Computational Documents
rocker 도커 컨테이너 - Dockerfile & Docker Hub
xwMOOC
2020-02-01
1 도커 교재
도커 컨테이너 기술이 필요한 이유는 재현가능한 데이터 과학 제품 개발을 위해서 반듯이 필요하다. 현재의 상황을 살펴보면 다양한 운영체제가 존재하고 이에 맞춰 정말 다양한 오픈소스를 동원해서 최종 데이터 과학 제품을 제작해야 하는데 매번 이를 source 코드를 가지고 컴파일해서 환경을 구축해서 작업하는 것은 완전히 시간낭비다.
도커와 R 마크다운
도커 CRUD 명령어 1
docker system prune: 이미지 + 컨테이너 + 볼륨 제거docker rmi: 이미지 제거docker rm: 컨테이너 제거docker volume rm: 볼륨 제거
2 \(\LaTeX\) 도커 이미지
2.1 rocker/verse \(\LaTeX\) 도커 이미지
docker images 명령어를 통해서 rocker/verse를 그냥 도커 컨테이너로 띄우게 되면 한글 폰트가 설치되지 않아 PDF 문서가 제대로 생성되지 않는 문제가 발생된다.
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker images
REPOSITORY TAG IMAGE ID CREATED SIZE
verse-korean latest b9ca53eb60df 2 days ago 3.32GB
rocker/verse latest def324c74d22 3 days ago 3.13GB
rocker/rstudio latest a2f92e4ee8db 3 days ago 1.46GB
hello-world latest fce289e99eb9 13 months ago 1.84kB
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker run -d -e PASSWORD=tidyverse --rm --name latex -p 8787:8787 -v /Users/statkclee/swc/compendium_301:/home/rstudio/compendium rocker/verse
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker ps -a
CONTAINER ID IMAGE COMMAND CREATED STATUS PORTS NAMES
aa7793dca1c2 rocker/verse "/init" 35 hours ago Up 35 hours 0.0.0.0:8787->8787/tcp latex
81c307ba5cff hello-world "/hello" 2 days ago Exited (0) 2 days ago hello-dockerOne Source Mult-Use - Make (PDF, HTML, docx…) 간단히 .Rmd 파일을 컴파일 해서 PDF, HtmL, DOCX 파일을 만들어내는 사례를 도커 이미지를 통해 작업을 할 경우 한글 폰트가 rocker/verse 이미지에 포함되지 않아서 PDF 파일을 생성하지 못한다.
rstudio@aa7793dca1c2:~/compendium$ make clean
rm -f analysis/*.html analysis/*.md processed/*
rm -f analysis/*.pdf analysis/*.docx
rstudio@aa7793dca1c2:~/compendium$ make all
Rscript R/make_dataframe.R
── Attaching packages ─────────────────────────────────────────────────────────── tidyverse 1.3.0 ──
✓ ggplot2 3.2.1 ✓ purrr 0.3.3
✓ tibble 2.1.3 ✓ dplyr 0.8.3
✓ tidyr 1.0.2 ✓ stringr 1.4.0
✓ readr 1.3.1 ✓ forcats 0.4.0
── Conflicts ────────────────────────────────────────────────────────────── tidyverse_conflicts() ──
x dplyr::filter() masks stats::filter()
x dplyr::lag() masks stats::lag()
Warning message:
In dir.create("processed") : 'processed' already exists
Parsed with column specification:
cols(
X1 = col_character()
)
Rscript R/make_histogram.R
── Attaching packages ─────────────────────────────────────────────────────────── tidyverse 1.3.0 ──
✓ ggplot2 3.2.1 ✓ purrr 0.3.3
✓ tibble 2.1.3 ✓ dplyr 0.8.3
✓ tidyr 1.0.2 ✓ stringr 1.4.0
✓ readr 1.3.1 ✓ forcats 0.4.0
── Conflicts ────────────────────────────────────────────────────────────── tidyverse_conflicts() ──
x dplyr::filter() masks stats::filter()
x dplyr::lag() masks stats::lag()
Parsed with column specification:
cols(
word_len = col_double(),
n = col_double()
)
Saving 7 x 7 in image
Rscript R/make_report.R
── Attaching packages ─────────────────────────────────────────────────────────── tidyverse 1.3.0 ──
✓ ggplot2 3.2.1 ✓ purrr 0.3.3
✓ tibble 2.1.3 ✓ dplyr 0.8.3
✓ tidyr 1.0.2 ✓ stringr 1.4.0
✓ readr 1.3.1 ✓ forcats 0.4.0
── Conflicts ────────────────────────────────────────────────────────────── tidyverse_conflicts() ──
x dplyr::filter() masks stats::filter()
x dplyr::lag() masks stats::lag()
processing file: report.Rmd
|.............. | 20%
inline R code fragments
|............................ | 40%
label: setup (with options)
List of 1
$ include: logi FALSE
|.......................................... | 60%
ordinary text without R code
|........................................................ | 80%
label: load-hist-dat (with options)
List of 1
$ include: logi FALSE
Parsed with column specification:
cols(
word_len = col_double(),
n = col_double()
)
