Hi I’m using a Windows 10 64-bit machine with Anaconda (Anaconda3-2021.05-Windows-x86_64). I have admin rights on my laptop. I followed the installation instructions given here for Windows using the “environment.yml” files approach.
Installation Guide (Windows) · pymc-devs/pymc3 Wiki · GitHub
Then I began to test my installation of Pymc3 using the Getting Started Guide found here: Getting started with PyMC3 — PyMC3 3.10.0 documentation
I was able to successfully complete both the (1) Linear Regression and (2) Stock Market Return examples without any errors. When I ran the example (3) Coal Mine Disasters is when I got the following error (Note that I ran all examples in one go and I did not make any changes to my environment in any way between testing the examples):
Exception: ('Compilation failed (return status=1): C:\\Users\\SreeDatta\\AppData\\Local\\Temp\\ccEWCiGI.s: Assembler messages:\r. C:\\Users\\SreeDatta\\AppData\\Local\\Temp\\ccEWCiGI.s:367: Error: invalid register for .seh_savexmm\r. ', 'FunctionGraph(Elemwise{eq,no_inplace}(<TensorType(int64, vector)>, <TensorType(int8, (True,))>))')
This appears to be an error coming from Theano. I’m hoping one of can help with this error. I have a base installation of Anaconda and created a new environment using the “environment.yml” file. Here are all the packages in my “pm3env”
# packages in environment at C:\ProgramData\Anaconda3\envs\pm3env:
#
# Name Version Build Channel
argon2-cffi 20.1.0 py37hcc03f2d_2 conda-forge
arviz 0.11.1 pypi_0 pypi
async_generator 1.10 py_0 conda-forge
attrs 21.2.0 pyhd8ed1ab_0 conda-forge
backcall 0.2.0 pyh9f0ad1d_0 conda-forge
backports 1.0 py_2 conda-forge
backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge
bambi 0.5.0 pypi_0 pypi
blas 1.0 mkl
bleach 4.0.0 pyhd8ed1ab_0 conda-forge
ca-certificates 2021.5.30 h5b45459_0 conda-forge
cached-property 1.5.2 pypi_0 pypi
cachetools 4.2.2 pypi_0 pypi
cairo 1.16.0 hb19e0ff_1008 conda-forge
certifi 2021.5.30 py37h03978a9_0 conda-forge
cffi 1.14.6 py37hd8e9650_0 conda-forge
cftime 1.5.0 pypi_0 pypi
colorama 0.4.4 pyh9f0ad1d_0 conda-forge
cycler 0.10.0 py_2 conda-forge
decorator 5.0.9 pyhd8ed1ab_0 conda-forge
defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge
dill 0.3.4 pypi_0 pypi
entrypoints 0.3 pyhd8ed1ab_1003 conda-forge
et-xmlfile 1.1.0 pypi_0 pypi
expat 2.4.1 h39d44d4_0 conda-forge
fastprogress 1.0.0 pypi_0 pypi
filelock 3.0.12 pypi_0 pypi
font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge
font-ttf-inconsolata 3.000 h77eed37_0 conda-forge
font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge
font-ttf-ubuntu 0.83 hab24e00_0 conda-forge
fontconfig 2.13.1 h1989441_1005 conda-forge
