Is there any solution to reduce the size of .RData?
Because the size of ".RData" is 1.8GB I can't open the R software. Now I have to delete the unnecessary objects and reduce the size. I know it is possible to delete objects in R software but it is impossible to open R software in my computer. My question is that is there any other way to edit contents of ".RData"? I tried to edit in "Notepad" and "word", but I couldn't edit because of garbled characters.
1 answer
I do not fully understand your problem but I guess it is how to remove objects?
You can choose what yoz save in your Rdata:
save(list = setdiff(ls(.GlobalEnv), c("MyElement1", "MyElement2")), file = "file.Rdata")
Simply list the elements from your environment that you do not want to have saved such as "MyElement1" and "MyElement" and these will be excluded.
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This is not a bioinformatics question so you may have better luck on Stack Overflow. By default saving in RData format uses gzip compression so you won't be able to easily edit this with a text editor. I suggest you upload your file to a server with enough resources to open it with R and re-export what you need. If you don't need everything bundled, then save each object separately using saveRDS() and restore them as needed.
Thank you for answering my question. I understand. I'll try uploading, decompression or using saveRDS() method. Thank you for your help.
And...I'm sorry I asked an inappropriate question.
Is this an
.Rdatafile that you are generating yourself? Or is this the file that you let R maintain with your interactive R sessions? Because if its the latter then the best solution is to just stop letting R save your interactive sessions.In your place, I would simply rename
.Rdatain something likebackup.Rdata, disable auto-saving of .Rdata, and start fresh with an empty R session. In most cases, it is best to proceed that way: makes your code more reproducible and avoids data congestion. If you really need to save an R object, save it explicitly as ATpoint suggested in his comment.Thank you for answering my question. To tell the truth, my PC was got stuck with no response for half a day... I tried renaming and I could open my file! Thank you for your advice.
try fast (parallel), compression packages like fastsave (https://github.com/barkasn/fastSave)