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jackhump / leafviz

Just the leafviz parts of Leafcutter
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RData file prepared using prepare_results.R is corrupted and can't be read with leafviz() #13

Closed gtollefson closed 2 years ago

gtollefson commented 3 years ago

I prepared an RData file from my differential splicing analysis run and have tried to load it using leafviz(). However I receive an error telling me that the RData file is corrupted. Can you help me to trouble shoot? I've pasted my commands and output below:

library(leafviz)
leafviz("/Users/George/TPP1_splicing_project/leafcutter/leafcutter_results/SA42.RData")

leafviz("/Users/George/TPP1_splicing_project/leafcutter/leafcutter_results/SA23.RData")

  • Welcome to Leafviz! Loading data... Error in load(infile, envir = .GlobalEnv) : bad restore file magic number (file may be corrupted) -- no data loaded In addition: Warning message: file ‘SA23.RData’ has magic number 'RDX3' Use of save versions prior to 2 is deprecated
jackhump commented 3 years ago

Hi George,

Can you verify that just running load() on that file doesn't give the same error?

gtollefson commented 3 years ago

Hi @jackhump,

Thank you very much for the quick response. Running load() does indeed give the same error. It seems like the RData may be malformed. I prepared it using the prepare_results.R script following the pipeline tutorial. I didn't see any error messages while running the scripts in the workflow.