|......................................................................| 100%
inline R code fragments
output file: report.knit.md
/usr/lib/rstudio-server/bin/pandoc/pandoc +RTS -K512m -RTS report.utf8.md --to html4 --from markdown+autolink_bare_uris+tex_math_single_backslash+smart --output /home/rstudio/compendium/analysis/report.html --email-obfuscation none --self-contained --standalone --section-divs --template /usr/local/lib/R/site-library/rmarkdown/rmd/h/default.html --no-highlight --variable highlightjs=1 --variable 'theme:bootstrap' --include-in-header /tmp/RtmpLuJoAp/rmarkdown-str199799974aa.html --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/pagebreak.lua --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/latex-div.lua
Output created: analysis/report.html
processing file: report.Rmd
|.............. | 20%
inline R code fragments
|............................ | 40%
label: setup (with options)
List of 1
$ include: logi FALSE
|.......................................... | 60%
ordinary text without R code
|........................................................ | 80%
label: load-hist-dat (with options)
List of 1
$ include: logi FALSE
Parsed with column specification:
cols(
word_len = col_double(),
n = col_double()
)
|......................................................................| 100%
inline R code fragments
output file: report.knit.md
/usr/lib/rstudio-server/bin/pandoc/pandoc +RTS -K512m -RTS report.utf8.md --to latex --from markdown+autolink_bare_uris+tex_math_single_backslash --output /home/rstudio/compendium/analysis/report.tex --self-contained --table-of-contents --toc-depth 2 --highlight-style tango --pdf-engine xelatex --variable graphics --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/pagebreak.lua --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/latex-div.lua --variable mainfont=NanumGothic --variable 'geometry:margin=1in'
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
tlmgr: package repository https://www.texlive.info/tlnet-archive/2019/02/27/tlnet (not verified: gpg unavailable)
[1/1, ??:??/??:??] install: unicode-math [43k]
chmod(420,/opt/TinyTeX/tlpkg/texlive.tlpdb) failed: Operation not permitted at /opt/TinyTeX/tlpkg/TeXLive/TLUtils.pm line 1161.
running mktexlsr ...
done running mktexlsr.
tlmgr: package log updated: /opt/TinyTeX/texmf-var/web2c/tlmgr.log
add_link_dir_dir: destination /usr/local/bin not writable, no links from /opt/TinyTeX/bin/x86_64-linux.
add of symlinks had 1 error(s), see messages above.
tlmgr: An error has occurred. See above messages. Exiting.
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
tlmgr: package repository https://www.texlive.info/tlnet-archive/2019/02/27/tlnet (not verified: gpg unavailable)
[1/1, ??:??/??:??] install: filehook [4k]
chmod(420,/opt/TinyTeX/tlpkg/texlive.tlpdb) failed: Operation not permitted at /opt/TinyTeX/tlpkg/TeXLive/TLUtils.pm line 1161.
running mktexlsr ...
done running mktexlsr.
tlmgr: package log updated: /opt/TinyTeX/texmf-var/web2c/tlmgr.log
add_link_dir_dir: destination /usr/local/bin not writable, no links from /opt/TinyTeX/bin/x86_64-linux.
add of symlinks had 1 error(s), see messages above.
tlmgr: An error has occurred. See above messages. Exiting.
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
tlmgr: package repository https://www.texlive.info/tlnet-archive/2019/02/27/tlnet (not verified: gpg unavailable)
tlmgr install: package already present: kpathsea
add_link_dir_dir: destination /usr/local/bin not writable, no links from /opt/TinyTeX/bin/x86_64-linux.
add of symlinks had 1 error(s), see messages above.
tlmgr: An error has occurred. See above messages. Exiting.
