RにはShinyというWebAppを作成することができるpackageがあります。この記事では、shinyで作成したWebAppをCloudflareTunnelで配信する方法を解説します。
環境
OS: ubuntu22.04.2
環境構築
まずは、Rのインストールを行い、shinyとshiny-serverの2つをインストールする。
※作成したWebAppに他のpackageを使用している場合は、そのpackageもインストールしてください。これで環境構築は完了です。
#Rのインストール
$ sudo apt update
$ sudo apt upgrade
$ sudo apt install r-base
#Rのターミナルの起動
$ sudo -i R
Rのターミナルで各種packageをインストール
> install.packages("shiny")
shiny serverのインストール
$ sudo apt-get install gdebi-core
$ wget https://download3.rstudio.org/ubuntu-18.04/x86_64/shiny-server-1.5.20.1002-amd64.deb
$ sudo gdebi shiny-server-1.5.20.1002-amd64.deb
※上記のコマンドは、2023/8/11時点でposit社のサイトに記載されていたものです。最新のコマンドは、以下のposit社のサイトからご確認ください。
[posit社のリンク]
Rのpackageのインストールでつまずきがちなポイント
ポイント1: インストールエラーの解決
各種必要なpackageをインストールしていく際に、私が実際につまずいたことを書いておきます。
packageのインストールを行っていくと、インストールエラーを起こすpackageがあります。私の場合は、devtoolsで起きました。
以下、エラーメッセージです。長いので折りたたんでいます。(devtoolsのインストール時に起きたエラー)
1回目のエラーメッセージ
> install.packages("devtools")
Installing package into ‘/usr/local/lib/R/site-library’
(as ‘lib’ is unspecified)
Warning in install.packages("devtools") :
'lib = "/usr/local/lib/R/site-library"' is not writable
Would you like to use a personal library instead? (yes/No/cancel) yes
Would you like to create a personal library
‘~/R/x86_64-pc-linux-gnu-library/4.1’
to install packages into? (yes/No/cancel) yes
also installing the dependencies ‘credentials’, ‘openssl’, ‘httr2’, ‘systemfonts’, ‘textshaping’, ‘curl’, ‘gert’, ‘gh’, ‘httr’, ‘ragg’, ‘xml2’, ‘usethis’, ‘pkgdown’, ‘rcmdcheck’, ‘roxygen2’, ‘rversions’, ‘urlchecker’
(中略)
* installing *source* package ‘openssl’ ...
** package ‘openssl’ successfully unpacked and MD5 sums checked
** using staged installation
Using PKG_CFLAGS=
--------------------------- [ANTICONF] --------------------------------
Configuration failed because openssl was not found. Try installing:
* deb: libssl-dev (Debian, Ubuntu, etc)
* rpm: openssl-devel (Fedora, CentOS, RHEL)
* csw: libssl_dev (Solaris)
* brew: openssl (Mac OSX)
If openssl is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a openssl.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
-------------------------- [ERROR MESSAGE] ---------------------------
tools/version.c:1:10: fatal error: openssl/opensslv.h: No such file or directory
1 | #include <openssl/opensslv.h>
| ^~~~~~~~~~~~~~~~~~~~
compilation terminated.
--------------------------------------------------------------------
ERROR: configuration failed for package ‘openssl’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/openssl’
* installing *source* package ‘systemfonts’ ...
** package ‘systemfonts’ successfully unpacked and MD5 sums checked
** using staged installation
Package fontconfig was not found in the pkg-config search path.
Perhaps you should add the directory containing `fontconfig.pc'
to the PKG_CONFIG_PATH environment variable
No package 'fontconfig' found
Package freetype2 was not found in the pkg-config search path.
Perhaps you should add the directory containing `freetype2.pc'
to the PKG_CONFIG_PATH environment variable
No package 'freetype2' found
Using PKG_CFLAGS=
Using PKG_LIBS=-lfontconfig -lfreetype
--------------------------- [ANTICONF] --------------------------------
Configuration failed to find the fontconfig freetype2 library. Try installing:
* deb: libfontconfig1-dev (Debian, Ubuntu, etc)
* rpm: fontconfig-devel (Fedora, EPEL)
* csw: fontconfig_dev (Solaris)
* brew: freetype (OSX)
If fontconfig freetype2 is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a fontconfig freetype2.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
-------------------------- [ERROR MESSAGE] ---------------------------
<stdin>:1:10: fatal error: fontconfig/fontconfig.h: No such file or directory
compilation terminated.
