<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hi Sushil,<div class=""><br class=""></div><div class="">I think what you need to do is to assign the correct field name when loading the data. In your script, you have:</div><div class=""><br class=""></div><div class=""><div class="">data = dict(field1 = field1,</div><div class=""> field2 = field2,</div><div class=""> field3 = field3)</div></div><div class=""><br class=""></div><div class="">which could be, say,</div><div class=""><br class=""></div><div class=""><div class="">data = dict(magnetic_field_x = field1,</div><div class=""> magnetic_field_y = field2,</div><div class=""> magnetic_field_z = field3)</div></div><div class=""><br class=""></div><div class="">since annotate_magnetic_field will directly refer to these field names (in fact it's a specialized version of annotate_quiver).</div><div class=""><br class=""><div class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class="">Best wishes,</div><div class="">--</div><div class="">Suoqing JI</div><div class="">Ph.D Candidate</div><div class="">Department of Physics</div><div class="">University of California, Santa Barbara</div><div class=""><a href="http://web.physics.ucsb.edu/~suoqing" class="">http://web.physics.ucsb.edu/~suoqing</a></div></div></div></div></div></div></div></div>
</div>
<br class=""><div><blockquote type="cite" class=""><div class="">On Mar 16, 2016, at 12:16 PM, Sushilkumar <<a href="mailto:sushil.sush19us@gmail.com" class="">sushil.sush19us@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class=""><div class=""><div class=""><div class=""><div class="">Dear yt:<br class=""><br class=""></div>I am trying to plot magnetic
field lines using the annotate magnetic field call back from the link
<a href="http://yt-project.org/doc/visualizing/callbacks.html" class="">http://yt-project.org/doc/visualizing/callbacks.html</a> link.<br class=""><br class=""></div>However,
after running the script it gives the error below. A google drive link
to my script (yt_numpy_load_B.py) is also given below. When I use quiver
annotate it works fine but issue comes when I am using
slc.annotate_magnetic_field(). <br class="">Quiver plots are also available on the drive link.<br class=""><br class=""></div>Thanks in advance<br class=""><br class="">===============<br class=""></div>Google drive link<br class=""><a href="https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc" class="">https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc</a><br class=""><div class="">===============<br class=""><br class="">===============<br class=""></div><div class="">Error while running the script<br class=""><br class=""> File "yt_numpy_load_B.py", line 47, in <module><br class=""> slc.save()<br class=""> File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_container.py", line 77, in newfunc<br class=""> args[0]._setup_plots()<br class=""> File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_window.py", line 980, in _setup_plots<br class=""> self.run_callbacks()<br class=""> File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_window.py", line 1033, in run_callbacks<br class=""> sys.exc_info()[2])<br class=""> File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_window.py", line 1029, in run_callbacks<br class=""> callback(cbw)<br class=""> File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_modifications.py", line 316, in __call__<br class=""> return qcb(plot)<br class=""> File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_modifications.py", line 357, in __call__<br class=""> fv_x = plot.data[self.field_x]<br class=""> File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/data_objects/data_containers.py", line 246, in __getitem__<br class=""> f = self._determine_fields([key])[0]<br class="">
File
"/state/partition1/anaconda/lib/python2.7/site-packages/yt/data_objects/data_containers.py",
line 518, in _determine_fields<br class=""> finfo = self.ds._get_field_info("unknown", fname)<br class=""> File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/data_objects/static_output.py", line 543, in _get_field_info<br class=""> raise YTFieldNotFound((ftype, fname), self)<br class="">yt.utilities.exceptions.YTPlotCallbackError:
annotate_magnetic_field callback failed with the following error: Could
not find field '('all', 'magnetic_field_x')' in UniformGridData.<br class=""></div>===============<br class=""><br class=""><br class=""><br class=""><div class="gmail_extra"><br class=""><div class="gmail_quote">On Wed, Mar 16, 2016 at 12:52 PM, <span dir="ltr" class=""><<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a>></span> wrote:<br class=""><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">Send yt-users mailing list submissions to<br class="">
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1. Re: Making averaged line plot. (Suoqing Ji)<br class="">
<br class="">
<br class="">
----------------------------------------------------------------------<br class="">
<br class="">
Message: 1<br class="">
Date: Tue, 15 Mar 2016 15:23:43 -0700<br class="">
From: Suoqing Ji <<a href="mailto:suoqing@physics.ucsb.edu" class="">suoqing@physics.ucsb.edu</a>><br class="">
To: Discussion of the yt analysis package<br class="">
<<a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a>><br class="">
Subject: Re: [yt-users] Making averaged line plot.<br class="">
Message-ID: <<a href="mailto:70E5BA6C-7798-45F2-AE83-21233252E109@physics.ucsb.edu" class="">70E5BA6C-7798-45F2-AE83-21233252E109@physics.ucsb.edu</a>><br class="">