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
! Package fontspec Error: The font "NanumGothic" cannot be found.
! kpathsea: Running mktextfm NanumGothic
! /opt/TinyTeX/texmf-dist/web2c/mktexnam: Could not map source abbreviation for NanumGothic.
! /opt/TinyTeX/texmf-dist/web2c/mktexnam: Need to update ?
! mktextfm: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1; nonstopmode; input NanumGothic
! This is METAFONT, Version 2.7182818 (TeX Live 2018) (preloaded base=mf)
! /opt/TinyTeX/texmf-dist/web2c/mktexnam: Could not map source abbreviation for NanumGothic.
! /opt/TinyTeX/texmf-dist/web2c/mktexnam: Need to update ?
! mktextfm: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1; nonstopmode; input NanumGothic
! This is METAFONT, Version 2.7182818 (TeX Live 2018) (preloaded base=mf)
! /opt/TinyTeX/texmf-dist/web2c/mktexnam: Need to update ?
! mktextfm: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1; nonstopmode; input NanumGothic
! This is METAFONT, Version 2.7182818 (TeX Live 2018) (preloaded base=mf)
! mktextfm: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1; nonstopmode; input NanumGothic
! This is METAFONT, Version 2.7182818 (TeX Live 2018) (preloaded base=mf)
! This is METAFONT, Version 2.7182818 (TeX Live 2018) (preloaded base=mf)
! kpathsea: Running mktexmf NanumGothic
! ! I can't find file `NanumGothic'.
! <*> ...our; mag:=1; nonstopmode; input NanumGothic
! <*> ...our; mag:=1; nonstopmode; input NanumGothic
! Please type another input file name
! ! Emergency stop.
! <*> ...our; mag:=1; nonstopmode; input NanumGothic
! ! Emergency stop.
! <*> ...our; mag:=1; nonstopmode; input NanumGothic
! <*> ...our; mag:=1; nonstopmode; input NanumGothic
! Transcript written on mfput.log.
! grep: NanumGothic.log: No such file or directory
! mktextfm: `mf-nowin -progname=mf \mode:=ljfour; mag:=1; nonstopmode; input NanumGothic' failed to make NanumGothic.tfm.
! kpathsea: Appending font creation commands to missfont.log.
Error: LaTeX failed to compile /home/rstudio/compendium/analysis/report.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See report.log for more info.
Execution halted
make: *** [Makefile:8: analysis/report.html] Error 13 수작업 한글 폰트 설치
rocker/ 도커 이미지 중 \(\LaTeX\) 관련된 이미지가 verse다. 다만, 한글 \(\LaTeX\)이 없다는 것이 문제라… 이를 해결하기 위해서 다음 과정을 거친다. 먼저 도커 컨테이너를 latex이름으로 띄운다.
docker run -d -e PASSWORD=tidyverse --rm --name latex -p 8787:8787 -v /Users/statkclee/swc/compendium_301:/home/rstudio/compendium rocker/verse그리고 나서, docker exec latex /bin/bash으로 들어간다.
컨테이너 배쉬쉘에서 fc-list를 사용하면 나눔 폰트가 설치된 것이 확인되지 않는다. sudo apt-get update 명령어에 이어서 나눔 폰트를 설치해준다. 이를 통해서 나눔폰트가 설치된 것을 확인할 수 있다.
