@jbaranowski A new build specifically for the M1 macs should be available soon. If you get a chance to make a new conda environment and test it I’d really appreciate that.
It’s currently uploading to the anaconda servers, at which point it will take a little while to be available. You can see if it is by running:
conda search -c conda-forge cmdstan --platform=osx-arm64
If you see a message like No match found for: cmdstan. then it needs more time
I have the same problem that @jbaranowski described, so I followed these steps:
Creating model failed with output:
INFO:cmdstanpy:compiling stan file /Users/adrian/Documents/LAB4/tes.stan to exe file /Users/adrian/Documents/LAB4/tes
WARNING:cmdstanpy:CmdStan's precompiled header (PCH) files may need to be rebuilt.If your model failed to compile please run cmdstanpy.rebuild_cmdstan().
If the issue persists please open a bug report
---------------------------------------------------------------------------
ValueError Traceback (most recent call last)
/Users/adrian/Documents/LAB4/testgp.ipynb Cell 4' in <cell line: 1>()
----> 1 model = CmdStanModel(stan_file='tes.stan')
File ~/opt/anaconda3/envs/cmdstan/lib/python3.10/site-packages/cmdstanpy/model.py:210, in CmdStanModel.__init__(self, model_name, stan_file, exe_file, compile, stanc_options, cpp_options, user_header)
208 self.compile(force=str(compile).lower() == 'force')
209 if self._exe_file is None:
--> 210 raise ValueError(
211 'Unable to compile Stan model file: {}.'.format(
212 self._stan_file
213 )
214 )
ValueError: Unable to compile Stan model file: /Users/adrian/Documents/LAB4/tes.stan.
As suggested I tried to rebuild, but it also failed:
Compiling: (01:09) | ████▉ | make: ** ... stansummary] Error 1
---------------------------------------------------------------------------
RuntimeError Traceback (most recent call last)
File ~/opt/anaconda3/envs/cmdstan/lib/python3.10/site-packages/cmdstanpy/install_cmdstan.py:117, in build(verbose, progress, cores)
116 progress_hook: Any = _wrap_build_progress_hook()
--> 117 do_command(cmd, fd_out=None, pbar=progress_hook)
118 else:
File ~/opt/anaconda3/envs/cmdstan/lib/python3.10/site-packages/cmdstanpy/utils.py:1089, in do_command(cmd, cwd, fd_out, pbar)
1086 msg = 'Command {}\n\t{} {}'.format(
1087 cmd, returncode_msg(proc.returncode), serror
1088 )
-> 1089 raise RuntimeError(msg)
1090 except OSError as e:
RuntimeError: Command ['make', 'build', '-j1']
error during processing No such file or directory
During handling of the above exception, another exception occurred:
CmdStanInstallError Traceback (most recent call last)
/Users/adrian/Documents/LAB4/testgp.ipynb Cell 3' in <cell line: 2>()
1 from cmdstanpy import rebuild_cmdstan
----> 2 rebuild_cmdstan()
File ~/opt/anaconda3/envs/cmdstan/lib/python3.10/site-packages/cmdstanpy/install_cmdstan.py:223, in rebuild_cmdstan(verbose, progress, cores)
221 with pushd(cmdstan_path()):
222 clean_all(verbose)
--> 223 build(verbose, progress, cores)
224 compile_example(verbose)
225 except ValueError as e:
File ~/opt/anaconda3/envs/cmdstan/lib/python3.10/site-packages/cmdstanpy/install_cmdstan.py:123, in build(verbose, progress, cores)
119 do_command(cmd, fd_out=None)
121 except RuntimeError as e:
122 # pylint: disable=raise-missing-from
--> 123 raise CmdStanInstallError(f'Command "make build" failed\n{str(e)}')
124 if not os.path.exists(os.path.join('bin', 'stansummary' + EXTENSION)):
125 raise CmdStanInstallError(
126 f'bin/stansummary{EXTENSION} not found'
127 ', please rebuild or report a bug!'
128 )
CmdStanInstallError: Command "make build" failed
Command ['make', 'build', '-j1']
error during processing No such file or directory
So it seems that there is still an issue somewhere in conda version or maybe I am doing something wrong
Hi @adudek -
Can you check to make sure you are using the osx-arm64 specific version? The output of conda info would be helpful as well
I figured it out. It turned out, that I used VSCode, which wasn’t part of conda installation (just another independent installation). Even when connected to conda kernel it caused mentioned errors.
With VSCode lunched directly from conda (e.g. from Anaconda Navigator) all works fine :)
Hello All.
