Closed shoshievass closed 5 years ago
jeffgortmaker
commented
5 years ago Can you post the full traceback so I can see what failed an assertion error?
If this is related to #19, it'd also help if you post the output of conda list. You might be on an old patsy version or something like that.
shoshievass
commented
5 years ago I'm updating conda now to make sure -- I'll post if the error doesn't go away.
shoshievass
commented
5 years ago It didn't work. Here is the full traceback:
---------------------------------------------------------------------------
AssertionError Traceback (most recent call last)
<ipython-input-4-6733810cf6e0> in <module>()
----> 1 logit_formulation = pyblp.Formulation('prices', absorb='C(product_ids)')
2 logit_formulation
~/anaconda3/lib/python3.6/site-packages/pyblp/configurations/formulation.py in __init__(self, formula, absorb, absorb_method)
132 self._formula = formula
133 self._absorb = absorb
--> 134 self._terms = parse_terms(formula)
135 self._absorbed_terms: List[patsy.desc.Term] = []
136 if absorb is not None:
~/anaconda3/lib/python3.6/site-packages/pyblp/configurations/formulation.py in parse_terms(formula)
504 def parse_terms(formula: str) -> List[patsy.desc.Term]:
505 """Parse patsy terms from a string. Validate that the string contains only right-hand side terms."""
--> 506 description = patsy.highlevel.ModelDesc.from_formula(formula)
507 if description.lhs_termlist:
508 end = formula.index('~') + 1 if '~' in formula else len(formula)
~/anaconda3/lib/python3.6/site-packages/patsy/desc.py in from_formula(cls, tree_or_string)
162 tree = tree_or_string
163 else:
--> 164 tree = parse_formula(tree_or_string)
165 value = Evaluator().eval(tree, require_evalexpr=False)
166 assert isinstance(value, cls)
~/anaconda3/lib/python3.6/site-packages/patsy/parse_formula.py in parse_formula(code, extra_operators)
146 tree = infix_parse(_tokenize_formula(code, operator_strings),
147 operators,
--> 148 _atomic_token_types)
149 if not isinstance(tree, ParseNode) or tree.type != "~":
150 tree = ParseNode("~", None, [tree], tree.origin)
~/anaconda3/lib/python3.6/site-packages/patsy/infix_parser.py in infix_parse(tokens, operators, atomic_types, trace)
208
209 want_noun = True
--> 210 for token in token_source:
211 if c.trace:
212 print("Reading next token (want_noun=%r)" % (want_noun,))
~/anaconda3/lib/python3.6/site-packages/patsy/parse_formula.py in _tokenize_formula(code, operator_strings)
92 else:
93 it.push_back((pytype, token_string, origin))
---> 94 yield _read_python_expr(it, end_tokens)
95
96 def test__tokenize_formula():
~/anaconda3/lib/python3.6/site-packages/patsy/parse_formula.py in _read_python_expr(it, end_tokens)
42 origins = []
43 bracket_level = 0