--------------------------------------------------------------------
ERROR: configuration failed for package ‘systemfonts’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/systemfonts’
* installing *source* package ‘curl’ ...
** package ‘curl’ successfully unpacked and MD5 sums checked
** using staged installation
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libcurl' found
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libcurl' found
Using PKG_CFLAGS=
Using PKG_LIBS=-lcurl
--------------------------- [ANTICONF] --------------------------------
Configuration failed because libcurl was not found. Try installing:
* deb: libcurl4-openssl-dev (Debian, Ubuntu, etc)
* rpm: libcurl-devel (Fedora, CentOS, RHEL)
If libcurl is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a libcurl.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
-------------------------- [ERROR MESSAGE] ---------------------------
<stdin>:1:10: fatal error: curl/curl.h: No such file or directory
compilation terminated.
--------------------------------------------------------------------
ERROR: configuration failed for package ‘curl’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/curl’
* installing *source* package ‘xml2’ ...
** package ‘xml2’ successfully unpacked and MD5 sums checked
** using staged installation
Package libxml-2.0 was not found in the pkg-config search path.
Perhaps you should add the directory containing `libxml-2.0.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libxml-2.0' found
Package libxml-2.0 was not found in the pkg-config search path.
Perhaps you should add the directory containing `libxml-2.0.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libxml-2.0' found
Using PKG_CFLAGS=
Using PKG_LIBS=-lxml2
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libxml-2.0 was not found. Try installing:
* deb: libxml2-dev (Debian, Ubuntu, etc)
* rpm: libxml2-devel (Fedora, CentOS, RHEL)
* csw: libxml2_dev (Solaris)
If libxml-2.0 is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a libxml-2.0.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘xml2’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/xml2’
ERROR: dependencies ‘openssl’, ‘curl’ are not available for package ‘credentials’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/credentials’
ERROR: dependencies ‘curl’, ‘openssl’ are not available for package ‘httr2’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/httr2’
ERROR: dependency ‘systemfonts’ is not available for package ‘textshaping’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/textshaping’
ERROR: dependencies ‘curl’, ‘openssl’ are not available for package ‘httr’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/httr’
ERROR: dependency ‘curl’ is not available for package ‘rcmdcheck’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/rcmdcheck’
ERROR: dependency ‘xml2’ is not available for package ‘roxygen2’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/roxygen2’
ERROR: dependencies ‘curl’, ‘xml2’ are not available for package ‘rversions’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/rversions’
ERROR: dependencies ‘curl’, ‘xml2’ are not available for package ‘urlchecker’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/urlchecker’
ERROR: dependencies ‘credentials’, ‘openssl’ are not available for package ‘gert’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/gert’
ERROR: dependency ‘httr2’ is not available for package ‘gh’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/gh’
ERROR: dependencies ‘systemfonts’, ‘textshaping’ are not available for package ‘ragg’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/ragg’
ERROR: dependencies ‘curl’, ‘gert’, ‘gh’ are not available for package ‘usethis’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/usethis’
ERROR: dependencies ‘httr’, ‘ragg’, ‘xml2’ are not available for package ‘pkgdown’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/pkgdown’
ERROR: dependencies ‘usethis’, ‘pkgdown’, ‘rcmdcheck’, ‘roxygen2’, ‘rversions’, ‘urlchecker’ are not available for package ‘devtools’
* removing ‘/home/hello/R/x86_64-pc-linux-gnu-library/4.1/devtools’
The downloaded source packages are in
‘/tmp/Rtmp9vMEe8/downloaded_packages’
There were 18 warnings (use warnings() to see them)
2回目のエラーメッセージ
(前略)
--------------------------- [ANTICONF] --------------------------------
Configuration failed to find the harfbuzz freetype2 fribidi library. Try installing:
* deb: libharfbuzz-dev libfribidi-dev (Debian, Ubuntu, etc)
* rpm: harfbuzz-devel fribidi-devel (Fedora, EPEL)
* csw: libharfbuzz_dev libfribidi_dev (Solaris)
* brew: harfbuzz fribidi (OSX)
If harfbuzz freetype2 fribidi is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a harfbuzz freetype2 fribidi.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
-------------------------- [ERROR MESSAGE] ---------------------------
<stdin>:1:10: fatal error: hb-ft.h: No such file or directory
compilation terminated.
