MacOS 上的 R 错误:向量内存已用尽(已达到限制?) [英] R on MacOS Error: vector memory exhausted (limit reached?)

问题描述

我正在尝试运行 R 脚本(特别是，我正在使用 Bioconductor 包中的getLineages"函数，

解决方案

对于那些使用 Rstudio 的人，我发现设置 Sys.setenv('R_MAX_VSIZE'=32000000000)，正如所建议的在多个 StackOverflow 帖子上，仅适用于命令行，并且在使用 Rstudio 时设置该参数并不能防止此错误:

错误:向量内存耗尽(达到限制?)

阅读更多内容后，我发现 this 线程，它澄清了 Rstudio 的问题，并确定了一个解决方案，如下所示:

第一步:打开终端，

第 2 步:

cd ~触摸.Renviron打开 .Renviron

第三步:将以下内容保存为.Renviron的第一行:

R_MAX_VSIZE=100Gb

注意:此限制包括物理内存和虚拟内存；因此在具有 16Gb 物理内存的机器上设置 _MAX_VSIZE=16Gb 可能无法防止此错误.您可能需要使用此参数，具体取决于您机器的规格

I'm trying to run an R script (in particular, I am using the "getLineages" function from the Bioconductor package, Slingshot.

I'm wondering why the error "vector memory exhausted (limit reached?)" is showing up when I use this function, as it doesn't seem to be the most memory-intensive function compared to the other functions in this package (with the data I am analyzing).

I do understand that there are other questions like this on Stackoverflow, but they all suggest to switch over to the 64-bit version of R. However, I am already using this version. There seem to be no other answers to this issue so far, I was wondering if anyone might know?

The data is only ~120mb in size, which is far less than my computer's 8GB of RAM.

解决方案

For those using Rstudio, I've found that setting Sys.setenv('R_MAX_VSIZE'=32000000000), as has been suggested on multiple StackOverflow posts, only works on the command line, and that setting that parameter while using Rstudio does not prevent this error:

Error: vector memory exhausted (limit reached?)

After doing some more reading, I found this thread, which clarifies the problem with Rstudio, and identifies a solution, shown below:

Step 1: Open terminal,

Step 2:

cd ~
touch .Renviron
open .Renviron

Step 3: Save the following as the first line of .Renviron:

R_MAX_VSIZE=100Gb 

Note: This limit includes both physical and virtual memory; so setting _MAX_VSIZE=16Gb on a machine with 16Gb of physical memory may not prevent this error. You may have to play with this parameter, depending on the specs of your machine

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