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grimbough / rhdf5

Package providing an interface between HDF5 and R
http://bioconductor.org/packages/rhdf5
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Error in H5Fopen(file) #93

Closed sunjiahe-hub closed 2 years ago

sunjiahe-hub commented 3 years ago

Hello, when calling the rhdf5 package, this error will occasionally be triggered. I hope to get your guidance to avoid this error. The error is as follows:

Error Found Iteration 2 : [1] "Error in H5Fopen(file) : HDF5. File accessibility. Unable to open file.\n" <simpleError in H5Fopen(file): HDF5. File accessibility. Unable to open file.> Error Found Iteration 3 : [1] "Error in H5Fopen(file) : HDF5. File accessibility. Unable to open file.\n" <simpleError in H5Fopen(file): HDF5. File accessibility. Unable to open file.> In addition: Warning message: In mclapply(..., mc.cores = threads, mc.preschedule = preschedule) : 2 function calls resulted in an error

grimbough commented 3 years ago

Normally that error indicates that the file either doesn't exist (or possibly that something already has the file open).

It looks like you're calling HFOpen() with some parallel process. Perhaps you could include the command you're running that leads to the error?

grimbough commented 2 years ago

Closing since there's been no further information.