--------------------------------------------------------------------
ERROR: configuration failed for package ‘textshaping’
* removing ‘/usr/local/lib/R/site-library/textshaping’
* installing *source* package ‘httr’ ...
** package ‘httr’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (httr)
* installing *source* package ‘rcmdcheck’ ...
** package ‘rcmdcheck’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rcmdcheck)
* installing *source* package ‘roxygen2’ ...
** package ‘roxygen2’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c escapeExamples.cpp -o escapeExamples.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c isComplete.cpp -o isComplete.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c leadingSpaces.cpp -o leadingSpaces.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c parser2.cpp -o parser2.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c wrapUsage.cpp -o wrapUsage.o
g++ -std=gnu++11 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o roxygen2.so cpp11.o escapeExamples.o isComplete.o leadingSpaces.o parser2.o wrapUsage.o -L/usr/lib/R/lib -lR
installing to /usr/local/lib/R/site-library/00LOCK-roxygen2/00new/roxygen2/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (roxygen2)
* installing *source* package ‘rversions’ ...
** package ‘rversions’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rversions)
* installing *source* package ‘urlchecker’ ...
** package ‘urlchecker’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (urlchecker)
* installing *source* package ‘gert’ ...
** package ‘gert’ successfully unpacked and MD5 sums checked
** using staged installation
Found OpenSSL3
Using static libgit2 for Linux x86_64
Using PKG_CFLAGS=-DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include
Using PKG_LIBS=-L/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/lib -lstatgit2 -lrt -lpthread -lstatssh2 -lstatssl -lstatcrypto -ldl
Configuration OK!
** libs
rm -f gert.so branch.o clone.o commit.o config.o conflicts.o files.o ignore.o init.o merge.o rebase.o stash.o submodules.o tag.o utils.o version.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c branch.c -o branch.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c clone.c -o clone.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c commit.c -o commit.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c config.c -o config.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c conflicts.c -o conflicts.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c files.c -o files.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ignore.c -o ignore.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c merge.c -o merge.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rebase.c -o rebase.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stash.c -o stash.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c submodules.c -o submodules.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tag.c -o tag.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o
gcc -I"/usr/share/R/include" -DNDEBUG -DSTATIC_LIBGIT2 -I/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/include -DR_NO_REMAP -DSTRICT_R_HEADERS -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-4A2Reg/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c version.c -o version.o
gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o gert.so branch.o clone.o commit.o config.o conflicts.o files.o ignore.o init.o merge.o rebase.o stash.o submodules.o tag.o utils.o version.o -L/tmp/RtmpqKhLaL/R.INSTALL8eba3a281f1c/gert/libgit2-1.4.2-x86_64_linux/lib -lstatgit2 -lrt -lpthread -lstatssh2 -lstatssl -lstatcrypto -ldl -L/usr/lib/R/lib -lR
installing to /usr/local/lib/R/site-library/00LOCK-gert/00new/gert/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (gert)
* installing *source* package ‘gh’ ...
** package ‘gh’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (gh)
ERROR: dependency ‘textshaping’ is not available for package ‘ragg’
* removing ‘/usr/local/lib/R/site-library/ragg’
* installing *source* package ‘usethis’ ...
