New to Pyrolite and having trouble to make pyroplot .scatter work as per tutorials[FEATURE]

[mbastosf64]

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[mbastosf64]

error below
2024-01-31 16:02:27,503 [7796] WARNING py.warnings:109: [JupyterRequire] :228: RuntimeWarning: scipy._lib.messagestream.MessageStream size changed, may indicate binary incompatibility. Expected 56 from C header, got 64 from PyObject

---

AttributeError Traceback (most recent call last)
~\AppData\Local\Temp/ipykernel_7796/3051707880.py in
5 import pandas as pd
6 import mpltern as mpl
----> 7 from pyrolite.util.synthetic import normal_frame

~\Anaconda3\lib\site-packages\pyrolite\util\synthetic.py in
6
7 from ..comp.codata import ILR, inverse_ILR
----> 8 from ..geochem.ind import REE, get_ionic_radii
9 from ..geochem.norm import get_reference_composition
10 from ..util.lambdas.eval import get_function_components

~\Anaconda3\lib\site-packages\pyrolite\geochem_init_.py in
8 from ..util.log import Handle
9 from ..util.meta import update_docstring_references
---> 10 from . import norm, parse, transform
11 from .ind import REE, REY, _common_elements, _common_oxides
12 from .ions import set_default_ionic_charges

~\Anaconda3\lib\site-packages\pyrolite\geochem\transform.py in
7
8 from ..comp.codata import close, renormalise
----> 9 from ..util import lambdas
10 from ..util.log import Handle
11 from ..util.meta import update_docstring_references

~\Anaconda3\lib\site-packages\pyrolite\util\lambdas_init_.py in
9 from .opt import lambdas_optimize
10 from .params import _get_params, orthogonal_polynomial_constants
---> 11 from .plot import plot_lambdas_components, plot_profiles
12 from .transform import REE_z_to_radii
13

~\Anaconda3\lib\site-packages\pyrolite\util\lambdas\plot.py in
6 import numpy as np
7
----> 8 from ... import plot
9 from ...geochem.ind import REE, get_ionic_radii
10 from ..log import Handle

~\Anaconda3\lib\site-packages\pyrolite\plot_init_.py in
21 from ..util.plot.helpers import plot_cooccurence
22 from ..util.plot.style import _export_nonRCstyles, linekwargs, scatterkwargs
---> 23 from . import density, parallel, spider, stem
24 from .color import process_color
25

~\Anaconda3\lib\site-packages\pyrolite\plot\density_init_.py in
12 from ...util.meta import get_additional_params, subkwargs
13 from ...util.plot.axes import add_colorbar, init_axes
---> 14 from ...util.plot.density import (
15 get_axis_density_methods,
16 percentile_contour_values_from_meshz,

~\Anaconda3\lib\site-packages\pyrolite\util\plot\density.py in
22
23 try:
---> 24 import statsmodels.api as sm
25
26 HAVE_SM = True

~\Anaconda3\lib\site-packages\statsmodels\api.py in
7 from . import tools
8 from .tools.tools import add_constant, categorical
----> 9 from . import regression
10 from .regression.linear_model import OLS, GLS, WLS, GLSAR
11 from .regression.recursive_ls import RecursiveLS

~\Anaconda3\lib\site-packages\statsmodels\regression_init_.py in
----> 1 from .linear_model import yule_walker
2
3 from statsmodels.tools._testing import PytestTester
4
5 all = ['yule_walker', 'test']

~\Anaconda3\lib\site-packages\statsmodels\regression\linear_model.py in
44 from statsmodels.tools.decorators import (cache_readonly,
45 cache_writable)
---> 46 import statsmodels.base.model as base
47 import statsmodels.base.wrapper as wrap
48 from statsmodels.emplike.elregress import _ELRegOpts

~\Anaconda3\lib\site-packages\statsmodels\base\model.py in
14 cached_value, cached_data)
15 import statsmodels.base.wrapper as wrap
---> 16 from statsmodels.tools.numdiff import approx_fprime
17 from statsmodels.tools.sm_exceptions import ValueWarning,
18 HessianInversionWarning

~\Anaconda3\lib\site-packages\statsmodels\tools\numdiff.py in
49
50 # NOTE: we only do double precision internally so far
---> 51 EPS = np.MachAr().eps
52
53 _hessian_docs = """

~\Anaconda3\lib\site-packages\numpy_init_.py in getattr(attr)
360 raise RuntimeError("Tester was removed in NumPy 1.25.")
361
--> 362 raise AttributeError("module {!r} has no attribute "
363 "{!r}".format(name, attr))
364

AttributeError: module 'numpy' has no attribute 'MachAr'

[mbastosf64]

uisng the latest numpy version, tried to downgrade but still getting this error and the one below , any suggestions.

---

AttributeError Traceback (most recent call last)
~\AppData\Local\Temp/ipykernel_20640/260713670.py in
----> 1 df[['MgO','Al2O3','CaO']].pyroplot.scatter(color='k', alpha=0.5)

~\Anaconda3\lib\site-packages\pandas\core\generic.py in getattr(self, name)
5573 ):
5574 return self[name]
-> 5575 return object.getattribute(self, name)
5576
5577 def setattr(self, name: str, value) -> None:

AttributeError: 'DataFrame' object has no attribute 'pyroplot

[morganjwilliams]

Hey @mbastosf64! Apologies I didn't manage to get back to you last week, the first one I'm unsure about (it does seem to be a statsmodels-numpy version conflict or similar..), but the second one will hopefully be resolved with an added import:

import pyrolite.plot

[mbastosf64]

thank you for the reply my numpy is 1.26.3 which version shall i downgrade to make it work - pyrolite?

…

On Sun, Feb 4, 2024 at 3:31 PM Morgan Williams ***@***.***> wrote: Hey @mbastosf64 <https://github.com/mbastosf64>! Apologies I didn't manage to get back to you last week, the first one I'm unsure about (it does seem to be a statsmodels-numpy version conflict or similar..), but the second one will hopefully be resolved with an added import: import pyrolite.plot — Reply to this email directly, view it on GitHub <#101 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BFYKMAAZ2TS4GHOMUPWOU5DYSAK3JAVCNFSM6AAAAABCT6IBEKVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSMRVHE3TKNJWGE> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[morganjwilliams]

@mbastosf64 it should work with 1.24, if you're still having issues. But it looks like the error relates to a numpy deprecation (since about numpy v1.22), which I think should have been fixed in statsmodels>=0.15.