[yt-users] yt-users Digest, Vol 102, Issue 25
Sushilkumar
sushil.sush19us at gmail.com
Thu Aug 18 12:03:41 PDT 2016
Dear Nathan:
I am still getting the same error and the changes.
https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc
/state/partition1/anaconda/lib/python2.7/site-packages/numpy/lib/nanfunctions.py:338:
RuntimeWarning: All-NaN axis encountered
warnings.warn("All-NaN axis encountered", RuntimeWarning)
/state/partition1/anaconda/lib/python2.7/site-packages/numpy/lib/nanfunctions.py:239:
RuntimeWarning: All-NaN axis encountered
warnings.warn("All-NaN axis encountered", RuntimeWarning)
yt : [WARNING ] 2016-08-18 13:45:25,092 Plot image for field ('gas',
'cutting_plane_velocity_x') is filled with NaNs.
yt : [WARNING ] 2016-08-18 13:45:25,092 Switching to linear colorbar
scaling.
Traceback (most recent call last):
File "yt_frb_streamplot.py", line 66, in <module>
plt.streamplot(X, Y, np.array(U), np.array(V), density=2,color='blue')
File
"/state/partition1/anaconda/lib/python2.7/site-packages/matplotlib/pyplot.py",
line 3339, in streamplot
zorder=zorder)
File
"/state/partition1/anaconda/lib/python2.7/site-packages/matplotlib/axes/_axes.py",
line 4204, in streamplot
zorder=zorder)
File
"/state/partition1/anaconda/lib/python2.7/site-packages/matplotlib/streamplot.py",
line 74, in streamplot
grid = Grid(x, y)
File
"/state/partition1/anaconda/lib/python2.7/site-packages/matplotlib/streamplot.py",
line 261, in __init__
assert np.allclose(x_row, x)
File
"/state/partition1/anaconda/lib/python2.7/site-packages/numpy/core/numeric.py",
line 2372, in allclose
res = all(isclose(a, b, rtol=rtol, atol=atol, equal_nan=equal_nan))
File
"/state/partition1/anaconda/lib/python2.7/site-packages/numpy/core/numeric.py",
line 2453, in isclose
return within_tol(x, y, atol, rtol)
File
"/state/partition1/anaconda/lib/python2.7/site-packages/numpy/core/numeric.py",
line 2436, in within_tol
result = less_equal(abs(x-y), atol + rtol * abs(y))
File
"/state/partition1/anaconda/lib/python2.7/site-packages/yt/units/yt_array.py",
line 732, in __radd__
lo = sanitize_units_add(self, left_object, "addition")
File
"/state/partition1/anaconda/lib/python2.7/site-packages/yt/units/yt_array.py",
line 134, in sanitize_units_add
raise YTUnitOperationError(op_string, inp.units, dimensionless)
yt.utilities.exceptions.YTUnitOperationError: The addition operator for
YTArrays with units (km) and (1) is not well defined.
On Thu, Aug 18, 2016 at 1:11 PM, <yt-users-request at lists.spacepope.org>
wrote:
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> Today's Topics:
>
> 1. Streamplot error (Sushilkumar)
> 2. Re: Streamplot error (Nathan Goldbaum)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Thu, 18 Aug 2016 13:03:05 -0500
> From: Sushilkumar <sushil.sush19us at gmail.com>
> To: Discussion of the yt analysis package
> <yt-users at lists.spacepope.org>
> Subject: [yt-users] Streamplot error
> Message-ID:
> <CAKARaKVO083ut=_zq1rWgbbuJu5qX0GG=2WORSuX99a5FxzY+Q at mail.
> gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Dear yt:
>
> I am getting the error as below while plotting streamplots. Could you let
> me know what is causing this problem? drive link to my code
> (yt_frb_streamplot.py) is also below.
