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[Octave-bug-tracker] [bug #39491] Change H5Giterate to H5Literate


From: anonymous
Subject: [Octave-bug-tracker] [bug #39491] Change H5Giterate to H5Literate
Date: Mon, 15 Jul 2013 20:33:19 +0000
User-agent: Mozilla/5.0 (X11; Linux i686) AppleWebKit/537.36 (KHTML, like Gecko) Ubuntu Chromium/28.0.1500.52 Chrome/28.0.1500.52 Safari/537.36

URL:
  <http://savannah.gnu.org/bugs/?39491>

                 Summary: Change H5Giterate to H5Literate
                 Project: GNU Octave
            Submitted by: None
            Submitted on: Mon 15 Jul 2013 20:33:18 UTC
                Category: Octave Function
                Severity: 3 - Normal
                Priority: 5 - Normal
              Item Group: Incorrect Result
                  Status: None
             Assigned to: None
         Originator Name: dspyz
        Originator Email: address@hidden
             Open/Closed: Open
         Discussion Lock: Any
                 Release: dev
        Operating System: GNU/Linux

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Details:

I'm trying to use octave to read a .h5 file using
load finalProg.h5
The file was built with another application using hdf5 1.8.4, but octave fails
to read it because H5Giterate is deprecated as of hdf5 1.8

I emailed the HDF Group and they said to use H5Literate instead.

I get the following error message when I try to read the file:

error: load: error while reading hdf5 item all
HDF5-DIAG: Error detected in HDF5 (1.8.4-patch1) thread 2963904320:
  #000: ../../../src/H5Gdeprec.c line 777 in H5Giterate(): group iteration
failed
    major: Symbol table
    minor: Iteration failed
  #001: ../../../src/H5G.c line 1532 in H5G_iterate(): error iterating over
links
    major: Symbol table
    minor: Iteration failed
  #002: ../../../src/H5Gobj.c line 599 in H5G_obj_iterate(): can't iterate
over symbol table
    major: Symbol table
    minor: Iteration failed
  #003: ../../../src/H5Gstab.c line 522 in H5G_stab_iterate(): iteration
operator failed
    major: Symbol table
    minor: Can't move to next iterator location
  #004: ../../../src/H5B.c line 1302 in H5B_iterate(): B-tree iteration
failed
    major: B-Tree node
    minor: Iteration failed
  #005: ../../../src/H5B.c line 1225 in H5B_iterate_helper(): iterator
function failed
    major: B-Tree node
    minor: Unable to list node
  #006: ../../../src/H5Gnode.c line 1021 in H5G_node_iterate(): iteration
operator failed
    major: Symbol table
    minor: Can't move to next iterator location
error: load: error while reading hdf5 item events
HDF5-DIAG: Error detected in HDF5 (1.8.4-patch1) thread 2963904320:
  #000: ../../../src/H5Gdeprec.c line 777 in H5Giterate(): group iteration
failed
    major: Symbol table
    minor: Iteration failed
  #001: ../../../src/H5G.c line 1532 in H5G_iterate(): error iterating over
links
    major: Symbol table
    minor: Iteration failed
  #002: ../../../src/H5Gobj.c line 599 in H5G_obj_iterate(): can't iterate
over symbol table
    major: Symbol table
    minor: Iteration failed
  #003: ../../../src/H5Gstab.c line 522 in H5G_stab_iterate(): iteration
operator failed
    major: Symbol table
    minor: Can't move to next iterator location
  #004: ../../../src/H5B.c line 1302 in H5B_iterate(): B-tree iteration
failed
    major: B-Tree node
    minor: Iteration failed
  #005: ../../../src/H5B.c line 1225 in H5B_iterate_helper(): iterator
function failed
    major: B-Tree node
    minor: Unable to list node
  #006: ../../../src/H5Gnode.c line 1021 in H5G_node_iterate(): iteration
operator failed
    major: Symbol table
    minor: Can't move to next iterator location
  #007: ../../../src/H5Gdeprec.c line 777 in H5Giterate(): group iteration
failed
    major: Symbol table
    minor: Iteration failed
  #008: ../../../src/H5G.c line 1532 in H5G_iterate(): error iterating over
links
    major: Symbol table
    minor: Iteration failed
  #009: ../../../src/H5Gobj.c line 599 in H5G_obj_iterate(): can't iterate
over symbol table
    major: Symbol table
    minor: Iteration failed
  #010: ../../../src/H5Gstab.c line 522 in H5G_stab_iterate(): iteration
operator failed
    major: Symbol table
    minor: Can't move to next iterator location
  #011: ../../../src/H5B.c line 1302 in H5B_iterate(): B-tree iteration
failed
    major: B-Tree node
    minor: Iteration failed
  #012: ../../../src/H5B.c line 1225 in H5B_iterate_helper(): iterator
function failed
    major: B-Tree node
    minor: Unable to list node
  #013: ../../../src/H5Gnode.c line 1021 in H5G_node_iterate(): iteration
operator failed
    major: Symbol table
    minor: Can't move to next iterator location





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