Content-Type: text/plain; charset="utf-8"<br class="">
<br class="">
Hi Yuxiao,<br class="">
<br class="">
If you would like to start from your current code, the most straightforward way is to write a loop to smooth over a certain distance by each step, which also works for AMR data:<br class="">
<br class="">
smooth_len = 100 # smoothing length of 100 kpc<br class="">
SmoothedBMag = np.copy(ray[?ScaledBMag?]) # store the smoothed array<br class="">
bin_num = np.ceiling((ray[?x?].max() - ray[?x?].min()) / smooth_len) # make bins every 100 kpc<br class="">
<br class="">
for step in range(bin_num):<br class="">
mask1 = (ray[?x?] >= ray[?x?].min() + step * smooth_len)<br class="">
mask2 = (ray[?x?] < ray[?x?].min() + (step + 1) * smooth_len)<br class="">
mask = np.logical_and(mask1, mask2) # mask the cells within a certain length of 100 kpc<br class="">
SmoothedBMag[mask] = np.mean(ray[?ScaledBMag?][mask]) # take the average and save<br class="">
<br class="">
After that the array ?SmoothedBMag? is the smoothed one.<br class="">
<br class="">
However, an easier way is to use the the 1D ProfilePlot function (<a href="http://yt-project.org/docs/2.6/visualizing/plots.html#d-profile-plots" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/2.6/visualizing/plots.html#d-profile-plots</a> <<a href="http://yt-project.org/docs/2.6/visualizing/plots.html#d-profile-plots" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/2.6/visualizing/plots.html#d-profile-plots</a>>), and in this case you could do something like:<br class="">
<br class="">
plot = ProfilePlot(pf.h.all_data(), ?x?, [?ScaledBMag?], n_bins=bin_num)<br class="">
<br class="">
Note that this will do the average over entire y-z plane for each x bins, which is different from averaging only an array of a ray object (so maybe it?s not what you want). If you really want the data within a thin slit only, you could define a region object pf.h.region() and do ProfilePlot. I think it?s also doable to use the function ?load_uniform_grid? to create a 1D dataset from the arrays in ray object and pass it to ProfilePlot.<br class="">
<br class="">
Best wishes,<br class="">
--<br class="">
Suoqing JI<br class="">
Ph.D Candidate<br class="">
Department of Physics<br class="">
University of California, Santa Barbara<br class="">
<a href="http://web.physics.ucsb.edu/~suoqing" rel="noreferrer" target="_blank" class="">http://web.physics.ucsb.edu/~suoqing</a><br class="">
<br class="">
> On Mar 14, 2016, at 10:57 PM, Yuxiao Dai <<a href="mailto:yuxiao.dai@nyu.edu" class="">yuxiao.dai@nyu.edu</a>> wrote:<br class="">
><br class="">
> Dear all,<br class="">
><br class="">
> I have a line plot of some parameter along an axis as a function of distance. Now I would like to get another line plot of the same parameter but averaged over a certain distance (say 100 kpc, the plot below is supposed to be flat after this). I've been searching the document for some time but haven't found a method. Is there a simple way to do this?<br class="">
><br class="">
> I would very much appreciate it if anyone could help me on this.<br class="">
><br class="">
><br class="">
> ===================================<br class="">
> import ...<br class="">
><br class="">
> def _ScaledBMag(field, data):<br class="">
><br class="">
> return ...<br class="">
><br class="">
><br class="">
><br class="">
> ....<br class="">
><br class="">
> pf = load(filename)<br class="">
><br class="">
> add_field("ScaledBMag", function=_ScaledBMag)<br class="">
><br class="">
><br class="">
><br class="">
> c = pf.h.find_max('ScaledBMag')[1]<br class="">
><br class="">
> ax = 0<br class="">
><br class="">
> ray = pf.h.ortho_ray(ax, (c[1], c[2]))<br class="">
><br class="">
><br class="">
> P.subplot(211)<br class="">
><br class="">
> P.semilogy(ray['x'], ray['ScaledBMag'])<br class="">
><br class="">
> P.xlabel('x')<br class="">
><br class="">
> P.ylabel('ScaledBMag')<br class="">
><br class="">
> print "works"<br class="">
><br class="">
> P.savefig("ScaledBMag_lineplot.png")<br class="">
><br class="">
><br class="">
> <image.png><br class="">
><br class="">
> ===================================<br class="">
> I'm using yt<br class="">
><br class="">
> Version = 2.6.1<br class="">
><br class="">
><br class="">
> Changeset = c994959ed3be<br class="">
><br class="">
> ===================================<br class="">
><br class="">
><br class="">
><br class="">
><br class="">
><br class="">
> Regards,<br class="">
><br class="">
> Dai<br class="">
><br class="">
> _______________________________________________<br class="">
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</blockquote></div><br class=""><br clear="all" class=""><br class="">-- <br class=""><div class="gmail_signature"><span style="border-collapse:collapse" class=""><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse" class=""><b class=""><i class="">SK<sup class="">2</sup></i></b></span></div><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse" class=""><b class=""><i class=""><sup class=""><br class=""></sup></i></b></span></div><div class=""><span style="color:rgb(80,0,80);font-family:arial,sans-serif;border-collapse:collapse" class=""><b class=""><sup class="">"</sup></b></span><font face="arial, sans-serif" color="#500050" class=""><b class="">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.</b></font><b style="color:rgb(80,0,80);font-family:arial,sans-serif" class=""><sup class="">"</sup></b></div><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><br class=""></div></span></div>
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