>
> https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc
>
> Traceback (most recent call last):
> File "yt_frb_streamplot.py", line 67, in <module>
> plt.streamplot(X, Y, U, V, density=2,color='blue') # Here density
> adjusts the density of streamlines
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/matp
> lotlib/pyplot.py",
> line 3339, in streamplot
> zorder=zorder)
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/matp
> lotlib/axes/_axes.py",
> line 4204, in streamplot
> zorder=zorder)
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/matp
> lotlib/streamplot.py",
> line 74, in streamplot
> grid = Grid(x, y)
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/matp
> lotlib/streamplot.py",
> line 261, in __init__
> assert np.allclose(x_row, x)
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/nump
> y/core/numeric.py",
> line 2372, in allclose
> res = all(isclose(a, b, rtol=rtol, atol=atol, equal_nan=equal_nan))
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/nump
> y/core/numeric.py",
> line 2453, in isclose
> return within_tol(x, y, atol, rtol)
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/nump
> y/core/numeric.py",
> line 2436, in within_tol
> result = less_equal(abs(x-y), atol + rtol * abs(y))
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/yt/
> units/yt_array.py",
> line 732, in __radd__
> lo = sanitize_units_add(self, left_object, "addition")
> File
> "/state/partition1/anaconda/lib/python2.7/site-packages/yt/
> units/yt_array.py",
> line 134, in sanitize_units_add
> raise YTUnitOperationError(op_string, inp.units, dimensionless)
> yt.utilities.exceptions.YTUnitOperationError: The addition operator for
> YTArrays with units (km) and (1) is not well defined.
>
>
>
>
>
>
> On Tue, Aug 16, 2016 at 1:00 PM, <yt-users-request at lists.spacepope.org>
> wrote:
>
> > Send yt-users mailing list submissions to
> > yt-users at lists.spacepope.org
> >
> > To subscribe or unsubscribe via the World Wide Web, visit
> > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> > or, via email, send a message with subject or body 'help' to
> > yt-users-request at lists.spacepope.org
> >
> > You can reach the person managing the list at
> > yt-users-owner at lists.spacepope.org
> >
> > When replying, please edit your Subject line so it is more specific
> > than "Re: Contents of yt-users digest..."
> >
> >
> > Today's Topics:
> >
> > 1. Re: conda install (John Regan)
> >
> >
> > ----------------------------------------------------------------------
> >
> > Message: 1
> > Date: Tue, 16 Aug 2016 15:34:48 +0100
> > From: John Regan <johnanthonyregan at gmail.com>
> > To: Discussion of the yt analysis package
> > <yt-users at lists.spacepope.org>
> > Subject: Re: [yt-users] conda install
> > Message-ID:
> > <CABzd+TFisnpj44UZ3NUQ4HnEHNAuS_iQR+LzM2YRU_a9DntX=Q at mail.gmail.
> > com>
> > Content-Type: text/plain; charset="utf-8"
> >
> > perfect - thanks Nathan!
> >
> > On Mon, Aug 15, 2016 at 5:20 PM, Nathan Goldbaum <nathan12343 at gmail.com>
> > wrote:
> >
> > >
> > >
> > > On Mon, Aug 15, 2016 at 11:18 AM, John Regan <
> johnanthonyregan at gmail.com
> > >
> > > wrote:
> > >
> > >> Hi All,
> > >>
> > >> Quick question on the conda install system.
> > >>
> > >> I'm sure this is very easy but when I update the source folder e.g.
> > >> ~/ytfork/yt/analysis_modules/.....
> > >> how do I then get that reflected in the yt-conda installation e.g. in
> > >> ~/ytfork/doc/yt-conda/lib/.../analysis_modules?
> > >>
> > >> I could copy the "source" files directly into the "lib" directory but
> > I'm
> > >> guessing there is a better way?
> > >>
> > >
> > > $ conda uninstall yt
> > > $ pip uninstall yt
> > > $ cd ~/ytfork/
> > > $ python setup.py develop
> > >
> > > And now ~/ytfork/ will be the "active" installation.
