Send yt-users mailing list submissions to
yt-users@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@lists.spacepope.org
You can reach the person managing the list at
yt-users-owner@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: yt-users Digest, Vol 78, Issue 38 (Professor Maller)
2. Re: yt-users Digest, Vol 78, Issue 38 (Matthew Turk)
3. " cannot import name YTDomainOverflow" after hg update to an
earlier version (Hao Wang)
----------------------------------------------------------------------
Message: 1
Date: Thu, 14 Aug 2014 14:56:22 -0400
From: Professor Maller <amaller@citytech.cuny.edu>
To: yt-users@lists.spacepope.org
Subject: Re: [yt-users] yt-users Digest, Vol 78, Issue 38
Message-ID:
<CACCSjdMFbhvsBhpH3ybzvW=dEGSkMRYBetsJG-deSEjyiqztHg@mail.gmail.com>
Content-Type: text/plain; charset="utf-8"
Hi Matt,
Those fields are not in my derived field list. That is
ds.derived_field_list. Do I have to add them in some way? Or is there a way
to check if yt didn't find the cooling??.dat files?
Thanks,
Ari
On Thu, Aug 14, 2014 at 1:54 PM, <yt-users-request@lists.spacepope.org>
wrote:
> Send yt-users mailing list submissions to
> yt-users@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@lists.spacepope.org
>
> You can reach the person managing the list at
> yt-users-owner@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. ionization states in ramses data sets (Professor Maller)
> 2. Re: ionization states in ramses data sets (Geoffrey So)
> 3. Re: ionization states in ramses data sets (Matthew Turk)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Thu, 14 Aug 2014 13:12:11 -0400
> From: Professor Maller <amaller@citytech.cuny.edu>
> To: yt-users@lists.spacepope.org
> Subject: [yt-users] ionization states in ramses data sets
> Message-ID:
> <
> CACCSjdOxDp+Mmgae1XLYJJvC7vJn52Xu59ppUA+p0mq7Fggz8A@mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Hi,
>
> Does anyone have code to create derived fields of ionization states, e.g.
> HI, for ramses data sets? If that's a no, does anyone have an example of a
> derived field where you have to read in a table and interpolate the field
> values.
>
> Thanks,
>
> Ari
> -------------- next part --------------
> An HTML attachment was scrubbed...
> URL: <
> http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20140814/6c53560d/attachment.html
> >
>
> ------------------------------
>
> Message: 2
> Date: Thu, 14 Aug 2014 10:19:49 -0700
> From: Geoffrey So <gsiisg@gmail.com>
> To: Discussion of the yt analysis package
> <yt-users@lists.spacepope.org>
> Subject: Re: [yt-users] ionization states in ramses data sets
> Message-ID:
> <
> CAM-dO+DM+ygbGg3GG9vrxjSn+JM9mGGgHDXA1UEJu1KYpnJJqw@mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Hi,
>
> according to
> http://yt-project.org/docs/2.6/analyzing/creating_derived_fields.html?
>
> what worked for me for enzo data is the following
>
> def _HINeutralFraction(field, data):
> return data['HI_Density']/(data['HI_Density']+data['HII_Density'])
>
> add_field('HINeutralFraction',function=_HINeutralFraction,
> units=r"\rho_\mathrm{HI}/\rho_\mathrm{H}")
>
> unless there's something strange with ramses dataset, the above should
> work.
>
> From
> G.S.
>
>
> On Thu, Aug 14, 2014 at 10:12 AM, Professor Maller <
> amaller@citytech.cuny.edu> wrote:
>
> > Hi,
> >
> > Does anyone have code to create derived fields of ionization states, e.g.
> > HI, for ramses data sets? If that's a no, does anyone have an example
> of a
> > derived field where you have to read in a table and interpolate the field
> > values.
> >
> > Thanks,
> >
> > Ari
> >
> > _______________________________________________
> > yt-users mailing list
> > yt-users@lists.spacepope.org
> > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> >
> >
> -------------- next part --------------
> An HTML attachment was scrubbed...