I have an issue with the cmdstan installation on my mac m1 (python 3.11) after the “pip install” of cmdstanpy.
Run the below command in env
install_cmdstan
ls -F ~/.cmdstan
And getting below error:
Installing CmdStan version: 2.32.2
Install directory: /Users/reederey/.cmdstan
Downloading CmdStan version 2.32.2
Download successful, file: /var/folders/z5/89rvc9x90c740pxh34npyshw0000gn/T/tmp5m5ds1zl
Extracting distribution
Unpacked download as cmdstan-2.32.2
Building version cmdstan-2.32.2, may take several minutes, depending on your system.
Test model compilation
Traceback (most recent call last):
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 361, in compile_example
do_command(cmd, fd_out=None)
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/utils/command.py”, line 76, in do_command
raise RuntimeError(msg)
RuntimeError: Command [‘make’, ‘examples/bernoulli/bernoulli’]
error during processing No such file or directory
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File “/Users/reederey/miniforge3/envs/ts_ml/bin/install_cmdstan”, line 8, in
sys.exit(main())
^^^^^^^^^^
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 668, in main
run_install(InstallationSettings(**args))
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 602, in run_install
install_version(
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 424, in install_version
compile_example(verbose)
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 364, in compile_example
raise CmdStanInstallError(f’Command “make clean-all” failed\n{e}')
cmdstanpy.install_cmdstan.CmdStanInstallError: Command “make clean-all” failed
Command [‘make’, ‘examples/bernoulli/bernoulli’]
error during processing No such file or directory
The error message I’ve received indicates that the command make examples/bernoulli/bernoulli is failing because it can’t find the required files.
Any help on below? Thanks.
Same after using below
from cmdstanpy import rebuild_cmdstan
rebuild_cmdstan()
Error:
| name: CmdStanInstallError, | |
|---|---|
| message: Command \make clean-all\ failed\nCommand [‘make’, ‘examples/bernoulli/bernoulli’]\n\terror during processing No such file or directory, | |
| stack: \u001b[0;31m– |
Do you have make installed (can you run it by itself on the command line)?
Hello. Thanks a lot for your answer. Yes, I have “make”.
//GNU Make 3.81
This program was built for i386-apple-darwin11.3.0//
I have tried only use the following command in the terminal:
install_cmdstan
ls -F ~/.cmdstan
from cmdstanpy import rebuild_cmdstan
rebuild_cmdstan() ---- only used in Python IDE.
No successful install with the following reference:
Blockquote
RuntimeError: Command [‘make’, ‘examples/bernoulli/bernoulli’]
error during processing No such file or directory
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File “/Users/reederey/miniforge3/envs/ts_ml/bin/install_cmdstan”, line 8, in
sys.exit(main())
^^^^^^^^^^
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 668, in main
run_install(InstallationSettings(**args))
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 602, in run_install
install_version(
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 424, in install_version
compile_example(verbose)
File “/Users/reederey/miniforge3/envs/ts_ml/lib/python3.11/site-packages/cmdstanpy/install_cmdstan.py”, line 364, in compile_example
raise CmdStanInstallError(f’Command “make clean-all” failed\n{e}')
cmdstanpy.install_cmdstan.CmdStanInstallError: Command “make clean-all” failed
Command [‘make’, ‘examples/bernoulli/bernoulli’]
error during processing No such file or directory
Can you share the output of conda info and conda list?
Thanks for your answer and williness to help. Pls find below.