> > >
> > >
> > >>
> > >>
> > >> John
> > >>
> > >>
> > >>
> > >>
> > >> _______________________________________________
> > >> yt-users mailing list
> > >> yt-users at lists.spacepope.org
> > >> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> > >>
> > >>
> > >
> > > _______________________________________________
> > > yt-users mailing list
> > > yt-users at lists.spacepope.org
> > > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> > >
> > >
> > -------------- next part --------------
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> >
> > ------------------------------
> >
> > Subject: Digest Footer
> >
> > _______________________________________________
> > yt-users mailing list
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> >
> >
> > ------------------------------
> >
> > End of yt-users Digest, Vol 102, Issue 22
> > *****************************************
> >
>
>
>
> --
> *SK2*
>
> *"**Claiming that something can move faster than light is a good
> conversation-stopper in physics. People edge away from you in cocktail
> parties; friends never return phone calls. You just don?t mess with Albert
> Einstein.**"*
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> ------------------------------
>
> Message: 2
> Date: Thu, 18 Aug 2016 13:10:08 -0500
> From: Nathan Goldbaum <nathan12343 at gmail.com>
> To: Discussion of the yt analysis package
> <yt-users at lists.spacepope.org>
> Subject: Re: [yt-users] Streamplot error
> Message-ID:
> <CAJXewOmv8aTEMK_Ww0_g6d1AOVfoo4O0fBoqtwsmJudwcSu4pw at mail.
> gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> In your script, where you have:
>
> plt.streamplot(X, Y, U, V, density=2,color='blue')
>
> replace that with:
>
> plt.streamplot(X, Y, np.array(U), np.array(V), density=2,color='blue')
>
> U and V have units attached, but streamplot doesn't know about yt's unit
> system, so you need to make sure they're plain old ndarrays (with no units)
> before passing them to matplotlib.
>
> On Thu, Aug 18, 2016 at 1:03 PM, Sushilkumar <sushil.sush19us at gmail.com>
> wrote:
>
> > Dear yt:
> >
> > I am getting the error as below while plotting streamplots. Could you let
> > me know what is causing this problem? drive link to my code
> > (yt_frb_streamplot.py) is also below.
> >
> > https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc
> >
> > Traceback (most recent call last):
> > File "yt_frb_streamplot.py", line 67, in <module>
> > plt.streamplot(X, Y, U, V, density=2,color='blue') # Here density
> > adjusts the density of streamlines
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/matp
> lotlib/pyplot.py",
> > line 3339, in streamplot
> > zorder=zorder)
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/matp
> lotlib/axes/_axes.py",
> > line 4204, in streamplot
> > zorder=zorder)
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/matp
> lotlib/streamplot.py",
> > line 74, in streamplot
> > grid = Grid(x, y)
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/matp
> lotlib/streamplot.py",
> > line 261, in __init__
> > assert np.allclose(x_row, x)
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/nump
> y/core/numeric.py",
> > line 2372, in allclose
> > res = all(isclose(a, b, rtol=rtol, atol=atol, equal_nan=equal_nan))
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/nump
> y/core/numeric.py",
> > line 2453, in isclose
> > return within_tol(x, y, atol, rtol)
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/nump
> y/core/numeric.py",
> > line 2436, in within_tol
> > result = less_equal(abs(x-y), atol + rtol * abs(y))
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/
> units/yt_array.py",
> > line 732, in __radd__
> > lo = sanitize_units_add(self, left_object, "addition")
> > File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/
> units/yt_array.py",
> > line 134, in sanitize_units_add
> > raise YTUnitOperationError(op_string, inp.units, dimensionless)
> > yt.utilities.exceptions.YTUnitOperationError: The addition operator for
> > YTArrays with units (km) and (1) is not well defined.
> >
> >
> >
> >
> >
> >
> > On Tue, Aug 16, 2016 at 1:00 PM, <yt-users-request at lists.spacepope.org>
> > wrote:
> >
> >> Send yt-users mailing list submissions to
> >> yt-users at lists.spacepope.org
> >>
> >> To subscribe or unsubscribe via the World Wide Web, visit
> >> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> >> or, via email, send a message with subject or body 'help' to
> >> yt-users-request at lists.spacepope.org
> >>
> >> You can reach the person managing the list at
> >> yt-users-owner at lists.spacepope.org
> >>
> >> When replying, please edit your Subject line so it is more specific
> >> than "Re: Contents of yt-users digest..."
