<meta http-equiv="Content-Type" content="text/html; charset=utf-8"><div dir="ltr">Can you try reinstalling yt from scratch?</div><div class="gmail_extra"><br><div class="gmail_quote">On Tue, Dec 22, 2015 at 12:32 PM, Sushilkumar <span dir="ltr"><<a href="mailto:sushil.sush19us@gmail.com" target="_blank">sushil.sush19us@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div><div><div><div><div>Hi yt:<br><br></div>I am currently running yt version 2.6.1 and want to update to version 3 (to read text files). Could you provide me link to so? <br><br>I tried it from yt update --all as per the link <br><br><a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__yt-2Dproject.org_doc_yt3differences.html-23updating-2Dto-2Dyt-2D3-2D0-2Dfrom-2Dold-2Dversions-2Dand-2Dgoing-2Dback&d=BQMFaQ&c=8hUWFZcy2Z-Za5rBPlktOQ&r=hgcBC3x6dKFoTrmFmMYYbKNfiHZlGLKliIidd1LwmHI&m=Bf4Spa804765yH3UKUB2VOOfaIwa9sVFqoOMvSU8jG4&s=O4NjDVPr_CNYktnSp1sO4Da2Bm_Uvcn5PgWtGr3m2HI&e=" target="_blank">http://yt-project.org/doc/yt3differences.html#updating-to-yt-3-0-from-old-versions-and-going-back</a>.<br><br></div>But it wont update to 3.0 and still shows as 2.6.1<br><br></div>Kindly help<br><br></div>Thanks in advance<br><br></div>sushilkumar<br><div><div><div><div><div><div><div class="gmail_extra"><br><div class="gmail_quote">On Mon, Dec 21, 2015 at 12:33 PM, <span dir="ltr"><<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank">yt-users-request@lists.spacepope.org</a>></span> wrote:<br><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>
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Today's Topics:<br>
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1. help: yt Halo finder for Nyx data (Dr. Surajit Paul)<br>
<br>
<br>
----------------------------------------------------------------------<br>
<br>
Message: 1<br>
Date: Mon, 21 Dec 2015 20:55:19 +0530<br>
From: "Dr. Surajit Paul" <<a href="mailto:surajit@physics.unipune.ac.in" target="_blank">surajit@physics.unipune.ac.in</a>><br>
To: <a href="mailto:yt-users@lists.spacepope.org" target="_blank">yt-users@lists.spacepope.org</a><br>
Subject: [yt-users] help: yt Halo finder for Nyx data<br>
Message-ID:<br>
<<a href="mailto:ef2adab2876566c33b22a1695592c3d6.squirrel@physics.unipune.ernet.in" target="_blank">ef2adab2876566c33b22a1695592c3d6.squirrel@physics.unipune.ernet.in</a>><br>
Content-Type: text/plain;charset=iso-8859-1<br>
<br>
Hi,<br>
I was just trying to compute the halos from a Nyx data. While running the halo finder it stops saying<br>
........<br>
yt.data_objects.field_info_container.NeedsDataField: (['particle_mass'])<br>
<br>
Below is the code, results and the list of fields available. In the list I have "particle_mass_density" instead of<br>
"particle_mass". Please suggest me how I can make it running.<br>
<br>
Thanks,<br>
surajit<br>
<br>
from yt.mods import *<br>
import fields<br>
<br>
# Load the dataset.<br>
pf = load("/gfs1/work/nipiagws/MUSIC/102-26468_512zoom2a_amr2_sgs2_si_600_05_flat/plt02593_z01")<br>
halos = HaloFinder(pf)<br>
<br>
halos.write_out("%s_halos.txt")<br>
<br>
<br>
<br>
Traceback (most recent call last):<br>
File "halos.py", line 14, in <module><br>
halos = HaloFinder(pf)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/analysis_modules/halo_finding/halo_objects.py", line 2484, in __init__<br>
self.comm.mpi_allreduce((self._data_source["ParticleMassMsun"][select]).sum(dtype='float64'), op='sum')<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 318, in __getitem__<br>
self.get_data(key)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 2619, in get_data<br>
if self._generate_field(field):<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 345, in _generate_field<br>
self._generate_field_in_grids(field, ngt_exception.ghost_zones)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 355, in _generate_field_in_grids<br>
grid[field] = self.__touch_grid_field(grid, field)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 81, in save_state<br>
tr = func(self, grid, field, *args, **kwargs)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 359, in __touch_grid_field<br>
return grid[field]<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/grid_patch.py", line 147, in __getitem__<br>
self.get_data(key)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/grid_patch.py", line 190, in get_data<br>
self._generate_field(field)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/grid_patch.py", line 122, in _generate_field<br>
self.pf.field_info[field].check_available(self)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/field_info_container.py", line 356, in check_available<br>
validator(data)<br>
File "/home/h/nipiagws/yt-x86_64/src/yt-hg/yt/data_objects/field_info_container.py", line 450, in __call__<br>
raise NeedsDataField(doesnt_have)<br>
yt.data_objects.field_info_container.NeedsDataField: (['particle_mass'])<br>
<br>
<br>
filed_list<br>
<br>
AveMomX<br>
AveMomY<br>
AveMomZ<br>
ErrCovarX<br>
ErrCovarY<br>
ErrCovarZ<br>
Ne<br>
Temp<br>
density<br>
diss_sgs<br>
divu<br>
grav_x<br>
grav_y<br>
grav_z<br>
magvort<br>
particle_mass_density<br>
phi_grav<br>
prod_sgs<br>
rho_E<br>
rho_H<br>
rho_He<br>
rho_K<br>
rho_e<br>
support_sgs<br>
support_therm<br>
support_turb<br>
turb_src<br>
xmom<br>
ymom<br>
zmom<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
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</font></span></blockquote></div><span class="HOEnZb"><font color="#888888"><br><br clear="all"><br>-- <br><div><span style="border-collapse:collapse"><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px"><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse"><b><i>SK<sup>2</sup></i></b></span></div><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px"><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse"><b><i><sup><br></sup></i></b></span></div><div><span style="color:rgb(80,0,80);font-family:arial,sans-serif;border-collapse:collapse"><b><sup>"</sup></b></span><font color="#500050" face="arial, sans-serif"><b>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"><sup>"</sup></b></div><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px"><br></div></span></div>
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