fonts-conda-ecosystem 1 0 conda-forge
fonts-conda-forge 1 0 conda-forge
formulae 0.1.3 pypi_0 pypi
freetype 2.10.4 h546665d_1 conda-forge
fribidi 1.0.10 h8d14728_0 conda-forge
getopt-win32 0.1 h8ffe710_0 conda-forge
gettext 0.19.8.1 h1a89ca6_1005 conda-forge
graphite2 1.3.13 1000 conda-forge
graphviz 2.48.0 hefbd956_0 conda-forge
gts 0.7.6 h7c369d9_2 conda-forge
h5py 3.1.0 pypi_0 pypi
harfbuzz 2.8.2 hc601d6f_0 conda-forge
icc_rt 2019.0.0 h0cc432a_1
icu 68.1 h0e60522_0 conda-forge
importlib-metadata 2.1.1 pypi_0 pypi
intel-openmp 2021.3.0 h57928b3_3372 conda-forge
ipykernel 5.5.5 py37h7813e69_0 conda-forge
ipython 7.26.0 py37h4038f58_0 conda-forge
ipython_genutils 0.2.0 py_1 conda-forge
ipywidgets 7.6.3 pyhd3eb1b0_1
jbig 2.1 h8d14728_2003 conda-forge
jedi 0.18.0 py37h03978a9_2 conda-forge
jinja2 3.0.1 pyhd8ed1ab_0 conda-forge
jpeg 9d h8ffe710_0 conda-forge
jsonschema 3.2.0 pyhd8ed1ab_3 conda-forge
jupyter 1.0.0 py37_7
jupyter_client 6.1.12 pyhd8ed1ab_0 conda-forge
jupyter_console 6.4.0 pyhd8ed1ab_0 conda-forge
jupyter_core 4.7.1 py37h03978a9_0 conda-forge
jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge
jupyterlab_widgets 1.0.0 pyhd8ed1ab_1 conda-forge
kiwisolver 1.3.1 py37h8c56517_1 conda-forge
lcms2 2.12 h2a16943_0 conda-forge
lerc 2.2.1 h0e60522_0 conda-forge
libclang 11.1.0 default_h5c34c98_1 conda-forge
libdeflate 1.7 h8ffe710_5 conda-forge
libffi 3.3 h0e60522_2 conda-forge
libgd 2.3.2 h138e682_0 conda-forge
libglib 2.68.3 h1e62bf3_0 conda-forge
libiconv 1.16 he774522_0 conda-forge
libpng 1.6.37 h1d00b33_2 conda-forge
libpython 2.1 py37_0
libsodium 1.0.18 h8d14728_1 conda-forge
libtiff 4.3.0 h0c97f57_1 conda-forge
libwebp 1.2.0 h57928b3_0 conda-forge
libwebp-base 1.2.0 h8ffe710_2 conda-forge
libxcb 1.13 hcd874cb_1003 conda-forge
libxml2 2.9.12 hf5bbc77_0 conda-forge
llvmlite 0.36.0 py37habb0c8c_0 conda-forge
lz4-c 1.9.3 h8ffe710_1 conda-forge
m2w64-gcc-libgfortran 5.3.0 6 conda-forge
m2w64-gcc-libs 5.3.0 7 conda-forge
m2w64-gcc-libs-core 5.3.0 7 conda-forge
m2w64-gmp 6.1.0 2 conda-forge
m2w64-libwinpthread-git 5.0.0.4634.697f757 2 conda-forge
markupsafe 2.0.1 py37hcc03f2d_0 conda-forge
matplotlib 3.3.2 haa95532_0
matplotlib-base 3.3.2 py37h3379fd5_1 conda-forge
matplotlib-inline 0.1.2 pyhd8ed1ab_2 conda-forge
mistune 0.8.4 py37hcc03f2d_1004 conda-forge
mkl 2020.4 hb70f87d_311 conda-forge
mkl-service 2.3.0 py37h196d8e1_0
mkl_fft 1.3.0 py37hda49f71_1 conda-forge
mkl_random 1.2.0 py37h414f9d2_1 conda-forge
mpmath 1.2.1 pyhd8ed1ab_0 conda-forge
msys2-conda-epoch 20160418 1 conda-forge
nbclient 0.5.3 pyhd8ed1ab_0 conda-forge
nbconvert 6.1.0 py37h03978a9_0 conda-forge
nbformat 5.1.3 pyhd8ed1ab_0 conda-forge
nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge
netcdf4 1.5.7 pypi_0 pypi
notebook 6.4.0 pyha770c72_0 conda-forge
numba 0.53.1 py37h4e635f9_0 conda-forge
numpy 1.19.2 py37hadc3359_0
numpy-base 1.19.2 py37ha3acd2a_0
olefile 0.46 pyh9f0ad1d_1 conda-forge
openjpeg 2.4.0 hb211442_1 conda-forge
openpyxl 3.0.7 pypi_0 pypi
openssl 1.1.1k h8ffe710_0 conda-forge
packaging 21.0 pyhd8ed1ab_0 conda-forge
pandas 1.2.1 py37hf11a4ad_0
pandoc 2.14.1 h8ffe710_0 conda-forge
pandocfilters 1.4.2 py_1 conda-forge
pango 1.48.7 hd84fcdd_0 conda-forge
parso 0.8.2 pyhd8ed1ab_0 conda-forge
patsy 0.5.1 pypi_0 pypi
pcre 8.45 h0e60522_0 conda-forge
pickleshare 0.7.5 py_1003 conda-forge
pillow 8.3.1 py37hd7d9ad0_0 conda-forge
pip 20.3.3 py37haa95532_0
pixman 0.40.0 h8ffe710_0 conda-forge
prometheus_client 0.11.0 pyhd8ed1ab_0 conda-forge
prompt-toolkit 3.0.19 pyha770c72_0 conda-forge
prompt_toolkit 3.0.19 hd8ed1ab_0 conda-forge
pthread-stubs 0.4 hcd874cb_1001 conda-forge
pycparser 2.20 pyh9f0ad1d_2 conda-forge
pygments 2.9.0 pyhd8ed1ab_0 conda-forge
pymc3 3.11.2 pypi_0 pypi
pyparsing 2.4.7 pyh9f0ad1d_0 conda-forge
pyqt 5.12.3 py37h03978a9_7 conda-forge
pyqt-impl 5.12.3 py37hf2a7229_7 conda-forge
pyqt5-sip 4.19.18 py37hf2a7229_7 conda-forge
pyqtchart 5.12 py37hf2a7229_7 conda-forge
pyqtwebengine 5.12.1 py37hf2a7229_7 conda-forge
pyrsistent 0.17.3 py37hcc03f2d_2 conda-forge
python 3.7.9 h60c2a47_0
python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge
python-graphviz 0.16 pyh243d235_2 conda-forge
python_abi 3.7 2_cp37m conda-forge
pytz 2021.1 pyhd8ed1ab_0 conda-forge
pywin32 300 py37hcc03f2d_0 conda-forge
pywinpty 1.1.3 py37h7f67f24_0 conda-forge
pyzmq 22.2.0 py37hcce574b_0 conda-forge
qt 5.12.9 h5909a2a_4 conda-forge
qtconsole 5.1.1 pyhd8ed1ab_0 conda-forge
qtpy 1.9.0 py_0 conda-forge
scipy 1.7.1 pypi_0 pypi
semver 2.13.0 pypi_0 pypi
send2trash 1.7.1 pyhd8ed1ab_0 conda-forge
setuptools 49.6.0 py37h03978a9_3 conda-forge
six 1.16.0 pyh6c4a22f_0 conda-forge
sqlite 3.36.0 h8ffe710_0 conda-forge
statsmodels 0.12.2 pypi_0 pypi
sympy 1.7.1 py37h03978a9_1 conda-forge
terminado 0.10.1 py37h03978a9_0 conda-forge
testpath 0.5.0 pyhd8ed1ab_0 conda-forge
theano-pymc 1.1.2 pypi_0 pypi
tk 8.6.10 h8ffe710_1 conda-forge
tornado 6.1 py37hcc03f2d_1 conda-forge
traitlets 5.0.5 py_0 conda-forge
typing 3.7.4.3 pypi_0 pypi
typing_extensions 3.10.0.0 pyha770c72_0 conda-forge
ucrt 10.0.20348.0 h57928b3_0 conda-forge
vc 14.2 hb210afc_5 conda-forge
vs2015_runtime 14.29.30037 h902a5da_5 conda-forge
watermark 2.2.0 pypi_0 pypi
wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge
webencodings 0.5.1 py_1 conda-forge
wheel 0.36.2 pyhd3deb0d_0 conda-forge