---> 44 for pytype, token_string, origin in it:
45 assert bracket_level >= 0
46 if bracket_level == 0 and token_string in end_tokens:
~/anaconda3/lib/python3.6/site-packages/patsy/util.py in next(self)
330 else:
331 # May raise StopIteration
--> 332 return six.advance_iterator(self._it)
333 __next__ = next
334
~/anaconda3/lib/python3.6/site-packages/patsy/tokens.py in python_tokenize(code)
33 break
34 origin = Origin(code, start, end)
---> 35 assert pytype not in (tokenize.NL, tokenize.NEWLINE)
36 if pytype == tokenize.ERRORTOKEN:
37 raise PatsyError("error tokenizing input "
AssertionError: Conda list:
# packages in environment at /Users/shoshievass/anaconda3:
#
# Name Version Build Channel
_ipyw_jlab_nb_ext_conf 0.1.0 py36h2fc01ae_0
alabaster 0.7.10 py36h174008c_0
anaconda-client 1.6.14 py36_0
anaconda-navigator 1.9.6 py36_0
anaconda-project 0.8.2 py36h9ee5d53_0
appnope 0.1.0 py36hf537a9a_0
appscript 1.0.1 py36h9e71e49_1
asn1crypto 0.24.0 py36_0
astroid 1.6.3 py36_0
astropy 3.0.2 py36h917ab60_1
attrs 18.1.0 py36_0
babel 2.5.3 py36_0
backcall 0.1.0 py36_0
backports 1.0 py36ha3c1827_1
backports.shutil_get_terminal_size 1.0.0 py36hd7a2ee4_2
beautifulsoup4 4.6.0 py36h72d3c9f_1
bitarray 0.8.1 py36h1de35cc_1
bkcharts 0.2 py36h073222e_0
blas 1.0 mkl
blaze 0.11.3 py36h02e7a37_0
bleach 2.1.3 py36_0
blosc 1.14.3 hd9629dc_0
bokeh 0.12.16 py36_0
boto 2.48.0 py36hdbc59ac_1
bottleneck 1.2.1 py36hbd380ad_0
bzip2 1.0.6 h1de35cc_5
ca-certificates 2019.1.23 0
certifi 2018.11.29 py36_0
cffi 1.11.5 py36h342bebf_0
chardet 3.0.4 py36h96c241c_1
click 6.7 py36hec950be_0
cloudpickle 0.5.3 py36_0
clyent 1.2.2 py36hae3ad88_0
colorama 0.3.9 py36hd29a30c_0
conda 4.6.7 py36_0
conda-build 3.10.5 py36_0
conda-env 2.6.0 h36134e3_0
conda-verify 2.0.0 py36he837df3_0
contextlib2 0.5.5 py36hd66e5e7_0
cryptography 2.5 py36ha12b0ac_0
curl 7.63.0 ha441bb4_1000
cycler 0.10.0 py36hfc81398_0
cython 0.28.2 py36h1de35cc_0
cytoolz 0.9.0.1 py36h1de35cc_0
dask 0.17.5 py36_0
dask-core 0.17.5 py36_0
datashape 0.5.4 py36hfb22df8_0
dbus 1.13.2 h760590f_1
decorator 4.3.0 py36_0
distributed 1.21.8 py36_0
docutils 0.14 py36hbfde631_0
entrypoints 0.2.3 py36hd81d71f_2
et_xmlfile 1.0.1 py36h1315bdc_0
expat 2.2.5 hb8e80ba_0
fastcache 1.0.2 py36h1de35cc_2
filelock 3.0.4 py36_0
flask 1.0.2 py36_1
flask-cors 3.0.4 py36_0
freetype 2.8 h12048fb_1
future 0.16.0 pypi_0 pypi
get_terminal_size 1.0.0 h7520d66_0
gettext 0.19.8.1 h15daf44_3
gevent 1.3.0 py36h1de35cc_0
glib 2.56.1 h35bc53a_0
glob2 0.6 py36h94c9186_0
gmp 6.1.2 hb37e062_1
gmpy2 2.0.8 py36hf9c35bd_2
greenlet 0.4.13 py36h1de35cc_0
h5py 2.7.1 py36ha8ecd60_2
hdf5 1.10.2 hfa1e0ec_1
heapdict 1.0.0 py36_2
html5lib 1.0.1 py36h2f9c1c0_0
icu 58.2 h4b95b61_1
idna 2.6 py36h8628d0a_1
imageio 2.3.0 py36_0
imagesize 1.0.0 py36_0