> URL: <
> http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20140814/14caf322/attachment-0001.htm
> >
>
> ------------------------------
>
> Message: 3
> Date: Thu, 14 Aug 2014 12:22:16 -0500
> From: Matthew Turk <matthewturk@gmail.com>
> To: Discussion of the yt analysis package
> <yt-users@lists.spacepope.org>
> Subject: Re: [yt-users] ionization states in ramses data sets
> Message-ID:
> <CALO3=
> 5HE+5eFNfXaWqJ_ApFCZeE_Sy73EEj+O5y7CuqMiVQ9sQ@mail.gmail.com>
> Content-Type: text/plain; charset=UTF-8
>
> Hi Ari,
>
> My reading of yt/frontends/ramses/fields.py is that this should be
> implemented already, using the cooling_%05i.dat files. If it's able
> to find those files, it will create the appropriate derived fields
> from them -- specifically, I think it can do Electron, HI, HII, HeI,
> HeII, and HeIII. Is it not creating those?
>
> On Thu, Aug 14, 2014 at 12:12 PM, Professor Maller
> <amaller@citytech.cuny.edu> wrote:
> > Hi,
> >
> > Does anyone have code to create derived fields of ionization states, e.g.
> > HI, for ramses data sets? If that's a no, does anyone have an example
> of a
> > derived field where you have to read in a table and interpolate the field
> > values.
> >
> > Thanks,
> >
> > Ari
> >
> > _______________________________________________
> > yt-users mailing list
> > yt-users@lists.spacepope.org
> > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> >
>
>
> ------------------------------
>
> Subject: Digest Footer
>
> _______________________________________________
> yt-users mailing list
> yt-users@lists.spacepope.org
> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>
>
> ------------------------------
>
> End of yt-users Digest, Vol 78, Issue 38
> ****************************************
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20140814/f52bcdcc/attachment-0001.htm>
------------------------------
Message: 2
Date: Thu, 14 Aug 2014 14:05:04 -0500
From: Matthew Turk <matthewturk@gmail.com>
To: Discussion of the yt analysis package
<yt-users@lists.spacepope.org>
Subject: Re: [yt-users] yt-users Digest, Vol 78, Issue 38
Message-ID:
<CALO3=5EBSnthcHi+SzWTvWvmTbj7751MjPQ_+tVK4+GDes2OHA@mail.gmail.com>
Content-Type: text/plain; charset=UTF-8
Hi Ari,
Looks to me like it may actually not be enabled by default for some
reason. Can you try calling:
ds.field_info.create_cooling_fields("")
and seeing if that adds the correct fields? If so, I'll update the
code to do this automatically.
-Matt
On Thu, Aug 14, 2014 at 1:56 PM, Professor Maller
<amaller@citytech.cuny.edu> wrote:
> Hi Matt,
>
> Those fields are not in my derived field list. That is
> ds.derived_field_list. Do I have to add them in some way? Or is there a way
> to check if yt didn't find the cooling??.dat files?
>
> Thanks,
>
> Ari
>
>
> On Thu, Aug 14, 2014 at 1:54 PM, <yt-users-request@lists.spacepope.org>
> wrote:
>>
>> Send yt-users mailing list submissions to
>> yt-users@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@lists.spacepope.org
>>
>> You can reach the person managing the list at
>> yt-users-owner@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. ionization states in ramses data sets (Professor Maller)
>> 2. Re: ionization states in ramses data sets (Geoffrey So)
>> 3. Re: ionization states in ramses data sets (Matthew Turk)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Thu, 14 Aug 2014 13:12:11 -0400
>> From: Professor Maller <amaller@citytech.cuny.edu>
>> To: yt-users@lists.spacepope.org
>> Subject: [yt-users] ionization states in ramses data sets
>> Message-ID:
>>
>> <CACCSjdOxDp+Mmgae1XLYJJvC7vJn52Xu59ppUA+p0mq7Fggz8A@mail.gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Hi,
>>
>> Does anyone have code to create derived fields of ionization states, e.g.
