remotes包不能在慢带宽下install_github公共github包

Question

我正在努力安装一个公共R包(140 to )在码头映像构建与一个摇滚/TidyVerse基础映像。

我能够在快速的互联网连接(200 4Mbps )上建立图像，但在4 4Mbps上挣扎

#11 687.2 The downloaded source packages are in
#11 687.2       ‘/tmp/Rtmpol4fiC/downloaded_packages’
#11 688.9 Downloading GitHub repo asgr/ProSpect@master
#11 748.8 Error in utils::download.file(url, path, method = method, quiet = quiet,  : 
#11 748.8   download from 'https://api.github.com/repos/asgr/ProSpect/tarball/master' failed
#11 749.1 Skipping install of 'Rfits' from a github remote, the SHA1 (7050c11a) has not changed since last install.
#11 749.1   Use `force = TRUE` to force installation
#11 749.4 Skipping install of 'ProFit' from a github remote, the SHA1 (3ad5fa18) has not changed since last install.
#11 749.4   Use `force = TRUE` to force installation
#11 749.7 * checking for file ‘/tmp/Rtmpol4fiC/remotes6494ed363/kateharborne-SimSpin-857278e/DESCRIPTION’ ... OK
#11 749.8 * preparing ‘SimSpin’:
#11 749.8 * checking DESCRIPTION meta-information ... OK
#11 749.8 * cleaning src
#11 749.9 * installing the package to process help pages
#11 750.3       -----------------------------------
#11 750.3 ERROR: dependency ‘ProSpect’ is not available for package ‘SimSpin’
#11 750.3 * removing ‘/tmp/RtmpUvUFDh/Rinsta8b47db6258/SimSpin’
#11 750.3       -----------------------------------
#11 750.3 ERROR: package installation failed
#11 750.5 Error: Failed to install 'SimSpin' from GitHub:
#11 750.5   System command 'R' failed, exit status: 1, stdout & stderr were printed
#11 750.5 Execution halted

我尝试增加超时，指定下载方法(libcurl)，首先安装违规包(ProSpect)，但没有效果。有没有人看到类似的东西或有任何建议？在从github下载较慢带宽的remotes (和devtools)中，这是一个一致的问题。

# Dockerfile for R-based software (SimSpin)
#FROM rocker/r-ver:4.1.2
FROM rocker/tidyverse:4.0.2

RUN apt-get -y update && apt-get install -y xml2 openssl libhdf5-dev libfftw3-dev curl

RUN R -e 'install.packages("remotes")'
RUN R -e 'options(timeout=9999999)'
RUN R -e 'options(download.file.method = "libcurl")'
RUN R -e 'Sys.setenv(R_REMOTES_NO_ERRORS_FROM_WARNINGS="true")'
RUN R -e 'remotes::install_github("asgr/ProSpect", ref="master")'
RUN R -e 'remotes::install_github("kateharborne/SimSpin", ref="master")'

更新--我已经把它缩小到了remotes:install_github在慢连接上的问题(4 4Mbps下载)。我不知道该怎么配置才能绕过这个..。(如果我在40Mbps+上运行相同的安装，它就不会安装问题，但是我不能一直访问该带宽)。

> remotes::install_github("kateharborne/SimSpin", ref="master")
Downloading GitHub repo kateharborne/SimSpin@master
Error in utils::download.file(url, path, method = method, quiet = quiet,  : 
  download from 'https://api.github.com/repos/kateharborne/SimSpin/tarball/master' failed

Answer 1

如果您没有使用install_github，而是克隆了回购a la：

git clone https://github.com/kateharborne/SimSpin
cd SimSpin

然后用

devtools::install()

另一个选项是为download.file设置超时选项，如下所示：

options(timeout=1000)

Answer 2

我认为您也必须安装httr :我认为remotes使用httr，但是不管出于什么原因，都不会在依赖项中安装它。

FROM rocker/tidyverse:4.0.2

RUN apt-get -y update && apt-get install -y xml2 openssl libhdf5-dev libfftw3-dev curl
RUN R -e 'install.packages("httr")'
RUN R -e 'install.packages("remotes")'
RUN R -e 'options(timeout=9999999)'
RUN R -e 'options(download.file.method = "libcurl")'
RUN R -e 'Sys.setenv(R_REMOTES_NO_ERRORS_FROM_WARNINGS="true")'
RUN R -e 'remotes::install_github("asgr/ProSpect", ref="master")'
RUN R -e 'remotes::install_github("kateharborne/SimSpin", ref="master")'