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smaret / astrochem

A code to compute the abundances of chemical species in the interstellar medium
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test suite execution fails (unable to open file h5f.pyx #79

Open hwiesemeyer opened 4 years ago

hwiesemeyer commented 4 years ago

Execution of the test suite (make check) ends with 9 passes and 1 error:
File "h5py/h5f.pyx", line 88, in h5py.h5f.open Flush only the given file IOError: Unable to open file (truncated file: eof = 96, sblock->base_addr = 0, stored_eof = 2144)

The file exists and is readable. Any help is appreciated.

smaret commented 4 years ago

Thanks for the report.

In order to help me fixing this problem, could you please let me know:

  1. What is your operating system?
  2. What is the version of Astrochem you're trying to install?
  3. How did you install Astrochem dependencies (h5py in particular since that the one that seems to cause trouble here).
hwiesemeyer commented 4 years ago

Thanks for the assistance!

My operating system is Ubuntu 18.04.3 LTS

The astrochem version to be installed is 0.7 (October 7, 2016).

Astrochem dependencies, if not yet distributed with the above ubuntu version, were installed via apt-get install, e.g., for h5py I used

apt-get install libhdf5-dev

On 2019-10-09 09:05, Sébastien Maret wrote:

Thanks for the report.

In order to help me to reproduce this problem, could you please let me know:

  • What is your operating system?
  • What is the version of Astrochem you're trying to install?
  • How did you install Astrochem dependencies (h5py in particular since that the one that seems to cause trouble here).

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