>> HI, for ramses data sets? If that's a no, does anyone have an example of
>> a
>> derived field where you have to read in a table and interpolate the field
>> values.
>>
>> Thanks,
>>
>> Ari
>> -------------- next part --------------
>> An HTML attachment was scrubbed...
>> URL:
>> <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20140814/6c53560d/attachment.html>
>>
>> ------------------------------
>>
>> Message: 2
>> Date: Thu, 14 Aug 2014 10:19:49 -0700
>> From: Geoffrey So <gsiisg@gmail.com>
>> To: Discussion of the yt analysis package
>> <yt-users@lists.spacepope.org>
>> Subject: Re: [yt-users] ionization states in ramses data sets
>> Message-ID:
>>
>> <CAM-dO+DM+ygbGg3GG9vrxjSn+JM9mGGgHDXA1UEJu1KYpnJJqw@mail.gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Hi,
>>
>> according to
>> http://yt-project.org/docs/2.6/analyzing/creating_derived_fields.html?
>>
>> what worked for me for enzo data is the following
>>
>> def _HINeutralFraction(field, data):
>> return data['HI_Density']/(data['HI_Density']+data['HII_Density'])
>>
>> add_field('HINeutralFraction',function=_HINeutralFraction,
>> units=r"\rho_\mathrm{HI}/\rho_\mathrm{H}")
>>
>> unless there's something strange with ramses dataset, the above should
>> work.
>>
>> From
>> G.S.
>>
>>
>> On Thu, Aug 14, 2014 at 10:12 AM, Professor Maller <
>> amaller@citytech.cuny.edu> wrote:
>>
>> > Hi,
>> >
>> > Does anyone have code to create derived fields of ionization states,
>> > e.g.
>> > HI, for ramses data sets? If that's a no, does anyone have an example
>> > of a
>> > derived field where you have to read in a table and interpolate the
>> > field
>> > values.
>> >
>> > Thanks,
>> >
>> > Ari
>> >
>> > _______________________________________________
>> > yt-users mailing list
>> > yt-users@lists.spacepope.org
>> > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>> >
>> >
>> -------------- next part --------------
>> An HTML attachment was scrubbed...
>> URL:
>> <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20140814/14caf322/attachment-0001.htm>
>>
>> ------------------------------
>>
>> Message: 3
>> Date: Thu, 14 Aug 2014 12:22:16 -0500
>> From: Matthew Turk <matthewturk@gmail.com>
>> To: Discussion of the yt analysis package
>> <yt-users@lists.spacepope.org>
>> Subject: Re: [yt-users] ionization states in ramses data sets
>> Message-ID:
>>
>> <CALO3=5HE+5eFNfXaWqJ_ApFCZeE_Sy73EEj+O5y7CuqMiVQ9sQ@mail.gmail.com>
>> Content-Type: text/plain; charset=UTF-8
>>
>> Hi Ari,
>>
>> My reading of yt/frontends/ramses/fields.py is that this should be
>> implemented already, using the cooling_%05i.dat files. If it's able
>> to find those files, it will create the appropriate derived fields
>> from them -- specifically, I think it can do Electron, HI, HII, HeI,
>> HeII, and HeIII. Is it not creating those?
>>
>> On Thu, Aug 14, 2014 at 12:12 PM, Professor Maller
>> <amaller@citytech.cuny.edu> wrote:
>> > Hi,
>> >
>> > Does anyone have code to create derived fields of ionization states,
>> > e.g.
>> > HI, for ramses data sets? If that's a no, does anyone have an example
>> > of a
>> > derived field where you have to read in a table and interpolate the
>> > field
>> > values.