> >>
> >>
> >> Today's Topics:
> >>
> >> 1. Re: conda install (John Regan)
> >>
> >>
> >> ----------------------------------------------------------------------
> >>
> >> Message: 1
> >> Date: Tue, 16 Aug 2016 15:34:48 +0100
> >> From: John Regan <johnanthonyregan at gmail.com>
> >> To: Discussion of the yt analysis package
> >> <yt-users at lists.spacepope.org>
> >> Subject: Re: [yt-users] conda install
> >> Message-ID:
> >> <CABzd+TFisnpj44UZ3NUQ4HnEHNAuS_iQR+LzM2YRU_a9DntX=Q at mail.
> >> gmail.com>
> >> Content-Type: text/plain; charset="utf-8"
> >>
> >> perfect - thanks Nathan!
> >>
> >> On Mon, Aug 15, 2016 at 5:20 PM, Nathan Goldbaum <nathan12343 at gmail.com
> >
> >> wrote:
> >>
> >> >
> >> >
> >> > On Mon, Aug 15, 2016 at 11:18 AM, John Regan <
> >> johnanthonyregan at gmail.com>
> >> > wrote:
> >> >
> >> >> Hi All,
> >> >>
> >> >> Quick question on the conda install system.
> >> >>
> >> >> I'm sure this is very easy but when I update the source folder e.g.
> >> >> ~/ytfork/yt/analysis_modules/.....
> >> >> how do I then get that reflected in the yt-conda installation e.g. in
> >> >> ~/ytfork/doc/yt-conda/lib/.../analysis_modules?
> >> >>
> >> >> I could copy the "source" files directly into the "lib" directory but
> >> I'm
> >> >> guessing there is a better way?
> >> >>
> >> >
> >> > $ conda uninstall yt
> >> > $ pip uninstall yt
> >> > $ cd ~/ytfork/
> >> > $ python setup.py develop
> >> >
> >> > And now ~/ytfork/ will be the "active" installation.
> >> >
> >> >
> >> >>
> >> >>
> >> >> John
> >> >>
> >> >>
> >> >>
> >> >>
> >> >> _______________________________________________
> >> >> yt-users mailing list
> >> >> yt-users at lists.spacepope.org
> >> >> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> >> >>
> >> >>
> >> >
> >> > _______________________________________________
> >> > yt-users mailing list
> >> > yt-users at lists.spacepope.org
> >> > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> >> >
> >> >
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> >>
> >> ------------------------------
> >>
> >> Subject: Digest Footer
> >>
> >> _______________________________________________
> >> yt-users mailing list
> >> yt-users at lists.spacepope.org
> >> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> >>
> >>
> >> ------------------------------
> >>
> >> End of yt-users Digest, Vol 102, Issue 22
> >> *****************************************
> >>
> >
> >
> >
> > --
> > *SK2*
> >
> > *"**Claiming that something can move faster than light is a good
> > conversation-stopper in physics. People edge away from you in cocktail
> > parties; friends never return phone calls. You just don?t mess with
> Albert
> > Einstein.**"*
> >
> >
> > _______________________________________________
> > yt-users mailing list
> > yt-users at lists.spacepope.org
> > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> >
> >
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> Subject: Digest Footer
>
> _______________________________________________
> yt-users mailing list
> yt-users at lists.spacepope.org
> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>
>
> ------------------------------
>
> End of yt-users Digest, Vol 102, Issue 25
> *****************************************
>
--
*SK2*
*"**Claiming that something can move faster than light is a good
conversation-stopper in physics. People edge away from you in cocktail
parties; friends never return phone calls. You just don’t mess with Albert
Einstein.**"*
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