$ fc-list | grep "Nanum"
$ sudo apt-get update
$ sudo apt-get install fonts-nanum fonts-nanum-extra fonts-nanum-coding fonts-baekmuk fonts-unfonts-core fonts-unfonts-extra
$ fc-list | grep "Nanum"
/usr/share/fonts/truetype/nanum/NanumSquareRoundB.ttf: NanumSquareRound,나눔스퀘어라운드,NanumSquareRound Bold,나눔스퀘어라운드 Bold:style=Bold,Regular
/usr/share/fonts/truetype/nanum/NanumSquareRoundR.ttf: NanumSquareRound,나눔스퀘어라운드,NanumSquareRound Regular,나눔스퀘어라운드 Regular:style=Regular
/usr/share/fonts/truetype/nanum/NanumSquareB.ttf: NanumSquare,나눔스퀘어,NanumSquare Bold,나눔스퀘어 Bold:style=Bold
/usr/share/fonts/truetype/nanum/NanumGothicLight.ttf: NanumGothic,나눔고딕,NanumGothic Light,나눔고딕 Light:style=Light,Regular
/usr/share/fonts/truetype/nanum/NanumBrush.ttf: Nanum Brush Script,나눔손글씨 붓:style=Regular
/usr/share/fonts/truetype/nanum/NanumBarunGothic.ttf: NanumBarunGothic,나눔바른고딕:style=Regular
/usr/share/fonts/truetype/nanum/NanumBarunGothicUltraLight.ttf: NanumBarunGothic,나눔바른고딕,NanumBarunGothic UltraLight,나눔바른고딕 UltraLight:style=UltraLight
/usr/share/fonts/truetype/nanum/NanumGothic.ttf: NanumGothic,나눔고딕:style=Regular
/usr/share/fonts/truetype/nanum/NanumBarunpenB.ttf: NanumBarunpen,나눔바른펜,NanumBarunpen Bold:style=Bold
/usr/share/fonts/truetype/nanum/NanumGothicCoding.ttf: NanumGothicCoding,나눔고딕코딩:style=Regular
/usr/share/fonts/truetype/nanum/NanumBarunGothicBold.ttf: NanumBarunGothic,나눔바른고딕:style=Bold
/usr/share/fonts/truetype/nanum/NanumPen.ttf: Nanum Pen Script,나눔손글씨 펜:style=Regular
/usr/share/fonts/truetype/nanum/NanumBarunGothicLight.ttf: NanumBarunGothic,나눔바른고딕,NanumBarunGothic Light,나눔바른고딕 Light:style=Light
/usr/share/fonts/truetype/nanum/NanumSquareRoundL.ttf: NanumSquareRound,나눔스퀘어라운드,NanumSquareRound Light,나눔스퀘어라운드 Light:style=Light,Regular
/usr/share/fonts/truetype/nanum/NanumGothicBold.ttf: NanumGothic,나눔고딕:style=Bold
/usr/share/fonts/truetype/nanum/NanumGothicCoding-Bold.ttf: NanumGothicCoding,나눔고딕코딩:style=Bold
/usr/share/fonts/truetype/nanum/NanumSquareEB.ttf: NanumSquare,나눔스퀘어,NanumSquare ExtraBold,나눔스퀘어 ExtraBold:style=ExtraBold
/usr/share/fonts/truetype/nanum/NanumBarunpenR.ttf: NanumBarunpen,나눔바른펜:style=Regular
/usr/share/fonts/truetype/nanum/NanumSquareR.ttf: NanumSquare,나눔스퀘어:style=Regular
/usr/share/fonts/truetype/nanum/NanumMyeongjo.ttf: NanumMyeongjo,나눔명조:style=Regular
/usr/share/fonts/truetype/nanum/NanumSquareL.ttf: NanumSquare,나눔스퀘어,NanumSquare Light,나눔스퀘어 Light:style=Light
/usr/share/fonts/truetype/nanum/NanumMyeongjoBold.ttf: NanumMyeongjo,나눔명조:style=Bold
/usr/share/fonts/truetype/nanum/NanumMyeongjoExtraBold.ttf: NanumMyeongjo,나눔명조,NanumMyeongjoExtraBold,나눔명조 ExtraBold:style=ExtraBold
/usr/share/fonts/truetype/nanum/NanumSquareRoundEB.ttf: NanumSquareRound,나눔스퀘어라운드,NanumSquareRound ExtraBold,나눔스퀘어라운드 ExtraBold:style=ExtraBold,Regular
/usr/share/fonts/truetype/nanum/NanumGothicExtraBold.ttf: NanumGothic,나눔고딕,NanumGothicExtraBold,나눔고딕 ExtraBold:style=ExtraBold마지막 단계로 localhohst:8787로 접근한 후에 RStudio 콘솔에서 make all 명령어를 실행시키게 되면 .pdf 파일도 한글이 정상적으로 출력되는 것을 확인할 수 있다.