intel-openmp 2018.0.0 8
ipykernel 4.8.2 py36_0
ipython 6.4.0 py36_0
ipython_genutils 0.2.0 py36h241746c_0
ipywidgets 7.2.1 py36_0
isort 4.3.4 py36_0
itsdangerous 0.24 py36h49fbb8d_1
jbig 2.1 h4d881f8_0
jdcal 1.4 py36_0
jedi 0.12.0 py36_1
jinja2 2.10 py36hd36f9c5_0
jpeg 9b he5867d9_2
jsonschema 2.6.0 py36hb385e00_0
jupyter 1.0.0 py36_4
jupyter_client 5.2.3 py36_0
jupyter_console 5.2.0 py36hccf5b1c_1
jupyter_core 4.4.0 py36h79cf704_0
jupyterlab 0.32.1 py36_0
jupyterlab_launcher 0.10.5 py36_0
keyring 18.0.0 py36_0
kiwisolver 1.0.1 py36h792292d_0
krb5 1.16.1 hddcf347_7
lazy-object-proxy 1.3.1 py36h2fbbe47_0
libcurl 7.63.0 h051b688_1000
libcxx 4.0.1 h579ed51_0
libcxxabi 4.0.1 hebd6815_0
libedit 3.1.20170329 hb402a30_2
libffi 3.2.1 h475c297_4
libgfortran 3.0.1 h93005f0_2
libiconv 1.15 hdd342a3_7
libpng 1.6.34 he12f830_0
libsodium 1.0.16 h3efe00b_0
libssh2 1.8.0 ha12b0ac_4
libtiff 4.0.9 hcb84e12_1
libxml2 2.9.8 hab757c2_1
libxslt 1.1.32 hb819dd2_0
llvmlite 0.23.1 py36hc454e04_0
locket 0.2.0 py36hca03003_1
lxml 4.2.1 py36h7166777_0
lzo 2.10 h362108e_2
markupsafe 1.0 py36h3a1e703_1
matplotlib 2.2.2 py36ha7267d0_0
mccabe 0.6.1 py36hdaeb55d_0
mistune 0.8.3 py36h1de35cc_1
mkl 2018.0.2 1
mkl-service 1.1.2 py36h7ea6df4_4
mkl_fft 1.0.1 py36h917ab60_0
mkl_random 1.0.1 py36h78cc56f_0
more-itertools 4.1.0 py36_0
mpc 1.0.3 h7a72875_5
mpfr 3.1.5 h711e7fd_2
mpmath 1.0.0 py36hf1b8295_2
msgpack 0.5.6 pypi_0 pypi
msgpack-python 0.5.6 py36h04f5b5a_0
multipledispatch 0.5.0 py36_0
navigator-updater 0.2.1 py36_0
nbconvert 5.3.1 py36h810822e_0
nbformat 4.4.0 py36h827af21_0
ncurses 6.1 h0a44026_0
networkx 2.1 py36_0
nltk 3.3.0 py36_0
nose 1.3.7 py36h73fae2b_2
notebook 5.5.0 py36_0
numba 0.38.0 py36h1702cab_0
numexpr 2.6.5 py36h057f876_0
numpy 1.14.3 py36h9bb19eb_1
numpy-base 1.14.3 py36h479e554_1
numpydoc 0.8.0 py36_0
odo 0.5.1 py36hc1af34a_0
olefile 0.45.1 py36_0
openpyxl 2.5.3 py36_0
openssl 1.1.1b h1de35cc_0
packaging 17.1 py36_0
pandas 0.23.0 py36h1702cab_0
pandoc 1.19.2.1 ha5e8f32_1
pandocfilters 1.4.2 py36h3b0b094_1
parso 0.2.0 py36_0
partd 0.3.8 py36hf5c4cb8_0
path.py 11.0.1 py36_0
pathlib2 2.3.2 py36_0
patsy 0.5.0 py36_0
pcre 8.42 h378b8a2_0
pep8 1.7.1 py36_0
pexpect 4.5.0 py36_0
pickleshare 0.7.4 py36hf512f8e_0
pillow 5.1.0 py36hfcce615_0
pip 19.0.3 pypi_0 pypi
pkginfo 1.4.2 py36_1
pluggy 0.6.0 py36hb1d0581_0
ply 3.11 py36_0
prompt_toolkit 1.0.15 py36haeda067_0
proselint 0.10.2 pypi_0 pypi
psutil 5.4.5 py36h1de35cc_0
ptyprocess 0.5.2 py36he6521c3_0
py 1.5.3 py36_0
pyblp 0.6.1 pypi_0 pypi
pycodestyle 2.4.0 py36_0
pycosat 0.6.3 py36hee92d8f_0
pycparser 2.18 py36h724b2fc_1
pycrypto 2.6.1 py36h1de35cc_8
pycurl 7.43.0.2 py36ha12b0ac_0
pyflakes 1.6.0 py36hea45e83_0
pygments 2.2.0 py36h240cd3f_0
pylint 1.8.4 py36_0
pyodbc 4.0.23 py36h0a44026_0