>> >
>> > Thanks,
>> >
>> > Ari
>> >
>> > _______________________________________________
>> > yt-users mailing list
>> > yt-users@lists.spacepope.org
>> > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>> >
>>
>>
>> ------------------------------
>>
>> Subject: Digest Footer
>>
>> _______________________________________________
>> yt-users mailing list
>> yt-users@lists.spacepope.org
>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>>
>>
>> ------------------------------
>>
>> End of yt-users Digest, Vol 78, Issue 38
>> ****************************************
>
>
>
> _______________________________________________
> yt-users mailing list
> yt-users@lists.spacepope.org
> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>
------------------------------
Message: 3
Date: Fri, 15 Aug 2014 16:21:05 +0800
From: Hao Wang <hwang.phy@gmail.com>
To: yt-users@lists.spacepope.org
Subject: [yt-users] " cannot import name YTDomainOverflow" after hg
update to an earlier version
Message-ID:
<CAD_YEuC99LOH2p8n8zfdrLEZ7=7__QNjSeEis3nyz2mEio5SSQ@mail.gmail.com>
Content-Type: text/plain; charset="utf-8"
Hi all,
I was using YT when some error messages appeared; since this happened
immediately after I updated yt, I tried to "hg update 13651" to an earlier
version.
It turned out to be a big mistake -- suddenly every command I tried (yt; yt
update; hg update; and yt notebook) gave the following error:
=======================================
Traceback (most recent call last):
File "/home/hao/projects/yt/bin/yt", line 9, in <module>
load_entry_point('yt==3.0dev', 'console_scripts', 'yt')()
File
"/home/hao/projects/yt/lib/python2.7/site-packages/distribute-0.6.32-py2.7.egg/pkg_resources.py",
line 337, in load_entry_point
return get_distribution(dist).load_entry_point(group, name)
File
"/home/hao/projects/yt/lib/python2.7/site-packages/distribute-0.6.32-py2.7.egg/pkg_resources.py",
line 2311, in load_entry_point
return ep.load()
File
"/home/hao/projects/yt/lib/python2.7/site-packages/distribute-0.6.32-py2.7.egg/pkg_resources.py",
line 2017, in load
entry = __import__(self.module_name, globals(),globals(), ['__name__'])
File "/home/hao/projects/yt/src/yt-hg/yt/utilities/command_line.py", line
19, in <module>
from yt.mods import *
File "/home/hao/projects/yt/src/yt-hg/yt/mods.py", line 50, in <module>
from yt.data_objects.api import \
File "/home/hao/projects/yt/src/yt-hg/yt/data_objects/api.py", line 13,
in <module>
from grid_patch import \
File "/home/hao/projects/yt/src/yt-hg/yt/data_objects/grid_patch.py",
line 25, in <module>
from yt.data_objects.data_containers import YTFieldData
File
"/home/hao/projects/yt/src/yt-hg/yt/data_objects/data_containers.py", line
31, in <module>
from yt.data_objects.derived_quantities import GridChildMaskWrapper
File
"/home/hao/projects/yt/src/yt-hg/yt/data_objects/derived_quantities.py",
line 26, in <module>
from yt.utilities.parallel_tools.parallel_analysis_interface import \
File
"/home/hao/projects/yt/src/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py",
line 29, in <module>
from yt.utilities.lib import \
File "/home/hao/projects/yt/src/yt-hg/yt/utilities/lib/__init__.py", line
21, in <module>
from .geometry_utils import *
File "geometry_utils.pyx", line 22, in init
yt.utilities.lib.geometry_utils (yt/utilities/lib/geometry_utils.c:10907)
ImportError: cannot import name YTDomainOverflow
========================================
Anything to do to fix the damage besides a reinstallation?
Thanks!
Hao
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20140815/deaf9f67/attachment.htm>
------------------------------
Subject: Digest Footer
_______________________________________________
yt-users mailing list
yt-users@lists.spacepope.org
http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
------------------------------
End of yt-users Digest, Vol 78, Issue 39
****************************************