** package ‘usethis’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (usethis)
ERROR: dependency ‘ragg’ is not available for package ‘pkgdown’
* removing ‘/usr/local/lib/R/site-library/pkgdown’
ERROR: dependency ‘pkgdown’ is not available for package ‘devtools’
* removing ‘/usr/local/lib/R/site-library/devtools’
The downloaded source packages are in
‘/tmp/RtmpH2i1vg/downloaded_packages’
Warning messages:
1: In install.packages("devtools") :
installation of package ‘textshaping’ had non-zero exit status
2: In install.packages("devtools") :
installation of package ‘ragg’ had non-zero exit status
3: In install.packages("devtools") :
installation of package ‘pkgdown’ had non-zero exit status
4: In install.packages("devtools") :
installation of package ‘devtools’ had non-zero exit status
3回目のエラーメッセージ
(前略)
-----------------------------[ ANTICONF ]-------------------------------
Configuration failed to find one of freetype2 libpng libtiff-4 libjpeg. Try installing:
* deb: libfreetype6-dev libpng-dev libtiff5-dev libjpeg-dev (Debian, Ubuntu, etc)
* rpm: freetype-devel libpng-devel libtiff-devel libjpeg-turbo-devel (Fedora, CentOS, RHEL)
* csw: libfreetype_dev libpng16_dev libtiff_dev libjpeg_dev (Solaris)
If freetype2 libpng libtiff-4 libjpeg is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a freetype2 libpng libtiff-4 libjpeg.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
-------------------------- [ERROR MESSAGE] ---------------------------
<stdin>:1:10: fatal error: ft2build.h: No such file or directory
compilation terminated.
--------------------------------------------------------------------
ERROR: configuration failed for package ‘ragg’
* removing ‘/usr/local/lib/R/site-library/ragg’
ERROR: dependency ‘ragg’ is not available for package ‘pkgdown’
* removing ‘/usr/local/lib/R/site-library/pkgdown’
ERROR: dependency ‘pkgdown’ is not available for package ‘devtools’
* removing ‘/usr/local/lib/R/site-library/devtools’
The downloaded source packages are in
‘/tmp/RtmpZz5q9A/downloaded_packages’
Warning messages:
1: In install.packages("devtools") :
installation of package ‘ragg’ had non-zero exit status
2: In install.packages("devtools") :
installation of package ‘pkgdown’ had non-zero exit status
3: In install.packages("devtools") :
installation of package ‘devtools’ had non-zero exit status
--------------------------- [ANTICONF] --------------------------------
Configuration failed because openssl was not found. Try installing:
* deb: libssl-dev (Debian, Ubuntu, etc)
* rpm: openssl-devel (Fedora, CentOS, RHEL)
* csw: libssl_dev (Solaris)
* brew: openssl (Mac OSX)
If openssl is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a openssl.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
※上記の[ANICONF]の表示が複数出ているので、足りていないソフトウェアをすべて入れます。
実は、丁寧に解決策の案を提示してくれています。解決策の案に従って、足りていないソフトウェアをインストールしましょう。これを何度か繰り返せば問題なくインストールできました。
以下、devtoolsのインストールエラーを解決するためにインストールした時のコマンドです。
$ sudo apt install libssl-dev libfontconfig1-dev libcurl4-openssl-dev libxml2-dev
$ sudo apt install libharfbuzz-dev libfribidi-dev
$ sudo apt install libfreetype6-dev libpng-dev libtiff5-dev libjpeg-dev
ポイント2: CRANから消えたpackageをアーカイブからインストールする方法
以前までは、install.packages("~") でインストールできたのに、CRANから消えてしまっていて、インストールできない状態になってしまったpackageをインストールする方法です。以下のコードは、Yoshi NishikawaさんのHatena Blogからの引用になります。インストールしているpackage例は、pca3dです。
