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opotowsky/gist:eae2297ecef79bfe3548

Created January 4, 2016 19:23
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cymetric test errors after manual hdf5 installation
Raw
gistfile1.txt
opy_eats_macaron ~/cyclus/cymetric (develop) $ nosetests -w tests/ -v
/home/opy/.local/lib/python2.7/site-packages/pyne-0.5.0rc1-py2.7.egg/pyne/__init__.py:15: Warning: Error importing PyNE: you should not try to import PyNE from its source directory; please exit the PyNE source tree, and relaunch your python interpreter from there.
warn(msg, Warning)
:
.CL:CC CC _Q _Q _Q_Q _Q _Q _Q
CC;CCCCCCCC:C; /_\) /_\)/_/\\) /_\) /_\) /_\)
CCCCCCCCCCCCCl __O|/O___O|/O_OO|/O__O|/O__O|/O____________O|/O__
CCCCCCf iCCCLCC /////////////////////////////////////////////////
iCCCt ;;;;;. CCCC
CCCC ;;;;;;;;;. CClL. c
CCCC ,;; ;;: CCCC ; : CCCCi
CCC ;; ;; CC ;;: CCC` `C;
lCCC ;; CCCC ;;;: :CC .;;. C; ; : ; :;;
CCCC ;. CCCC ;;;, CC ; ; Ci ; : ; : ;
iCC :; CC ;;;, ;C ; CC ; : ; .
CCCi ;; CCC ;;;. .C ; tf ; : ; ;.
CCC ;; CCC ;;;;;;; fC : lC ; : ; ;:
iCf ;; CC :;;: tC ; CC ; : ; ;
fCCC :; LCCf ;;;: LC :. ,: C ; ; ; ; ;
CCCC ;; CCCC ;;;: CCi `;;` CC. ;;;; :;.;. ; ,;
CCl ;; CC ;;;; CCC CCL
tCCC ;; ;; CCCL ;;; tCCCCC.
CCCC ;; :;; CCCCf ; ,L
lCCC ;;;;;; CCCL
CCCCCC :;; fCCCCC
. CCCC CCCC .
.CCCCCCCCCCCCCi
iCCCCCLCf
. C. ,
:
ERROR(core ):Unable to load agent shared object file: libhdf5_serial.so.8: cannot open shared object file: No such file or directory
:
.CL:CC CC _Q _Q _Q_Q _Q _Q _Q
CC;CCCCCCCC:C; /_\) /_\)/_/\\) /_\) /_\) /_\)
CCCCCCCCCCCCCl __O|/O___O|/O_OO|/O__O|/O__O|/O____________O|/O__
CCCCCCf iCCCLCC /////////////////////////////////////////////////
iCCCt ;;;;;. CCCC
CCCC ;;;;;;;;;. CClL. c
CCCC ,;; ;;: CCCC ; : CCCCi
CCC ;; ;; CC ;;: CCC` `C;
lCCC ;; CCCC ;;;: :CC .;;. C; ; : ; :;;
CCCC ;. CCCC ;;;, CC ; ; Ci ; : ; : ;
iCC :; CC ;;;, ;C ; CC ; : ; .
CCCi ;; CCC ;;;. .C ; tf ; : ; ;.
CCC ;; CCC ;;;;;;; fC : lC ; : ; ;:
iCf ;; CC :;;: tC ; CC ; : ; ;
fCCC :; LCCf ;;;: LC :. ,: C ; ; ; ; ;
CCCC ;; CCCC ;;;: CCi `;;` CC. ;;;; :;.;. ; ,;
CCl ;; CC ;;;; CCC CCL
tCCC ;; ;; CCCL ;;; tCCCCC.
CCCC ;; :;; CCCCf ; ,L
lCCC ;;;;;; CCCL
CCCCCC :;; fCCCCC
. CCCC CCCC .
.CCCCCCCCCCCCCi
iCCCCCLCf
. C. ,
:
ERROR(core ):Unable to load agent shared object file: libhdf5_serial.so.8: cannot open shared object file: No such file or directory
test_cyclus.test_conds_ae(<cymetric.cyclus.Hdf5Back object at 0x7f4a98786ef0>, 'test.h5', <class 'cymetric.cyclus.Hdf5Back'>) ... HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5D.c line 358 in H5Dopen2(): not found
major: Dataset
minor: Object not found
#001: H5Gloc.c line 430 in H5G_loc_find(): can't find object
major: Symbol table
minor: Object not found
#002: H5Gtraverse.c line 861 in H5G_traverse(): internal path traversal failed
major: Symbol table
minor: Object not found
#003: H5Gtraverse.c line 641 in H5G_traverse_real(): traversal operator failed
major: Symbol table
minor: Callback failed
#004: H5Gloc.c line 385 in H5G_loc_find_cb(): object 'AgentEntry' doesn't exist
major: Symbol table
minor: Object not found
HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5D.c line 534 in H5Dget_type(): not a dataset
major: Invalid arguments to routine
minor: Inappropriate type
HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5Tfields.c line 87 in H5Tget_nmembers(): not a datatype
major: Invalid arguments to routine
minor: Inappropriate type
HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5D.c line 534 in H5Dget_type(): not a dataset
major: Invalid arguments to routine
minor: Inappropriate type
HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5T.c line 2097 in H5Tget_size(): not a datatype
major: Invalid arguments to routine
minor: Inappropriate type
ERROR
test_cyclus.test_conds_ae(<cymetric.cyclus.SqliteBack object at 0x7f4a98786f80>, 'test.sqlite', <class 'cymetric.cyclus.SqliteBack'>) ... ERROR
test_cyclus.test_conds_comp(<cymetric.cyclus.Hdf5Back object at 0x7f4a98786e60>, 'test.h5', <class 'cymetric.cyclus.Hdf5Back'>) ... HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5D.c line 358 in H5Dopen2(): not found
major: Dataset
minor: Object not found
#001: H5Gloc.c line 430 in H5G_loc_find(): can't find object
major: Symbol table
minor: Object not found
#002: H5Gtraverse.c line 861 in H5G_traverse(): internal path traversal failed
major: Symbol table
minor: Object not found
#003: H5Gtraverse.c line 641 in H5G_traverse_real(): traversal operator failed
major: Symbol table
minor: Callback failed
#004: H5Gloc.c line 385 in H5G_loc_find_cb(): object 'Compositions' doesn't exist
major: Symbol table
minor: Object not found
HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5D.c line 534 in H5Dget_type(): not a dataset
major: Invalid arguments to routine
minor: Inappropriate type
HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5Tfields.c line 87 in H5Tget_nmembers(): not a datatype
major: Invalid arguments to routine
minor: Inappropriate type
HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5D.c line 534 in H5Dget_type(): not a dataset
major: Invalid arguments to routine
minor: Inappropriate type
HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
#000: H5T.c line 2097 in H5Tget_size(): not a datatype
major: Invalid arguments to routine
minor: Inappropriate type
ERROR
test_cyclus.test_conds_comp(<cymetric.cyclus.SqliteBack object at 0x7f4a98797128>, 'test.sqlite', <class 'cymetric.cyclus.SqliteBack'>) ... ERROR
test_cyclus.test_name(<cymetric.cyclus.Hdf5Back object at 0x7f4a98797290>, 'test.h5', <class 'cymetric.cyclus.Hdf5Back'>) ... Segmentation fault (core dumped)
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