한글이 되는 \(\LaTeX\) R마크다운 환경
4 Dockerfile - 한글 폰트 추가
rocker/verse 이미지에 한글이 폰트를 설치하게 되면 한글 PDF 파일을 생성할 수 있게 된다. 이를 위해서 한글 \(\LaTeX\) 기능이 추가된 Dockerfile을 제작해보자.
rocker/verse:lastest 도커 이미지에 https://github.com/statkclee/compendium_301.git 깃헙 저장소를 클론해서 /home/rstudio/compendium 에 복사해서 작업 프로젝트를 준비한다. 그 다음 \(\LaTeX\) 한글 폰트를 설치하고, 관련 팩키지도 함께 설치한다.
FROM rocker/verse:latest
MAINTAINER Kwangchun Lee <kwangchun.lee.7@gmail.com>
ARG DEBIAN_FRONTEND=noninteractive
# Install git
RUN sudo apt-get update
# Clone project
RUN mkdir /home/rstudio/compendium
RUN cd /home/rstudio/compendium
RUN git clone https://github.com/statkclee/compendium_301.git
# LaTeX Hangul Font
RUN sudo apt-get install fonts-nanum fonts-nanum-extra fonts-nanum-coding fonts-baekmuk fonts-unfonts-core fonts-unfonts-extra
# LaTeX Hangul Packages
RUN tlmgr install filehook \
unicode-math \
lm-math위와 같이 도커 파일(Dockerfile)을 만든 후에 docker build하여 이미지를 만들고 재사용하면 참 좋다. Docker Compendium에 관련 내용을 정리했다. Dockerfile 외에는… 아무것도 없다. 도커 이미지 이름을 verse-korean 으로 두고 docker build -t verse-korean . 명령어로 docker build를 하게 되면 Dockerfile의 순서에 맞춰 쭉 빌드를 해서 \(\LaTeX\) 한글이 .Rmd로 지원되는 이미지를 만들게 된다.
statkclee@50-204-120-225-static:~/swc/docker_compendium$ ls
Dockerfile README.md
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker build -t verse-korean .
Sending build context to Docker daemon 53.76kB
Step 1/9 : FROM rocker/verse:latest
---> def324c74d22
Step 2/9 : MAINTAINER Kwangchun Lee <kwangchun.lee.7@gmail.com>
---> Running in b7ec7d5f1633
Removing intermediate container b7ec7d5f1633
---> 9031c6d6f020
Step 3/9 : ARG DEBIAN_FRONTEND=noninteractive
---> Running in 3053ccaa140d
Removing intermediate container 3053ccaa140d
---> 2586ab89f0f3
Step 4/9 : RUN sudo apt-get update
---> Running in 0cd2d16e33c1
Get:1 http://deb.debian.org/debian buster InRelease [122 kB]
Get:3 http://deb.debian.org/debian buster-updates InRelease [49.3 kB]
Get:2 http://security-cdn.debian.org/debian-security buster/updates InRelease [65.4 kB]
Get:4 http://deb.debian.org/debian buster/main amd64 Packages [7,908 kB]
Get:5 http://security-cdn.debian.org/debian-security buster/updates/main amd64 Packages [175 kB]
Get:6 http://deb.debian.org/debian buster-updates/main amd64 Packages [5,792 B]
Fetched 8,325 kB in 8s (1,001 kB/s)
Reading package lists...
Removing intermediate container 0cd2d16e33c1
---> 48fec47445eb
Step 5/9 : RUN mkdir /home/rstudio/compendium
---> Running in 8cd912ae1627
Removing intermediate container 8cd912ae1627
---> b8cba23b9ffe
Step 6/9 : RUN cd /home/rstudio/compendium
---> Running in 07da2f6ee7cd
Removing intermediate container 07da2f6ee7cd
---> d3b8f27492ee
Step 7/9 : RUN git clone https://github.com/statkclee/compendium_301.git
---> Running in d3c9c4eb88d8
Cloning into 'compendium_301'...
Removing intermediate container d3c9c4eb88d8
---> 807bb87ee938
Step 8/9 : RUN sudo apt-get install fonts-nanum fonts-nanum-extra fonts-nanum-coding fonts-baekmuk fonts-unfonts-core fonts-unfonts-extra
---> Running in 8c395dd56662
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
fonts-baekmuk fonts-nanum fonts-nanum-coding fonts-nanum-extra
fonts-unfonts-core fonts-unfonts-extra
0 upgraded, 6 newly installed, 0 to remove and 2 not upgraded.