Step1 目的のpackageのCRANのページを検索して探す。
archiveされているpackageの場合、CRANのページが以下のように表示されます。
archiveのリンクをクリックすると、以下のようにarchive化されているpackageのリンク一覧が出るので、目的のバージョンのpackageのリンクを保存しておきます。
Step2 以下のコードをRのターミナル上で実行
# Download package tarball from CRAN archive
#ここに先ほど保存したリンクを貼ります。
> url <- "https://cran.r-project.org/src/contrib/Archive/pca3d/pca3d_0.10.2.tar.gz"
> pkgFile <- "pca3d_0.10.tar.gz"
> download.file(url = url, destfile = pkgFile)
# Install dependencies
#pca3dの場合は、以下の2つのpackageに依存していたために追加でインストールしています。
#依存関係にあるpackageがある場合は、目的のpackageのインストール時にエラー文で教えてくれます。
> install.packages(c("rgl","ellipse"))
# Install package
> install.packages(pkgs=pkgFile, type="source", repos=NULL)
# Delete package
> unlink(pkgFile)
ポイント2の解説は以上になります。
Shiny Serverの操作
shiny serverがインストールされると、shiny serverは自動的に起動します。
以下に、shiny serverの基本的な制御コマンドを記載しておきます。
起動コマンド
$ sudo systemctl start shiny-server
停止コマンド
$ sudo systemctl stop shiny-server
再起動コマンド
$ sudo systemctl restart shiny-server
statusコマンド
$ sudo systemctl status shiny-server
より詳細については、以下の公式ドキュメントを参照してください。
Shiny Serverの起動テスト
http://localhost:3838/ にアクセスしてみて正常に表示されたら、環境構築が成功しています。
環境構築に成功していると、以下のページが表示されます。
ポートの変更(行いたい人のみ)
/etc/shiny-server/shiny-server.conf の litenの番号がポート番号になっているので、目的のポート番号に変更する。
shiny-server.conf
# Instruct Shiny Server to run applications as the user "shiny"
run_as shiny;
# Define a server that listens on port 3838
server {
#ここがポート番号の設定となっている
#デフォルトは、3838となっています。
listen 3838;
# Define a location at the base URL
location / {
# Host the directory of Shiny Apps stored in this directory
site_dir /srv/shiny-server;
# Log all Shiny output to files in this directory
log_dir /var/log/shiny-server;
# When a user visits the base URL rather than a particular application,
# an index of the applications available in this directory will be shown.
directory_index on;
}
}
作成したWebAppを実装する。
/srv/shiny-server/ のディレクトリに作成したWebAppをプロジェクトディレクトリごと入れます。(shiny-serverディレクトリ直下にあるファイル群は、すべて消します。)
GitHub経由でプロジェクトをcloneしてくる方法が一番楽でした。
結果として、こんな感じのディレクトリ構成になっていればOKです。
.
└── srv
└── shiny-server
└── my_app
├── app.R
├── renv
│ ├── activate.R
│ └── settings.json
├── renv.lock
└── my_app.Rproj
複数のAppをホストしたいなら、shiny-serverディレクトリに追加で置いておけばOKです。
以下のようなディレクトリ構成になっておればOKです。
.
└── srv
└──shiny-server
├── my_app1
│ ├── app.R
│ ├── renv
│ │ ├── activate.R
│ │ └── settings.json
│ ├── renv.lock
│ └── my_app2.Rproj
├── my_app2
│ ├── app.R
│ ├── renv
│ │ ├── activate.R
│ │ └── settings.json
│ ├── renv.lock
│ └── my_app2.Rproj
│
・・・
ローカル上でWebAppが配信出来ているかの確認を行う
http://localhost:3838/App名/ にアクセスして、正常に動作するか確認を行います。
※/srv/shiny-server/直下にアプリを展開した場合は、http://localhost:3838/ にアクセスします。
Cloudflare Tunnelの作成
Zero Trust > Access > Tunnels にアクセスし、「create a tunnel」をクリックして新しいトンネルを作成する。
Step1 トンネル名を決める
Step2 AppをホストするPCに指定のコマンドを張り付ける
DebianとPCのアーキテクチャを選択して、画像下方の左側のコマンドをコピーし、ホストするPCのターミナルに張り付けます。
Step3 ドメインの指定
使用するドメインとサブドメインを決めます。そして、Serviceの部分を http://localhost:3838 に設定します。(ポート番号を変更した人は、適宜変更してください。)
Step4 完成
WebAppが配信出来ているかの確認を行う
先程、cloudflareで設定したURLにアクセスして正常に表示されているかの確認を行います。
URLは、設定したサブドメイン名.ドメイン名/App名/ でアクセスできます。
ex) shiny-app.example.com/my_app/
完成
ここまで記事を読んでいただきありがとうございます。
これですべての作業が終了しました。皆さんの快適なRライフの一助となれたらうれしいです。
では、また他の記事でお会いしましょう。
バイバイ (@^^)/~~~
参考文献