemoire', 'pbkrtest', 'seewave', 'compareGroups', 'pls', 'SNPassoc', 'spdep', 'surveillance')); progressr::handlers('cli'); progressr::handlers(global = TRUE); foo = lapply(pkgs, function(x) bincraftR::build_binary_package(x, debug = FALSE, force = TRUE, platform = 'alpine-321'))"
### Manual pkg builds
# webshot2, tabledown, TestAnaAPP, trekcolors, Spectran, SimNPH, RPushbullet, SimDesign, simCAT, SIAmodules, shinytest2, ShinyItemAnalysis, shinyIRT, shiny.benchmark, scDIFtest, RSP, qtkit, PROsetta, prettifyAddins, PerFit, outlierensembles, nomnoml, mxfda, MultBiplotR, mstDIF, mdsr, makepipe, lordif, kequate, jstager, jrt, irtreliability, irtQ, irtpwr, irtGUI, irtawsi, GRShiny, GPCMlasso, googletraffic, giacR, flps, flow, faoutlier, equateIRT, EnrichIntersect, EFA.dimensions, DFIT, D3mirt, ctgdist, CoTiMA, ConvertPar, bscui, BifactorIndicesCalculator, autoFC, airt: wait for https://github.com/rstudio/r-system-requirements/pull/178
# RInno: Windows-only
# skedastic: waiting for ROI.plugin.qpoases (https://gitlab.com/roigrp/solver/ROI.plugin.qpoases/-/issues/1)
# rswipl: ccache issues: https://github.com/mgondan/rswipl/issues/3 -> solved
# Rpoppler: https://github.com/rstudio/r-system-requirements/pull/179/
# ROracle: sysdep missing -> create rule
# ROI.plugin.qpoases: https://gitlab.com/roigrp/solver/ROI.plugin.qpoases/-/issues/1
# ROI.plugin.cplex: checking for cplex... no -> requires propriatary software IBM Cplex
# RmecabKo: fatal error: mecab.h: No such file or directory
# rmarchingcubes: error: narrowing conversion of '-1' from 'int' to 'char' [-Wnarrowing] -> https://github.com/shwilks/rmarchingcubes/issues/3
# RcppMeCab: /bin/bash: line 2: mecab-config: command not found -> https://github.com/rstudio/r-system-requirements/pull/180
# Rcplex: checking for cplex... no -> requires propriatary software IBM Cplex
# Rblpapi: Unknown architecture: aarch64. Exiting. -> https://github.com/Rblp/Rblpapi/issues/399
# Rbeast: aarch64 issue -> https://github.com/zhaokg/Rbeast/issues/29
# ravetools: checking for FFTW... configure: error: Package requirements (fftw3) were not met: -> fftw3 rule needed
# Racmacs -> rmarchingcubes
# minic: /usr/include/c++/13/bits/stl_algo.h:5805:5: note: template argument deduction/substitution failed:
# KSgeneral -> aligned_mem.h:6:10: fatal error: mm_malloc.h: No such file or directory -> https://github.com/d-dimitrova/KSgeneral/issues/1
# gpuR -> /usr/bin/ld: cannot find -lOpenCL: No such file or directory -> no GPU avail
# clrng -> gpuR
# BRugs: configure: error: OpenBUGS 3.2.2 or later not found. as it is only one package, not doing anything
# gamstransfer -> gdx/src/gdlib/gmsstrm.cpp:85:70: error: narrowing conversion of '-1' from 'std::char_traits<char>::int_type' {aka 'int'} to 'char' [-Wnarrowing] -> https://github.com/GAMS-dev/transfer-r/issues/2
# filters: <simpleError: `target` must be a character vector containing no `NA` values.> -> email sent
# magickGUI, biplotbootGUI
# ymd (alpine, voi)
# tfrmtbuilder -> V8 (alpine)
# Rcmdr (alpine)
# readstata13 (alpine)
# - xvfb-run R -q -e 'options(crayon.enabled = TRUE, Ncpus = $NCPUS, future.globals.onReference = NULL); pkgs = c( "RcmdrPlugin.orloca", "RcmdrPlugin.PcaRobust", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.ROC", "RcmdrPlugin.sos" , "RcmdrPlugin.survival", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.TeachStat", "RcmdrPlugin.temis", "RcmdrPlugin.UCA", "RcmdrPlugin.WorldFlora", "streamDAG", "stan4bart", "snplinkage", "saeHB.panel.beta", "rTwig", "rswipl", "RPointCloud", "rPDBapi", "rolog", "rmcfs", "rjags", "ResultModelManager", "RcppCWB", "RcmdrPlugin.WorldFlora", "RcmdrPlugin.UCA", "RcmdrPlugin.temis", "RcmdrPlugin.TeachStat", "RcmdrPlugin.TeachingDemos", "RcmdrPlugin.survival", "RcmdrPlugin.sos", "RcmdrPlugin.ROC", "RcmdrPlugin.RMTCJags", "RcmdrPlugin.RiskDemo", "RcmdrPlugin.PcaRobust", "RclusTool", "Rbeast", "rayrender", "quanteda.textmodels", "polmineR", "plotBart", "NlinTS", "ndtv", "overtureR", "mathml", "magickGUI", "lgpr", "KappaGUI", "historicalborrow", "GSODR", "GRIDCOPULA", "googleAnalyticsR", "fluidsynth", "EventDetectGUI", "evalITR", "EBcoBART", "deeptrafo", "dbarts", "CRE", "countSTAR", "bartMan", "bartCause", "altmeta", "EthSEQ", "dartR.spatial", "dartR.sim", "gwid", "Mega2R", "priorCON", "prior3D", "MCARtest", "designmatch", "highs", "ROI.plugin.highs", "GPCMlasso"); library(bincraftR); options(progressr.enable = TRUE); foo = lapply(pkgs, function(x) build_binary_package(x, debug = FALSE, force = TRUE, platform = "arm64"))'
backend_options:
kubernetes:
resources:
requests:
memory: 5Gi
cpu: 1000m
limits:
memory: 20Gi
cpu: 2000m
nodeSelector:
kubernetes.io/arch: arm64
node.kubernetes.io/instance-type: cax41
tolerations:
- key: 'CI'
operator: 'Equal'
value: 'true'
effect: 'NoSchedule'
- name: 'ntfy'
image: binwiederhier/ntfy:v2.11.0
when:
- status: [failure]
environment:
NTFY_TOKEN:
from_secret: ntfy_token
commands: |
BUILD_INDEX=$(cat build_index.txt)
ntfy publish --tags=no_entry_sign --token $NTFY_TOKEN -t "Run '${CI_REPO}' failed at $BUILD_INDEX" --click="${CI_PIPELINE_URL}" --actions="view, Open build, ${CI_PIPELINE_URL}, clear=true;" ntfy.devxy.io/ci-builds Workflow: ${CI_WORKFLOW_NAME} Commit message: ${CI_COMMIT_MESSAGE} Commit Author: ${CI_COMMIT_AUTHOR}