Unable to read .RData - LibrdataError: Invalid file, or file has unsupported features

[SaraAlthubaiti]

Hi,

I have started using the library to read files here: https://github.com/HerrMo/multi-omics_benchmark_study/tree/master/data/resample-instances

with the following script from your github:

import pyreadr
result = pyreadr.read_r('BLCA_rin.RData') # also works for Rds
print(result.keys())

But I got this error:

---------------------------------------------------------------------------
LibrdataError                             Traceback (most recent call last)
<ipython-input-2-e10bae565a8a> in <module>
      1 import pyreadr
----> 2 result = pyreadr.read_r('BLCA_rin.RData') # also works for Rds
      3 print(result.keys())

~/anaconda3/envs/saraenv/lib/python3.9/site-packages/pyreadr/pyreadr.py in read_r(path, use_objects, timezone)
     46     if not os.path.isfile(path):
     47         raise PyreadrError("File {0} does not exist!".format(path))
---> 48     parser.parse(path)
     49 
     50     result = OrderedDict()

~/anaconda3/envs/saraenv/lib/python3.9/site-packages/pyreadr/librdata.pyx in pyreadr.librdata.Parser.parse()

~/anaconda3/envs/saraenv/lib/python3.9/site-packages/pyreadr/librdata.pyx in pyreadr.librdata.Parser.parse()

LibrdataError: Invalid file, or file has unsupported features

Any help to solve that?

[ofajardo]

The files contain S3 objects that are not readable by librdata. Those S3 objects are based on lists, which are not readable either (#8, WizardMac/librdata#32) , so there is no way to solve this right now.