Review stdout and error handling. #862

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1. 1uc commented on Dec 13, 2023

   

   1uc

   on Dec 13, 2023

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   Definitely broken. For example libsonata tests will assert that something throws and the HDF5 diagnostics are printed despite the exception being handled.

     test_get_inexistant_population (test_reports.TestElementReportReader.test_get_inexistant_population) ... HDF5-DIAG: Error detected in HDF5 (1.12.1) thread 0:
       #000: H5G.c line 510 in H5Gopen2(): unable to open group
         major: Symbol table
         minor: Can't open object
       #001: H5VLcallback.c line 4187 in H5VL_group_open(): group open failed
         major: Virtual Object Layer
         minor: Can't open object
       #002: H5VLcallback.c line 4154 in H5VL__group_open(): group open failed
         major: Virtual Object Layer
         minor: Can't open object
       #003: H5VLnative_group.c line 123 in H5VL__native_group_open(): unable to open group
         major: Symbol table
         minor: Can't open object
       #004: H5Gint.c line 270 in H5G__open_name(): group not found
         major: Symbol table
         minor: Object not found
       #005: H5Gloc.c line 442 in H5G_loc_find(): can't find object
         major: Symbol table
         minor: Object not found
       #006: H5Gtraverse.c line 837 in H5G_traverse(): internal path traversal failed
         major: Symbol table
         minor: Object not found
       #007: H5Gtraverse.c line 613 in H5G__traverse_real(): traversal operator failed
         major: Symbol table
         minor: Callback failed
       #008: H5Gloc.c line 399 in H5G__loc_find_cb(): object 'foobar' doesn't exist
         major: Symbol table
         minor: Object not found
     ok