active environment : ts_ml
active env location : /Users/reederey/miniforge3/envs/ts_ml
shell level : 2
user config file : /Users/reederey/.condarc
populated config files : /Users/reederey/miniforge3/.condarc
conda version : 23.3.1
conda-build version : not installed
python version : 3.10.10.final.0
virtual packages : __archspec=1=arm64
__osx=13.5=0
__unix=0=0
base environment : /Users/reederey/miniforge3 (writable)
conda av data dir : /Users/reederey/miniforge3/etc/conda
conda av metadata url : None
channel URLs : https://conda.anaconda.org/conda-forge/osx-arm64
https://conda.anaconda.org/conda-forge/noarch
package cache : /Users/reederey/miniforge3/pkgs
/Users/reederey/.conda/pkgs
envs directories : /Users/reederey/miniforge3/envs
/Users/reederey/.conda/envs
platform : osx-arm64
user-agent : conda/23.3.1 requests/2.28.2 CPython/3.10.10 Darwin/22.6.0 OSX/13.5
UID:GID : 501:20
netrc file : /Users/reederey/.netrc
offline mode : False
# packages in environment at /Users/reederey/miniforge3/envs/ts_ml:
#
# Name Version Build Channel
annotated-types 0.5.0 pypi_0 pypi
anyio 3.7.1 pypi_0 pypi
appnope 0.1.3 pypi_0 pypi
argon2-cffi 23.1.0 pypi_0 pypi
argon2-cffi-bindings 21.2.0 pypi_0 pypi
arrow 1.2.3 pypi_0 pypi
asttokens 2.2.1 pypi_0 pypi
async-lru 2.0.4 pypi_0 pypi
attrs 23.1.0 pypi_0 pypi
babel 2.12.1 pypi_0 pypi
backcall 0.2.0 pypi_0 pypi
beautifulsoup4 4.12.2 pypi_0 pypi
bleach 6.0.0 pypi_0 pypi
blis 0.9.1 pypi_0 pypi
build 0.10.0 pypi_0 pypi
bzip2 1.0.8 h3422bc3_4 conda-forge
ca-certificates 2023.5.7 hf0a4a13_0 conda-forge
cachecontrol 0.13.1 pypi_0 pypi
catalogue 2.0.9 pypi_0 pypi
certifi 2023.7.22 pypi_0 pypi
cffi 1.15.1 pypi_0 pypi
charset-normalizer 3.2.0 pypi_0 pypi
cleo 2.0.1 pypi_0 pypi
click 8.1.6 pypi_0 pypi
cloudpickle 2.2.1 pypi_0 pypi
cmdstanpy 1.1.0 pypi_0 pypi
comm 0.1.4 pypi_0 pypi
confection 0.1.1 pypi_0 pypi
contourpy 1.1.0 pypi_0 pypi
convertdate 2.4.0 pypi_0 pypi
crashtest 0.4.1 pypi_0 pypi
cvxpy 1.3.2 pypi_0 pypi
cycler 0.11.0 pypi_0 pypi
cymem 2.0.7 pypi_0 pypi
cython 3.0.0 pypi_0 pypi
dask 2023.8.0 pypi_0 pypi
debugpy 1.6.7.post1 pypi_0 pypi
decorator 5.1.1 pypi_0 pypi
defusedxml 0.7.1 pypi_0 pypi
deprecated 1.2.14 pypi_0 pypi
dill 0.3.7 pypi_0 pypi
distlib 0.3.7 pypi_0 pypi
distributed 2023.8.0 pypi_0 pypi
dulwich 0.21.5 pypi_0 pypi
ecos 2.0.12 pypi_0 pypi
ephem 4.1.4 pypi_0 pypi
et-xmlfile 1.1.0 pypi_0 pypi
executing 1.2.0 pypi_0 pypi
fastai 2.7.12 pypi_0 pypi
fastcore 1.5.29 pypi_0 pypi
fastdownload 0.0.7 pypi_0 pypi
fastjsonschema 2.18.0 pypi_0 pypi
fastprogress 1.0.3 pypi_0 pypi
filelock 3.12.2 pypi_0 pypi
fonttools 4.42.0 pypi_0 pypi
fqdn 1.5.1 pypi_0 pypi
fsspec 2023.6.0 pypi_0 pypi
greykite 0.5.1 pypi_0 pypi
hijri-converter 2.3.1 pypi_0 pypi
holidays 0.30 pypi_0 pypi
