Segmentation fault

[atrifan2]

Hi, I cannot run this program on any linux box i tried. I get segmentation fault. This is my environment.

_tflow_select 2.2.0 eigen
absl-py 0.9.0 py36_0
appnope 0.1.0 py36hf537a9a_0
astor 0.8.0 py36_0
backcall 0.1.0 py36_0
bel-resources 0.0.3 py_0 bioconda
biopandas 0.2.4 py_0 conda-forge
blas 1.0 mkl
bzip2 1.0.8 h1de35cc_0
c-ares 1.15.0 h1de35cc_1001
ca-certificates 2020.1.1 0
cairo 1.16.0 hec6a9b0_1003 conda-forge
certifi 2019.11.28 py36_0
click 7.1.1 py_0
click-plugins 1.1.1 py_0
decorator 4.4.2 py_0
fontconfig 2.13.1 h6b1039f_1001 conda-forge
freetype 2.10.1 h8da9a1a_0 conda-forge
gast 0.3.3 py_0
gettext 0.19.8.1 h46ab8bc_1002 conda-forge
glib 2.63.1 hd977a24_0
grpcio 1.16.1 py36h044775b_1
h5py 2.10.0 py36h3134771_0
hdf5 1.10.4 hfa1e0ec_0
icu 64.2 h6de7cb9_1 conda-forge
idna 2.9 py_1
intel-openmp 2019.4 233
ipython 7.13.0 py36h5ca1d4c_0
ipython_genutils 0.2.0 py36_0
jedi 0.16.0 py36_0
joblib 0.14.1 pypi_0 pypi
keras 2.1.4 py36_0
libcxx 9.0.1 1 conda-forge
libcxxabi 4.0.1 hcfea43d_1
libedit 3.1.20181209 hb402a30_0
libffi 3.2.1 h475c297_4
libgfortran 3.0.1 h93005f0_2
libiconv 1.15 h0b31af3_1006 conda-forge
libpng 1.6.37 hbbe82c9_1 conda-forge
libprotobuf 3.11.4 hd9629dc_0
libxml2 2.9.10 h53d96d6_0 conda-forge
markdown 3.1.1 py36_0
mkl 2019.4 233
more-itertools 8.2.0 pypi_0 pypi
multisplitby 0.0.1 py_0 conda-forge
ncurses 6.2 h0a44026_0
networkx 2.4 py_0
numpy 1.14.2 py36ha9ae307_0
openbabel 2.4.1 py36_6 openbabel
openssl 1.1.1e h1de35cc_0
pandas 0.25.3 py36h0a44026_0
parso 0.6.2 py_0
pcre 8.44 h4a8c4bd_0 conda-forge
pexpect 4.8.0 py36_0
pickleshare 0.7.5 py36_0
pip 20.0.2 py36_1
pixman 0.38.0 h01d97ff_1003 conda-forge
prompt_toolkit 3.0.3 py_0
protobuf 3.11.4 py36h0a44026_0
ptyprocess 0.6.0 py36_0
pycparser 2.20 py_0
pygments 2.6.1 py_0
pyparsing 2.4.6 py_0
python 3.6.10 h359304d_0
python-dateutil 2.8.1 py_0
pytz 2019.3 py_0
pyyaml 5.3 py36h1de35cc_0
readline 7.0 h1de35cc_5
requests 2.13.0 py36_0 conda-forge
requests-file 1.4.3 py_0 conda-forge
scikit-learn 0.22.2.post1 pypi_0 pypi
scipy 1.2.1 py36h1410ff5_0
setuptools 46.0.0 py36_0
six 1.14.0 py36_0
sqlalchemy 1.3.15 py36h1de35cc_1
sqlite 3.31.1 ha441bb4_0
tensorboard 1.10.0 py36hdc36e2c_0
tensorflow 1.10.0 eigen_py36h0906837_0
tensorflow-base 1.10.0 eigen_py36h4f0eeca_0
termcolor 1.1.0 py36_1
tk 8.6.8 ha441bb4_0
tqdm 4.43.0 py_0
traitlets 4.3.3 py36_0
wcwidth 0.1.8 py_0
werkzeug 1.0.0 py_0
wheel 0.34.2 py36_0
xz 5.2.4 h1de35cc_4
yaml 0.1.7 hc338f04_2
zlib 1.2.11 h1de35cc_3

[pulimeng]

I'll have to look into it since segmentation fault is usually complicated.

[atrifan2]

Ok thank you

[byustudent]

I've also tried running it and run into a segmentation fault error

[pulimeng]

I cannot figure out the exact reason why this is happening. I'm not sure if the problem is with deep learning or the potential calculation. However, I am rewriting the script using pytorch. And hopefully it will solve the problem.

[pulimeng]

I think the problem is caused by DFIRE wants 32-bit linux and some other dependencies require 64-bit. I've seperated the repo to two parts so that data generation is independent from the learning part (most likely where the problem occurs).