Need to get 53.1 MB of archives.
After this operation, 170 MB of additional disk space will be used.
Get:1 http://deb.debian.org/debian buster/main amd64 fonts-nanum-extra all 20180306-1 [12.2 MB]
Get:2 http://deb.debian.org/debian buster/main amd64 fonts-unfonts-core all 1:1.0.2-080608-16 [14.9 MB]
Get:3 http://deb.debian.org/debian buster/main amd64 fonts-unfonts-extra all 1:1.0.2-080608+dfsg-9 [6,572 kB]
Get:4 http://deb.debian.org/debian buster/main amd64 fonts-baekmuk all 2.2-13 [8,765 kB]
Get:5 http://deb.debian.org/debian buster/main amd64 fonts-nanum all 20180306-1 [9,606 kB]
Get:6 http://deb.debian.org/debian buster/main amd64 fonts-nanum-coding all 2.5-1 [1,083 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 53.1 MB in 45s (1,187 kB/s)
Selecting previously unselected package fonts-nanum-extra.
(Reading database ... 34605 files and directories currently installed.)
Preparing to unpack .../0-fonts-nanum-extra_20180306-1_all.deb ...
Unpacking fonts-nanum-extra (20180306-1) ...
Selecting previously unselected package fonts-unfonts-core.
Preparing to unpack .../1-fonts-unfonts-core_1%3a1.0.2-080608-16_all.deb ...
Unpacking fonts-unfonts-core (1:1.0.2-080608-16) ...
Selecting previously unselected package fonts-unfonts-extra.
Preparing to unpack .../2-fonts-unfonts-extra_1%3a1.0.2-080608+dfsg-9_all.deb ...
Unpacking fonts-unfonts-extra (1:1.0.2-080608+dfsg-9) ...
Selecting previously unselected package fonts-baekmuk.
Preparing to unpack .../3-fonts-baekmuk_2.2-13_all.deb ...
Unpacking fonts-baekmuk (2.2-13) ...
Selecting previously unselected package fonts-nanum.
Preparing to unpack .../4-fonts-nanum_20180306-1_all.deb ...
Unpacking fonts-nanum (20180306-1) ...
Selecting previously unselected package fonts-nanum-coding.
Preparing to unpack .../5-fonts-nanum-coding_2.5-1_all.deb ...
Unpacking fonts-nanum-coding (2.5-1) ...
Setting up fonts-unfonts-core (1:1.0.2-080608-16) ...
Setting up fonts-nanum-extra (20180306-1) ...
Setting up fonts-nanum (20180306-1) ...
Setting up fonts-nanum-coding (2.5-1) ...
Setting up fonts-unfonts-extra (1:1.0.2-080608+dfsg-9) ...
Setting up fonts-baekmuk (2.2-13) ...
Processing triggers for fontconfig (2.13.1-2) ...
Removing intermediate container 8c395dd56662
---> fab2d7eb2386
Step 9/9 : RUN tlmgr install filehook unicode-math lm-math
---> Running in 6b4558c8bdc1
TeX Live 2018 is frozen forever and will no
longer be updated. This happens in preparation for a new release.
If you're interested in helping to pretest the new release (when
pretests are available), please read https://tug.org/texlive/pretest.html.
Otherwise, just wait, and the new release will be ready in due time.
tlmgr: package repository https://www.texlive.info/tlnet-archive/2019/02/27/tlnet (not verified: gpg unavailable)
[1/3, ??:??/??:??] install: filehook [4k]
[2/3, 00:01/01:46] install: lm-math [370k]
[3/3, 00:03/00:03] install: unicode-math [43k]
running mktexlsr ...
done running mktexlsr.
tlmgr: package log updated: /opt/TinyTeX/texmf-var/web2c/tlmgr.log
Removing intermediate container 6b4558c8bdc1
---> 688b1cc7b5a1
Successfully built 688b1cc7b5a1
Successfully tagged verse-korean:latest4.1 한글 \(\LaTeX\) 컨테이너 실행
verse-korean 이미지를 RStudio IDE 8787 포트로 접속이 되고 로컬 폴더와 도커 컨테이너 폴더를 동기화 시킨 컨테이를 띄운다.