holidays-ext 0.0.8 pypi_0 pypi
html5lib 1.1 pypi_0 pypi
idna 3.4 pypi_0 pypi
imbalanced-learn 0.11.0 pypi_0 pypi
importlib-metadata 6.8.0 pypi_0 pypi
iniconfig 2.0.0 pypi_0 pypi
installer 0.7.0 pypi_0 pypi
ipykernel 6.25.1 pypi_0 pypi
ipython 8.14.0 pypi_0 pypi
ipython-genutils 0.2.0 pypi_0 pypi
ipywidgets 8.1.0 pypi_0 pypi
isoduration 20.11.0 pypi_0 pypi
jaraco-classes 3.3.0 pypi_0 pypi
jedi 0.19.0 pypi_0 pypi
jinja2 3.1.2 pypi_0 pypi
joblib 1.3.2 pypi_0 pypi
json5 0.9.14 pypi_0 pypi
jsonpointer 2.4 pypi_0 pypi
jsonschema 4.19.0 pypi_0 pypi
jsonschema-specifications 2023.7.1 pypi_0 pypi
jupyter 1.0.0 pypi_0 pypi
jupyter-client 8.3.0 pypi_0 pypi
jupyter-console 6.6.3 pypi_0 pypi
jupyter-core 5.3.1 pypi_0 pypi
jupyter-events 0.7.0 pypi_0 pypi
jupyter-lsp 2.2.0 pypi_0 pypi
jupyter-server 2.7.1 pypi_0 pypi
jupyter-server-terminals 0.4.4 pypi_0 pypi
jupyterlab 4.0.5 pypi_0 pypi
jupyterlab-pygments 0.2.2 pypi_0 pypi
jupyterlab-server 2.24.0 pypi_0 pypi
jupyterlab-widgets 3.0.8 pypi_0 pypi
keyring 24.2.0 pypi_0 pypi
kiwisolver 1.4.4 pypi_0 pypi
korean-lunar-calendar 0.3.1 pypi_0 pypi
langcodes 3.3.0 pypi_0 pypi
libexpat 2.5.0 hb7217d7_1 conda-forge
libffi 3.4.2 h3422bc3_5 conda-forge
libsqlite 3.42.0 hb31c410_0 conda-forge
libzlib 1.2.13 h53f4e23_5 conda-forge
lightgbm 4.0.0 pypi_0 pypi
llvmlite 0.40.1 pypi_0 pypi
locket 1.0.0 pypi_0 pypi
lockfile 0.12.2 pypi_0 pypi
lunarcalendar-ext 0.0.1 pypi_0 pypi
markupsafe 2.1.3 pypi_0 pypi
matplotlib 3.7.2 pypi_0 pypi
matplotlib-inline 0.1.6 pypi_0 pypi
mistune 3.0.1 pypi_0 pypi
more-itertools 10.1.0 pypi_0 pypi
mpmath 1.3.0 pypi_0 pypi
msgpack 1.0.5 pypi_0 pypi
murmurhash 1.0.9 pypi_0 pypi
nbclassic 1.0.0 pypi_0 pypi
nbclient 0.8.0 pypi_0 pypi
nbconvert 7.7.4 pypi_0 pypi
nbformat 5.9.2 pypi_0 pypi
ncurses 6.4 h7ea286d_0 conda-forge
nest-asyncio 1.5.7 pypi_0 pypi
networkx 3.1 pypi_0 pypi
notebook 7.0.2 pypi_0 pypi
notebook-shim 0.2.3 pypi_0 pypi
numba 0.57.1 pypi_0 pypi
numpy 1.25.2 pypi_0 pypi
openpyxl 3.1.2 pypi_0 pypi
openssl 3.1.1 h53f4e23_1 conda-forge
osqp 0.6.3 pypi_0 pypi
overrides 7.4.0 pypi_0 pypi
packaging 23.1 pypi_0 pypi
pandas 2.0.3 pypi_0 pypi
pandocfilters 1.5.0 pypi_0 pypi
parso 0.8.3 pypi_0 pypi
partd 1.4.0 pypi_0 pypi
pathy 0.10.2 pypi_0 pypi
patsy 0.5.3 pypi_0 pypi
pexpect 4.8.0 pypi_0 pypi
pickleshare 0.7.5 pypi_0 pypi
pillow 10.0.0 pypi_0 pypi
pip 23.2.1 pypi_0 pypi
pip-review 1.3.0 pypi_0 pypi
pkginfo 1.9.6 pypi_0 pypi
platformdirs 3.10.0 pypi_0 pypi
plotly 5.16.1 pypi_0 pypi
pluggy 1.2.0 pypi_0 pypi
pmdarima 2.0.3 pypi_0 pypi
poetry 1.5.1 pypi_0 pypi
poetry-core 1.6.1 pypi_0 pypi
poetry-plugin-export 1.4.0 pypi_0 pypi
preshed 3.0.8 pypi_0 pypi
prometheus-client 0.17.1 pypi_0 pypi
prompt-toolkit 3.0.39 pypi_0 pypi
psutil 5.9.5 pypi_0 pypi
ptyprocess 0.7.0 pypi_0 pypi
