Tea break

ちょっとした息抜きに

OSXでRのパッケージtidyverseのインストールに詰まった

AdventCalendar 13日目！ 人手足りないけどだんないよ精神でいくよ！！！

概要

MacでR言語に入門する際に便利パッケージであるtidyverseのインストールに詰まったので対処法

環境

OS

ProductName:   Mac OS X
ProductVersion: 10.13.6

XCode

Xcode 9.3
Build version 9E145

R

R version 3.5.1 (2018-07-02) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.6.0 (64-bit)

エラーコード

肝心のエラーコード

>install.packages("tidyverse")
Installing package into ‘/usr/local/lib/R/3.5/site-library’
(as ‘lib’ is unspecified)
also installing the dependencies ‘rvest’, ‘xml2’

 URL 'https://cran.rstudio.com/src/contrib/rvest_0.3.2.tar.gz' を試しています 
Content type 'application/x-gzip' length 1597137 bytes (1.5 MB)
==================================================
downloaded 1.5 MB

 URL 'https://cran.rstudio.com/src/contrib/xml2_1.2.0.tar.gz' を試しています 
Content type 'application/x-gzip' length 251614 bytes (245 KB)
==================================================
downloaded 245 KB

 URL 'https://cran.rstudio.com/src/contrib/tidyverse_1.2.1.tar.gz' を試しています 
Content type 'application/x-gzip' length 61647 bytes (60 KB)
==================================================
downloaded 60 KB

* installing *source* package ‘xml2’ ...
**  パッケージ ‘xml2’ の解凍および MD5 サムの検証に成功しました 
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-I/usr/include/libxml2
Using PKG_LIBS=-L/usr/lib -lxml2 -lz -lpthread -licucore -lm
------------------------- 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 ‘/usr/local/lib/R/3.5/site-library/xml2’
Warning in install.packages :
  installation of package ‘xml2’ had non-zero exit status
ERROR: dependency ‘xml2’ is not available for package ‘rvest’
* removing ‘/usr/local/lib/R/3.5/site-library/rvest’
Warning in install.packages :
  installation of package ‘rvest’ had non-zero exit status
ERROR: dependencies ‘rvest’, ‘xml2’ are not available for package ‘tidyverse’
* removing ‘/usr/local/lib/R/3.5/site-library/tidyverse’
Warning in install.packages :
  installation of package ‘tidyverse’ had non-zero exit status

The downloaded source packages are in
    ‘/private/var/folders/mf/h8zpddh14778rlv254chg2000000gs/T/RtmpO6u1wZ/downloaded_packages’

対処１

ANTICONF ERRORで「libxml2が入ってないよ」的なエラーが出たのでとりあえずインストール

$ brew install lib2xml

再実行するが、同じエラーが出る 何故？？？

対処２

調べていると、どうもXCode絡みのよう

$ xcode-select --install

入った！！！

> library(tidyverse)
─ Attaching packages ────────────── tidyverse 1.2.1 ─
✔ ggplot2 3.0.0     ✔ purrr   0.2.5
✔ tibble  1.4.2     ✔ dplyr   0.7.6
✔ tidyr   0.8.1     ✔ stringr 1.3.1
✔ readr   1.1.1     ✔ forcats 0.3.0
─ Conflicts ──────────────── tidyverse_conflicts() ─
✖ dplyr::filter() masks stats::filter()
✖ dplyr::lag()    masks stats::lag()

下のConflictsに関してはデフォルトっぽいのでそのままでOK

まとめ

そもそもXCodeのコマンドラインツールが入ってなかった 学習始めの環境構築で詰まるとモチベーションをグッと持っていかれる、、、