mybinder Cookbook

李家翔

2020-02-24

1. 使用 RMarkdown 的 child 参数，进行文档拼接。
2. 这样拼接以后的笔记方便复习。
3. 相关问题提交到 Issue

以项目 tutoring2 和 nCov2019_analysis为例。

http://beta.mybinder.org/v2/gh/JiaxiangBU/tutoring2/master?urlpath=rstudio

参考 https://github.com/2018-Computational-Tools/syllabus/blob/80e73fe6aa4e12098868eeb2d04e66346a44b811/docs/resources/week12_problem_set_binder_setup_md.Rmd

1 查找不到 DESCRIPTION

打开 mybind.org 报错。

Step 7/7 : RUN wget https://github.com/JiaxiangBU/tutoring/raw/master/DESCRIPTION && R -e "options(repos = list(CRAN = 'http://mran.revolutionanalytics.com/snapshot/2019-07-05/')); devtools::install_deps()"
 ---> Running in ca46e7c23c5b
--2020-02-23 17:42:34--  https://github.com/JiaxiangBU/tutoring/raw/master/DESCRIPTION
Resolving github.com (github.com)... 192.30.253.113
Connecting to github.com (github.com)|192.30.253.113|:443... connected.
HTTP request sent, awaiting response... 404 Not Found
2020-02-23 17:42:34 ERROR 404: Not Found.

Removing intermediate container ca46e7c23c5b
The command '/bin/sh -c wget https://github.com/JiaxiangBU/tutoring/raw/master/DESCRIPTION && R -e "options(repos = list(CRAN = 'http://mran.revolutionanalytics.com/snapshot/2019-07-05/')); devtools::install_deps()"' returned a non-zero code: 8

打开文件Dockerfile

fs::dir_ls("../tutoring2/.binder")

## ../tutoring2/.binder/Dockerfile

FROM rocker/binder:3.6.0
LABEL maintainer='Jiaxiang Li'
USER root
COPY . ${HOME}
RUN chown -R ${NB_USER} ${HOME}
USER ${NB_USER}
RUN wget https://github.com/JiaxiangBU/tutoring2/raw/master/DESCRIPTION && R -e "options(repos = list(CRAN = 'http://mran.revolutionanalytics.com/snapshot/2019-07-05/')); devtools::install_deps()"

保证RUN wget https://github.com/JiaxiangBU/tutoring2/raw/master/DESCRIPTION路径准确。

2 holepunch

参考 https://karthik.github.io/holepunch/articles/getting_started.html

remotes::install_github("karthik/holepunch")

library(holepunch)
write_install()

library(tidyverse)
install_path <- ".binder/install.R"
read_lines(install_path) %>% unique() %>% 
    write_lines(install_path)

write_runtime()

generate_badge()

build_binder()

附录

参考文献