widgetsnbextension 3.5.1 py37h03978a9_4 conda-forge
wincertstore 0.2 py37h03978a9_1006 conda-forge
winpty 0.4.3 4 conda-forge
xarray 0.16.2 pypi_0 pypi
xorg-kbproto 1.0.7 hcd874cb_1002 conda-forge
xorg-libice 1.0.10 hcd874cb_0 conda-forge
xorg-libsm 1.2.3 hcd874cb_1000 conda-forge
xorg-libx11 1.7.2 hcd874cb_0 conda-forge
xorg-libxau 1.0.9 hcd874cb_0 conda-forge
xorg-libxdmcp 1.1.3 hcd874cb_0 conda-forge
xorg-libxext 1.3.4 hcd874cb_1 conda-forge
xorg-libxpm 3.5.13 hcd874cb_0 conda-forge
xorg-libxt 1.2.1 hcd874cb_2 conda-forge
xorg-xextproto 7.3.0 hcd874cb_1002 conda-forge
xorg-xproto 7.0.31 hcd874cb_1007 conda-forge
xz 5.2.5 h62dcd97_1 conda-forge
zeromq 4.3.4 h0e60522_0 conda-forge
zipp 3.5.0 pyhd8ed1ab_0 conda-forge
zlib 1.2.11 h62dcd97_1010 conda-forge
zstd 1.5.0 h6255e5f_0 conda-forge
Here is the code I tried to run:
with pm.Model() as disaster_model:
switchpoint = pm.DiscreteUniform(
"switchpoint", lower=years.min(), upper=years.max(), testval=1900
)
# Priors for pre- and post-switch rates number of disasters
early_rate = pm.Exponential("early_rate", 1.0)
late_rate = pm.Exponential("late_rate", 1.0)
# Allocate appropriate Poisson rates to years before and after current
rate = pm.math.switch(switchpoint >= years, early_rate, late_rate)
disasters = pm.Poisson("disasters", rate, observed=disaster_data)
Here is the complete traceback of the error I got:
You can find the C code in this temporary file: C:\Users\SreeDatta\AppData\Local\Temp\theano_compilation_error_f10nrpwx
---------------------------------------------------------------------------
Exception Traceback (most recent call last)
<ipython-input-20-392de9deec43> in <module>
12 rate = pm.math.switch(switchpoint >= years, early_rate, late_rate)
13
---> 14 disasters = pm.Poisson("disasters", rate, observed=disaster_data)
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\pymc3\distributions\distribution.py in __new__(cls, name, *args, **kwargs)
120 else:
121 dist = cls.dist(*args, **kwargs)
--> 122 return model.Var(name, dist, data, total_size, dims=dims)
123
124 def __getnewargs__(self):
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\pymc3\model.py in Var(self, name, dist, data, total_size, dims)
1180 distribution=dist,
1181 total_size=total_size,
-> 1182 model=self,
1183 )
1184 self.observed_RVs.append(var)
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\pymc3\model.py in __init__(self, type, owner, index, name, data, distribution, total_size, model)
1826
1827 self.missing_values = data.missing_values
-> 1828 self.logp_elemwiset = distribution.logp(data)
1829 # The logp might need scaling in minibatches.
1830 # This is done in `Factor`.
