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[mohseniaref]

h5 file reading/writing issue

Dear all,

I am dealing with ifgramStack.h5 file and I am facing this error for first time, I even changed h5py from 2.10 to latest version but still this following error exist. I don't see any application to use ifgramStack.5 file and the error doesn't make sense to me. Any idea how to deal with it?

Thanks in advance for your response!

Full script that generated the error

reference_point.py /raid-kailash/maref/InSAR/Escoipe-tr76/mintpy/inputs/ifgramStack.h5 -t /raid-kailash/maref/InSAR/Escoipe-tr76/mintpy/smallbaselineApp.cfg -c /raid-kailash/maref/InSAR/Escoipe-tr76/mintpy/avgSpatialCoh.h5 --lookup /raid-kailash/maref/InSAR/Escoipe-tr76/mintpy/inputs/geometryRadar.h5

Full error message

--------------------------------------------------
reading reference info from template: /raid-kailash/maref/InSAR/Escoipe-tr76/mintpy/smallbaselineApp.cfg
input reference point in y/x: (1000, 1000)
--------------------------------------------------
calculate the temporal average of unwrapPhase in file /raid-kailash/maref/InSAR/Escoipe-tr76/mintpy/inputs/ifgramStack.h5 ...
[==================================================] lines 4214/4214 2536s /    51s
Add/update ref_x/y attribute to file: /raid-kailash/maref/InSAR/Escoipe-tr76/mintpy/inputs/ifgramStack.h5
{'REF_Y': '1000', 'REF_X': '1000'}
Traceback (most recent call last):
  File "/raid-manaslu/maref/Software/python/MintPy/mintpy/smallbaselineApp.py", line 1293, in <module>
    main(sys.argv[1:])
  File "/raid-manaslu/maref/Software/python/MintPy/mintpy/smallbaselineApp.py", line 1275, in main
    app.run(steps=inps.runSteps)
  File "/raid-manaslu/maref/Software/python/MintPy/mintpy/smallbaselineApp.py", line 1046, in run
    self.run_reference_point(sname)
  File "/raid-manaslu/maref/Software/python/MintPy/mintpy/smallbaselineApp.py", line 486, in run_reference_point
    mintpy.reference_point.main(iargs)
  File "/raid-manaslu/maref/Software/python/MintPy/mintpy/reference_point.py", line 504, in main
    reference_file(inps)
  File "/raid-manaslu/maref/Software/python/MintPy/mintpy/reference_point.py", line 226, in reference_file
    inps.outfile = ut.add_attribute(inps.file, atrNew)
  File "/raid-manaslu/maref/Software/python/MintPy/mintpy/utils/utils1.py", line 556, in add_attribute
    f = h5py.File(File, 'r+')
  File "/raid-manaslu/maref/Software/anaconda3/envs/mintpyc/lib/python3.8/site-packages/h5py/_hl/files.py", line 533, in __init__
    fid = make_fid(name, mode, userblock_size, fapl, fcpl, swmr=swmr)
  File "/raid-manaslu/maref/Software/anaconda3/envs/mintpyc/lib/python3.8/site-packages/h5py/_hl/files.py", line 228, in make_fid
    fid = h5f.open(name, h5f.ACC_RDWR, fapl=fapl)
  File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper
  File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper
  File "h5py/h5f.pyx", line 106, in h5py.h5f.open
BlockingIOError: [Errno 11] Unable to open file (unable to lock file, errno = 11, error message = 'Resource temporarily unavailable')

Do you think it is better to modify the code according https://stackoverflow.com/questions/68457924/error-while-accessing-hdf5-file-shows-error-oserror-unable-to-open-file ?

System information

• Operating system: Linux-Ubuntu
• Python environment: conda
• MintPy version: MintPy version v1.3.2-48, date 2022-03-23

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[yunjunz]

@mohseniaref I agree that using the Python with statement is a better option. Could you confirm if that resolves the issue you have?

[yunjunz]

Close this issue since the proposed solution is completed.