其它外部软件信息 <div class="snippet-clipboard-content notranslate position-relative ove

在 MacOS 上，如果以 brew install r 方式安装 R 软件，则后续安装 R

目前，书籍的依赖环境相对稳定。 <a href="https://cran.r-project.org/" rel="nof

gifski 必须从源码安装， fedora 仓库不提供编译版本。 showtext 必须从源码编译，才能使用系统字体。安

sf <div class="snippet-clipboard-content notranslate position-relative overflow-

Binder 免费提供的 RStudio 环境 <a target="_blank" rel="noopener noreferre

soul 宏包不支持对中文划线中文已经报告给 soul 宏包作者， <a class="issue-link js-issue-link"

最近更新 <a href="https://github.com/XiangyunHuang/data-analysis-in-action/commit/37c062e6

软件环境信息 about data-analysis-in-action HOT 9 OPEN

XiangyunHuang commented on July 23, 2024

软件环境信息

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Comments (9)

XiangyunHuang commented on July 23, 2024

在 MacOS 上，如果以 brew install r 方式安装 R 软件，则后续安装 R 包都是从源码安装，而且一旦安装，就不要轻易升级系统软件依赖，比如 gdal 3.6.3 arrow 11.0.0 发布新版本后，重新安装 sf terra arrow 包，之后不再轻易升级软件，否则无法使用这些 R 包。如果更新 gdal 和 proj 的上游依赖，如 libtiff ，则必须同时更新 gdal 和 proj 否则 sf terra 等包就不能安装和使用，依赖的连锁反应。 r-spatial/sf#2217
tensorflow 目前还不支持 Python 3.11 tensorflow/tensorflow#58032

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XiangyunHuang commented on July 23, 2024

目前，书籍的依赖环境相对稳定。

r、pandoc、quarto 的升级要慎重，会对本书整体产生影响。
ggplot2 和 dplyr 大版本升级也会对书的多个章节产生重大影响。
余下还有 sf rgl gt 等包，遇到重大升级，得新建分支。

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XiangyunHuang commented on July 23, 2024

ganttrify 和 ggradar 依赖颇多，且使用风格与 ggplot2 很不一样，故暂移除。

甘特图 {#sec-gantt}

甘特图常用于项目、流程管理，描述节点之间的依赖关系，展示关键节点。 ganttrify 包专门用来绘制甘特图，如 @fig-gant 所示。

#| label: fig-gant
#| fig-cap: "项目和任务进展"
#| fig-width: 7
#| fig-height: 4.5
#| fig-showtext: true

library(ganttrify)
ganttrify(project = ganttrify::test_project,
          project_start_date = "2021-03",
          font_family = "sans")

雷达图 {#sec-radar}

ggradar 包绘制雷达图对比美国三个州的数据，根据人口密度，从 state.x77 选择康涅狄格州 Connecticut，马塞诸塞州 Massachusetts，新泽西州 New Jersey，比较它们的人均收入 Income，文盲率 Illiteracy，预期寿命 Life Exp，谋杀率 Murder 和高中毕业率 HS Grad。函数 ggradar() 要求数据集各个比较的变量归一化到 0-1 区间。

#| label: fig-state-x77-comp
#| fig-cap: "康涅狄格州、马塞诸塞州、新泽西州的比较"
#| fig-width: 7.5
#| fig-height: 4
#| fig-showtext: true
#| warning: false

state_x77 <- data.frame(state.x77,
  state_name = rownames(state.x77),
  state_region = state.region,
  check.names = FALSE
)
state_x77_sub <- state_x77[
  c("Connecticut", "Massachusetts", "New Jersey"),
  c("Income", "Illiteracy", "Life Exp", "Murder", "HS Grad")
]
state_x77_scale <- apply(state_x77_sub, 2, scales::rescale)
state_x77_comp <- data.frame(state = rownames(state_x77_scale), state_x77_scale)

library(ggradar)
ggradar(plot.data = state_x77_comp, base.size = 13, legend.position = "right")

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XiangyunHuang commented on July 23, 2024

gifski 必须从源码安装， fedora 仓库不提供编译版本。
showtext 必须从源码编译，才能使用系统字体。
安装 V8 包需要设置环境变量 export DOWNLOAD_STATIC_LIBV8=1
导出高质量的 mermaid 制作的图片，需要安装 chromium
https://quarto.org/docs/authoring/diagrams.html