pure-eval 0.2.2 pypi_0 pypi
pyarrow 12.0.1 pypi_0 pypi
pycparser 2.21 pypi_0 pypi
pydantic 2.2.0 pypi_0 pypi
pydantic-core 2.6.0 pypi_0 pypi
pygments 2.16.1 pypi_0 pypi
pymeeus 0.5.12 pypi_0 pypi
pyod 1.1.0 pypi_0 pypi
pyparsing 3.1.1 pypi_0 pypi
pyproject-hooks 1.0.0 pypi_0 pypi
pytest 7.4.0 pypi_0 pypi
pytest-runner 6.0.0 pypi_0 pypi
python 3.11.4 h47c9636_0_cpython conda-forge
python-dateutil 2.8.2 pypi_0 pypi
python-json-logger 2.0.7 pypi_0 pypi
pyts 0.13.0 pypi_0 pypi
pytz 2023.3 pypi_0 pypi
pyyaml 6.0.1 pypi_0 pypi
pyzmq 25.1.1 pypi_0 pypi
qdldl 0.1.7.post0 pypi_0 pypi
qtconsole 5.4.3 pypi_0 pypi
qtpy 2.3.1 pypi_0 pypi
rapidfuzz 3.2.0 pypi_0 pypi
readline 8.2 h92ec313_1 conda-forge
referencing 0.30.2 pypi_0 pypi
requests 2.31.0 pypi_0 pypi
requests-toolbelt 1.0.0 pypi_0 pypi
rfc3339-validator 0.1.4 pypi_0 pypi
rfc3986-validator 0.1.1 pypi_0 pypi
rpds-py 0.9.2 pypi_0 pypi
ruptures 1.1.8 pypi_0 pypi
scikit-base 0.5.1 pypi_0 pypi
scikit-learn 1.3.0 pypi_0 pypi
scipy 1.11.1 pypi_0 pypi
scs 3.2.3 pypi_0 pypi
seaborn 0.12.2 pypi_0 pypi
send2trash 1.8.2 pypi_0 pypi
setuptools 68.1.0 pypi_0 pypi
shellingham 1.5.3 pypi_0 pypi
six 1.16.0 pypi_0 pypi
sktime 0.21.0 pypi_0 pypi
smart-open 6.3.0 pypi_0 pypi
sniffio 1.3.0 pypi_0 pypi
sortedcontainers 2.4.0 pypi_0 pypi
soupsieve 2.4.1 pypi_0 pypi
spacy 3.6.1 pypi_0 pypi
spacy-legacy 3.0.12 pypi_0 pypi
spacy-loggers 1.0.4 pypi_0 pypi
srsly 2.4.7 pypi_0 pypi
stack-data 0.6.2 pypi_0 pypi
statsmodels 0.14.0 pypi_0 pypi
stumpy 1.11.1 pypi_0 pypi
sympy 1.12 pypi_0 pypi
tblib 2.0.0 pypi_0 pypi
tenacity 8.2.3 pypi_0 pypi
terminado 0.17.1 pypi_0 pypi
testfixtures 7.1.0 pypi_0 pypi
thinc 8.2.0 pypi_0 pypi
threadpoolctl 3.2.0 pypi_0 pypi
tinycss2 1.2.1 pypi_0 pypi
tk 8.6.12 he1e0b03_0 conda-forge
tomlkit 0.12.1 pypi_0 pypi
toolz 0.12.0 pypi_0 pypi
torch 2.0.1 pypi_0 pypi
torchvision 0.15.2 pypi_0 pypi
tornado 6.3.3 pypi_0 pypi
tqdm 4.66.1 pypi_0 pypi
traitlets 5.9.0 pypi_0 pypi
trove-classifiers 2023.8.7 pypi_0 pypi
tsai 0.3.7 pypi_0 pypi
tsfresh 0.20.1 pypi_0 pypi
tslearn 0.6.1 pypi_0 pypi
typer 0.9.0 pypi_0 pypi
typing-extensions 4.7.1 pypi_0 pypi
tzdata 2023.3 pypi_0 pypi
uri-template 1.3.0 pypi_0 pypi
urllib3 2.0.4 pypi_0 pypi
virtualenv 20.24.3 pypi_0 pypi
wasabi 1.1.2 pypi_0 pypi
wcwidth 0.2.6 pypi_0 pypi
webcolors 1.13 pypi_0 pypi
webencodings 0.5.1 pypi_0 pypi
websocket-client 1.6.1 pypi_0 pypi
wheel 0.41.1 pypi_0 pypi
widgetsnbextension 4.0.8 pypi_0 pypi
wrapt 1.15.0 pypi_0 pypi
xattr 0.10.1 pypi_0 pypi
xgboost 1.7.6 pypi_0 pypi
xz 5.2.6 h57fd34a_0 conda-forge
zict 3.0.0 pypi_0 pypi
zipp 3.16.2 pypi_0 pypi
It looks like you are not using cmdstanpy/cmdstan from conda-forge. Mixing conda environments and tools from brew/xcode seems to cause headaches on recent Macs