4.2 문서 3종 세트 제작
make all 명령어를 console 창에 입력하여 문서 3종 세트를 제작한다. 앞선 사례와 비교할 때 Dockerfile에서 설치 작업을 많이 해줬기 때문에 문서 3종 제작 과정이 훨씬 깔끔하다.
rstudio@8870befd7dac:~$ cd compendium/
rstudio@8870befd7dac:~/compendium$ make clean
rm -f analysis/*.html analysis/*.md processed/*
rm -f analysis/*.pdf analysis/*.docx
rstudio@8870befd7dac:~/compendium$ make all
Rscript R/make_dataframe.R
── Attaching packages ─────────────────────────────────────────────────────────── tidyverse 1.3.0 ──
✓ ggplot2 3.2.1 ✓ purrr 0.3.3
✓ tibble 2.1.3 ✓ dplyr 0.8.3
✓ tidyr 1.0.2 ✓ stringr 1.4.0
✓ readr 1.3.1 ✓ forcats 0.4.0
── Conflicts ────────────────────────────────────────────────────────────── tidyverse_conflicts() ──
x dplyr::filter() masks stats::filter()
x dplyr::lag() masks stats::lag()
Warning message:
In dir.create("processed") : 'processed' already exists
Parsed with column specification:
cols(
X1 = col_character()
)
Rscript R/make_histogram.R
── Attaching packages ─────────────────────────────────────────────────────────── tidyverse 1.3.0 ──
✓ ggplot2 3.2.1 ✓ purrr 0.3.3
✓ tibble 2.1.3 ✓ dplyr 0.8.3
✓ tidyr 1.0.2 ✓ stringr 1.4.0
✓ readr 1.3.1 ✓ forcats 0.4.0
── Conflicts ────────────────────────────────────────────────────────────── tidyverse_conflicts() ──
x dplyr::filter() masks stats::filter()
x dplyr::lag() masks stats::lag()
Parsed with column specification:
cols(
word_len = col_double(),
n = col_double()
)
Saving 7 x 7 in image
Rscript R/make_report.R
── Attaching packages ─────────────────────────────────────────────────────────── tidyverse 1.3.0 ──
✓ ggplot2 3.2.1 ✓ purrr 0.3.3
✓ tibble 2.1.3 ✓ dplyr 0.8.3
✓ tidyr 1.0.2 ✓ stringr 1.4.0
✓ readr 1.3.1 ✓ forcats 0.4.0
── Conflicts ────────────────────────────────────────────────────────────── tidyverse_conflicts() ──
x dplyr::filter() masks stats::filter()
x dplyr::lag() masks stats::lag()
processing file: report.Rmd
|.............. | 20%
inline R code fragments
|............................ | 40%
label: setup (with options)
List of 1
$ include: logi FALSE
|.......................................... | 60%
ordinary text without R code
|........................................................ | 80%
label: load-hist-dat (with options)
List of 1
$ include: logi FALSE
Parsed with column specification:
cols(
word_len = col_double(),
n = col_double()
)
|......................................................................| 100%
inline R code fragments
output file: report.knit.md
/usr/lib/rstudio-server/bin/pandoc/pandoc +RTS -K512m -RTS report.utf8.md --to html4 --from markdown+autolink_bare_uris+tex_math_single_backslash+smart --output /home/rstudio/compendium/analysis/report.html --email-obfuscation none --self-contained --standalone --section-divs --template /usr/local/lib/R/site-library/rmarkdown/rmd/h/default.html --no-highlight --variable highlightjs=1 --variable 'theme:bootstrap' --include-in-header /tmp/RtmpYsDa3T/rmarkdown-str14d337770bc.html --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/pagebreak.lua --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/latex-div.lua
Output created: analysis/report.html
processing file: report.Rmd
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inline R code fragments
|............................ | 40%
label: setup (with options)
List of 1
$ include: logi FALSE
|.......................................... | 60%
ordinary text without R code
|........................................................ | 80%
label: load-hist-dat (with options)
List of 1
$ include: logi FALSE
Parsed with column specification:
cols(
word_len = col_double(),
n = col_double()
)
|......................................................................| 100%
inline R code fragments