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XiangyunHuang commented on July 23, 2024

sf

sf::sf_extSoftVersion()
          GEOS           GDAL         proj.4 GDAL_with_GEOS     USE_PROJ_H 
      "3.11.2"        "3.6.4"        "9.2.0"         "true"         "true" 
          PROJ 
       "9.2.0"

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XiangyunHuang commented on July 23, 2024

Binder 环境

启动 Binder 环境后，进入 RStudio IDE，在 Terminal 窗口中查看 CPU 信息

lscpu

Architecture:            x86_64
  CPU op-mode(s):        32-bit, 64-bit
  Address sizes:         46 bits physical, 48 bits virtual
  Byte Order:            Little Endian
CPU(s):                  72
  On-line CPU(s) list:   0-71
Vendor ID:               GenuineIntel
  Model name:            Intel(R) Xeon(R) Gold 6140 CPU @ 2.30GHz
    CPU family:          6
    Model:               85
    Thread(s) per core:  2
    Core(s) per socket:  18
    Socket(s):           2
    Stepping:            4
    CPU max MHz:         2300.0000
    CPU min MHz:         1000.0000
    BogoMIPS:            4600.00
    Flags:               fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca c
                         mov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm 
                         pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_per
                         fmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid ap
                         erfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est t
                         m2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2
                         apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rd
                         rand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_
                         l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp 
                         tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_
                         adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rd
                         t_a avx512f avx512dq rdseed adx smap clflushopt clwb intel
                         _pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsa
                         ves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dthe
                         rm arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku
                          ospke md_clear flush_l1d arch_capabilities
Virtualization features: 
  Virtualization:        VT-x
Caches (sum of all):     
  L1d:                   1.1 MiB (36 instances)
  L1i:                   1.1 MiB (36 instances)
  L2:                    36 MiB (36 instances)
  L3:                    49.5 MiB (2 instances)
NUMA:                    
  NUMA node(s):          2
  NUMA node0 CPU(s):     0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,
                         42,44,46,48,50,52,54,56,58,60,62,64,66,68,70
  NUMA node1 CPU(s):     1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,
                         43,45,47,49,51,53,55,57,59,61,63,65,67,69,71
Vulnerabilities:         
  Itlb multihit:         KVM: Mitigation: VMX disabled
  L1tf:                  Mitigation; PTE Inversion; VMX conditional cache flushes, 
                         SMT vulnerable
  Mds:                   Mitigation; Clear CPU buffers; SMT vulnerable
  Meltdown:              Mitigation; PTI
  Mmio stale data:       Mitigation; Clear CPU buffers; SMT vulnerable
  Retbleed:              Mitigation; IBRS
  Spec store bypass:     Mitigation; Speculative Store Bypass disabled via prctl an
                         d seccomp
  Spectre v1:            Mitigation; usercopy/swapgs barriers and __user pointer sa
                         nitization
  Spectre v2:            Mitigation; IBRS, IBPB conditional, RSB filling, PBRSB-eIB
                         RS Not affected
  Srbds:                 Not affected
  Tsx async abort:       Mitigation; Clear CPU buffers; SMT vulnerable

top 命令查看可用的资源信息，如下

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XiangyunHuang commented on July 23, 2024

Binder 免费提供的 RStudio 环境

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XiangyunHuang commented on July 23, 2024

soul 宏包不支持对中文划线中文
已经报告给 soul 宏包作者， ho-tex/soul#9

\documentclass{article}
\usepackage{ctex}
\usepackage{soul}
\begin{document}
% \st{中文} % 不支持
\st{delete}
\end{document}

通过重新新建命令 \st 解决问题

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XiangyunHuang commented on July 23, 2024

最近更新 R-CoprManager 导致 GPG 验证错误，问题原因未知。
https://copr.fedorainfracloud.org/coprs/iucar/cran/
https://github.com/Enchufa2/cran2copr

也可能是下面的原因

Warning! Scheduled outage of Copr servers - 2023-08-16 12:30-14:30 UTC. For more information please refer to this ticket.

直接用 cran2copr 制作的 Docker 镜像可以解决问题

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软件环境信息 about data-analysis-in-action HOT 9 OPEN

Comments (9)

甘特图 {#sec-gantt}

雷达图 {#sec-radar}

sf

Binder 环境

Binder 免费提供的 RStudio 环境

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