pyopenssl 18.0.0 py36_0
pyparsing 2.2.0 py36hb281f35_0
pyqt 5.9.2 py36h11d3b92_0
pysocks 1.6.8 py36_0
pytables 3.4.3 py36h5ca999c_2
pytest 3.5.1 py36_0
pytest-arraydiff 0.2 py36_0
pytest-astropy 0.3.0 py36_0
pytest-doctestplus 0.1.3 py36_0
pytest-openfiles 0.3.0 py36_0
pytest-remotedata 0.2.1 py36_0
python 3.6.8 haf84260_0
python-dateutil 2.7.3 py36_0
python.app 2 py36_8
pytz 2018.4 py36_0
pywavelets 0.5.2 py36h2710a04_0
pyyaml 3.12 py36h2ba1e63_1
pyzmq 17.0.0 py36h1de35cc_1
qt 5.9.5 h02808f3_0
qtawesome 0.4.4 py36h468c6fb_0
qtconsole 4.3.1 py36hd96c0ff_0
qtpy 1.4.1 py36_0
readline 7.0 hc1231fa_4
requests 2.18.4 py36h4516966_1
rope 0.10.7 py36h68959ac_0
ruamel_yaml 0.15.35 py36h1de35cc_1
scikit-image 0.13.1 py36h1de35cc_1
scikit-learn 0.19.1 py36hffbff8c_0
scipy 1.1.0 py36hcaad992_0
seaborn 0.8.1 py36h595ecd9_0
send2trash 1.5.0 py36_0
setuptools 39.1.0 py36_0
simplegeneric 0.8.1 py36_2
singledispatch 3.4.0.3 py36hf20db9d_0
sip 4.19.8 py36h0a44026_0
six 1.11.0 py36h0e22d5e_1
snappy 1.1.7 he62c110_3
snowballstemmer 1.2.1 py36h6c7b616_0
sortedcollections 0.6.1 py36_0
sortedcontainers 1.5.10 py36_0
sphinx 1.7.4 py36_0
sphinxcontrib 1.0 py36h9364dc8_1
sphinxcontrib-websupport 1.0.1 py36h92f4a7a_1
spyder 3.3.1 py36_1
spyder-kernels 0.2.6 py36_0
sqlalchemy 1.2.7 py36hb402a30_0
sqlite 3.26.0 ha441bb4_0
statsmodels 0.9.0 py36h917ab60_0
sympy 1.1.1 py36h7f3cf04_0
tblib 1.3.2 py36hda67792_0
terminado 0.8.1 py36_1
testpath 0.3.1 py36h625a49b_0
tk 8.6.8 ha441bb4_0
toolz 0.9.0 py36_0
tornado 5.0.2 py36_0
traitlets 4.3.2 py36h65bd3ce_0
typing 3.6.4 py36_0
unicodecsv 0.14.1 py36he531d66_0
unixodbc 2.3.6 h3efe00b_0
urllib3 1.22 py36h68b9469_0
wcwidth 0.1.7 py36h8c6ec74_0
webencodings 0.5.1 py36h3b9701d_1
werkzeug 0.14.1 py36_0
wheel 0.31.1 py36_0
widgetsnbextension 3.2.1 py36_0
wrapt 1.10.11 py36hc29e774_0
xlrd 1.1.0 py36h336f4a2_1
xlsxwriter 1.0.4 py36_0
xlwings 0.11.8 py36_0
xlwt 1.2.0 py36h5ad1178_0
xz 5.2.4 h1de35cc_4
yaml 0.1.7 hc338f04_2
zeromq 4.2.5 h378b8a2_0
zict 0.1.3 py36h71da714_0
zlib 1.2.11 hf3cbc9b_2 Looks like you still have an outdated patsy version (0.5.0 instead of 0.5.1).
Can you try conda update patsy?
shoshievass
commented
5 years ago Solved it! Thank you :)
jeffgortmaker
commented
5 years ago Glad it worked! I'll leave this issue open for now as a reminder to add some docs about outdated requirements.
I'm using python 3.6 through Anaconda. I installed pyblp through pip with no problems and tried running through the nested logit tutorial.
For some reason, the
pyblp.Formulationcommand raised an assertion error. I'm sure the issue is something stupid, but I'm wondering if it might have to do with a dependency on patsy or something else? Any pointers you might have on how to resolve this?