output file: report.knit.md
/usr/lib/rstudio-server/bin/pandoc/pandoc +RTS -K512m -RTS report.utf8.md --to latex --from markdown+autolink_bare_uris+tex_math_single_backslash --output /home/rstudio/compendium/analysis/report.tex --self-contained --table-of-contents --toc-depth 2 --highlight-style tango --pdf-engine xelatex --variable graphics --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/pagebreak.lua --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/latex-div.lua --variable mainfont=NanumGothic --variable 'geometry:margin=1in'
Output created: analysis/report.pdf
processing file: report.Rmd
|.............. | 20%
inline R code fragments
|............................ | 40%
label: setup (with options)
List of 1
$ include: logi FALSE
|.......................................... | 60%
ordinary text without R code
|........................................................ | 80%
label: load-hist-dat (with options)
List of 1
$ include: logi FALSE
Parsed with column specification:
cols(
word_len = col_double(),
n = col_double()
)
|......................................................................| 100%
inline R code fragments
output file: report.knit.md
/usr/lib/rstudio-server/bin/pandoc/pandoc +RTS -K512m -RTS report.utf8.md --to docx --from markdown+autolink_bare_uris+tex_math_single_backslash+smart --output /home/rstudio/compendium/analysis/report.docx--highlight-style tango --lua-filter /usr/local/lib/R/site-library/rmarkdown/rmd/lua/pagebreak.lua
Output created: analysis/report.docx
rstudio@8870befd7dac:~/compendium$5 docker push 공유
5.1 Docker Hub CLI 로그인
Docker Hub에 사용자 계정을 만들고 로그인 한다. 가장 우축 상단의 프로필이 담긴 아이콘을 클릭하고 Account Setting으로 들어가서, 좌측 Security 메뉴를 클릭하면 New Access Token을 생성할 수 있다.
도커 허브 접근 토큰을 가지고 docker login -u statkclee -p 76XXXXXXXXXXXXXXXXXXXXXXXXXXx와 같이 도커 허브에 CLI로 로그인한다.
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker logout
Removing login credentials for https://index.docker.io/v1/
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker login -u statkclee -p 76XXXXXXXXXXXXXXXXXXXXXXXXXXx
WARNING! Using --password via the CLI is insecure. Use --password-stdin.
Login Succeeded5.2 도커 이미지 태그
Docker Hub에 이미지를 올리려면 다음 단계로 필요한 것이 Docker Hub로 올리려고 하는 이미지에 태그(tag)를 붙이는 것이다. 앞서 docker build 명령어로 생성한 verse-korean 이미지의 IMAGE ID를 확인하고 이를 docker tag 명령어로 태그를 붙인다.
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker images
REPOSITORY TAG IMAGE ID CREATED SIZE
verse-korean latest 688b1cc7b5a1 30 minutes ago 3.34GB
rocker/verse latest def324c74d22 3 days ago 3.13GB
rocker/rstudio latest a2f92e4ee8db 3 days ago 1.46GB
hello-world latest fce289e99eb9 13 months ago 1.84kB
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker tag 688b1cc7b5a1 statkclee/verse-korean 이제 도커 허브에 docker push 명령어로 한글 \(\LaTeX\) 기능이 포함된 도커 이미지를 올려 누구나 .Rmd 파일로 문서 3종 세트를 만들 수 있도록 한다.
statkclee@50-204-120-225-static:~/swc/docker_compendium$ docker push statkclee/verse-korean
The push refers to repository [docker.io/statkclee/verse-korean]
6fba8079ac28: Pushed
7bb385856f6b: Pushed
95bdbe9ca061: Pushed
534b9105fc38: Pushed
ec41d2dccc70: Pushed
688aeeef9c90: Mounted from rocker/verse
ac64e260ed76: Mounted from rocker/verse
070557f0ffb6: Mounted from rocker/verse
8efc2b8db34f: Mounted from rocker/verse
51504f70a63b: Mounted from rocker/verse
c64fb8c9829a: Mounted from rocker/verse
6e98dea473f4: Mounted from rocker/verse
ccded069085d: Mounted from rocker/verse
dd5242c2dc8a: Mounted from rocker/verse
latest: digest: sha256:dbf6fe55dd24c133f7b2286feb3c8747552279460f6bccc635c398f399936cdd size: 3264이제 docker pull statkclee/verse-korean:latest 명령어로 누구나 .Rmd 파일을 가지고 문서 3종 세트를 만드는데 \(\LaTeX\) 한글 설치에 대한 수고 없이 가능하게 되었다.
도커 허브 - \(\LaTeX\) 이미지 공유