MacOS上的R错误:矢量内存已耗尽(已达到极限?) [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软件包

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

我想知道为什么在使用此功能时会出现错误向量内存耗尽(达到极限?)"，因为与该函数中的其他功能相比，它似乎不是最占用内存的功能包(包含我正在分析的数据).

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).

我确实知道在Stackoverflow上还有其他类似的问题，但是它们都建议切换到R的64位版本.但是，我已经在使用此版本.到目前为止，这个问题似乎没有其他答案，我想知道是否有人知道?

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?

数据仅约120mb，远小于我计算机的8GB RAM.

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

推荐答案

对于使用Rstudio的用户，我发现如在多个StackOverflow帖子中所建议的那样，设置Sys.setenv('R_MAX_VSIZE'=32000000000)仅在命令行上有效，并且在使用Rstudio时设置该参数不会阻止此错误:

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?)

经过更多阅读后，我发现

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

第1步:打开终端，

第2步:

cd ~
touch .Renviron
open .Renviron

第3步:将以下内容保存为.Renviron的第一行:

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

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物理内存的计算机上设置_MAX_VSIZE = 16Gb可能不会防止此错误.您可能必须使用此参数，具体取决于计算机的规格

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

这篇关于MacOS上的R错误:矢量内存已耗尽(已达到极限?)的文章就介绍到这了，希望我们推荐的答案对大家有所帮助，也希望大家多多支持IT屋！