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\pymc3\distributions\discrete.py in logp(self, value)
704 """
705 mu = self.mu
--> 706 log_prob = bound(logpow(mu, value) - factln(value) - mu, mu >= 0, value >= 0)
707 # Return zero when mu and value are both zero
708 return tt.switch(tt.eq(mu, 0) * tt.eq(value, 0), 0, log_prob)
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\pymc3\distributions\dist_math.py in logpow(x, m)
106 """
107 # return m * log(x)
--> 108 return tt.switch(tt.eq(x, 0), tt.switch(tt.eq(m, 0), 0.0, -np.inf), m * tt.log(x))
109
110
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\graph\op.py in __call__(self, *inputs, **kwargs)
251
252 if config.compute_test_value != "off":
--> 253 compute_test_value(node)
254
255 if self.default_output is not None:
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\graph\op.py in compute_test_value(node)
124
125 # Create a thunk that performs the computation
--> 126 thunk = node.op.make_thunk(node, storage_map, compute_map, no_recycling=[])
127 thunk.inputs = [storage_map[v] for v in node.inputs]
128 thunk.outputs = [storage_map[v] for v in node.outputs]
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\graph\op.py in make_thunk(self, node, storage_map, compute_map, no_recycling, impl)
632 )
633 try:
--> 634 return self.make_c_thunk(node, storage_map, compute_map, no_recycling)
635 except (NotImplementedError, MethodNotDefined):
636 # We requested the c code, so don't catch the error.
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\graph\op.py in make_c_thunk(self, node, storage_map, compute_map, no_recycling)
599 raise NotImplementedError("float16")
600 outputs = cl.make_thunk(
--> 601 input_storage=node_input_storage, output_storage=node_output_storage
602 )
603 thunk, node_input_filters, node_output_filters = outputs
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\link\c\basic.py in make_thunk(self, input_storage, output_storage, storage_map)
1202 init_tasks, tasks = self.get_init_tasks()
1203 cthunk, module, in_storage, out_storage, error_storage = self.__compile__(
-> 1204 input_storage, output_storage, storage_map
1205 )
1206
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\link\c\basic.py in __compile__(self, input_storage, output_storage, storage_map)
1140 input_storage,
1141 output_storage,
-> 1142 storage_map,
1143 )
1144 return (
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\link\c\basic.py in cthunk_factory(self, error_storage, in_storage, out_storage, storage_map)
1632 for node in self.node_order:
1633 node.op.prepare_node(node, storage_map, None, "c")
-> 1634 module = get_module_cache().module_from_key(key=key, lnk=self)
1635
1636 vars = self.inputs + self.outputs + self.orphans
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\link\c\cmodule.py in module_from_key(self, key, lnk)
1189 try:
1190 location = dlimport_workdir(self.dirname)
-> 1191 module = lnk.compile_cmodule(location)
1192 name = module.__file__
1193 assert name.startswith(location)
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\link\c\basic.py in compile_cmodule(self, location)
1548 lib_dirs=self.lib_dirs(),
1549 libs=libs,
-> 1550 preargs=preargs,
1551 )
1552 except Exception as e:
C:\ProgramData\Anaconda3\envs\pm3env\lib\site-packages\theano\link\c\cmodule.py in compile_str(module_name, src_code, location, include_dirs, lib_dirs, libs, preargs, py_module, hide_symbols)
2545 compile_stderr = compile_stderr.replace("\n", ". ")
2546 raise Exception(
-> 2547 f"Compilation failed (return status={status}): {compile_stderr}"
2548 )
2549 elif config.cmodule__compilation_warning and compile_stderr:
Exception: ('Compilation failed (return status=1): C:\\Users\\SreeDatta\\AppData\\Local\\Temp\\ccEWCiGI.s: Assembler messages:\r. C:\\Users\\SreeDattappData\\Local\\Temp\\ccEWCiGI.s:367: Error: invalid register for .seh_savexmm\r. ', 'FunctionGraph(Elemwise{eq,no_inplace}(<TensorType(int64, vector)>, <TensorType(int8, (True,))>))')
Thanks in advance for your help.