Issues to Trello?
by Matthew Turk
Hi all,
What would you all think of having new issues reported to Trello? I
would worry about issues then being updated in two places (or one
instead of two), but it feels like Trello is just a way more natural
fit for how we work than the BB issue tracker. Maybe I'm wrong on
that...
Anyway, we can have them forwarded via email, or use one of the
connectors out there to have them go there. But maybe it would just
fragment things.
-Matt
4 years, 3 months
Splitting a compound unit into its atoms
by John ZuHone
This should be obvious to me, but I can't seem to figure it out.
Is there a way to take a compound units expression like:
dyne*cm**2/g**2
and split it into its constituent parts, so that I have a list like this:
[dyne, cm, g]
and maybe even containing the information about the powers?
4 years, 3 months
yt-3.0 two heads
by Michael Zingale
At the moment, in the yt repo, we have two heads on the yt-3.0 branch -- is
that what we want? I try merging them in my local copy and it doesn't go
cleanly.
--
Michael Zingale
Associate Professor
Dept. of Physics & Astronomy • Stony Brook University • Stony Brook, NY
11794-3800
*phone*: 631-632-8225
*e-mail*: Michael.Zingale(a)stonybrook.edu
*web*: http://www.astro.sunysb.edu/mzingale
4 years, 3 months
Issue #913: Field generation issue is breaking fit_spectrum.py (yt_analysis/yt)
by Nathan Goldbaum
New issue 913: Field generation issue is breaking fit_spectrum.py
https://bitbucket.org/yt_analysis/yt/issue/913/field-generation-issue-is-...
Nathan Goldbaum:
>From the latest docs build (http://tests.yt-project.org/job/yt-docs-3.0/333/):
```
#!python traceback
Traceback (most recent call last):
File "helper_scripts/run_recipes.py", line 75, in <module>
RES.get()
File "/home/xarth/yt-x86_64/lib/python2.7/multiprocessing/pool.py", line 558, in get
raise self._value
Exception: Traceback (most recent call last):
File "helper_scripts/run_recipes.py", line 40, in run_receipe
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/doc/source/cookbook/simple_slice_with_multiple_fields.py", line 8, in <module>
width = (800.0, 'kpc')).save()
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/visualization/plot_window.py", line 1842, in SlicePlot
return AxisAlignedSlicePlot(ds, normal, fields, *args, **kwargs)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/visualization/plot_window.py", line 1014, in __init__
slc.get_data(fields)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/data_objects/data_containers.py", line 602, in get_data
self.index._identify_base_chunk(self)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/data_objects/data_containers.py", line 129, in index
self._index = self.ds.index
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/data_objects/static_output.py", line 279, in index
self.create_field_info()
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/data_objects/static_output.py", line 334, in create_field_info
self.field_info.load_all_plugins()
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/fields/field_info_container.py", line 228, in load_all_plugins
self.find_dependencies(loaded)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/fields/field_info_container.py", line 241, in find_dependencies
deps, unavailable = self.check_derived_fields(loaded)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/fields/field_info_container.py", line 310, in check_derived_fields
fd = fi.get_dependencies(ds = self.ds)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/fields/derived_field.py", line 158, in get_dependencies
e[self.name]
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/fields/field_detector.py", line 113, in __missing__
vv = finfo(self)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/fields/derived_field.py", line 184, in __call__
dd = self._function(self, data)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/doc/source/cookbook/fit_spectrum.py", line 12, in _OVI_number_density
return data['H_number_density']*2.0
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/fields/field_detector.py", line 93, in __missing__
finfo = self.ds._get_field_info(*field)
File "/var/lib/jenkins/jobs/yt-docs-3.0/workspace/yt/data_objects/static_output.py", line 482, in _get_field_info
raise YTFieldNotFound((ftype, fname), self)
YTFieldNotFound: Could not find field '('all', 'H_number_density')' in sloshing_nomag2_hdf5_plt_cnt_0150.
in module: simple_slice_with_multiple_fields
```
4 years, 3 months
Issue #912: Be careful about "thermal energy" uses in yt (yt_analysis/yt)
by Chris Malone
New issue 912: Be careful about "thermal energy" uses in yt
https://bitbucket.org/yt_analysis/yt/issue/912/be-careful-about-thermal-e...
Chris Malone:
This came up in the comments of a PR. In essence, @mzingale summarized the issue quite well:
"I'm a little concerned about the name thermal energy. We don't necessarily have thermal energy easily available [in Maestro]. We have internal energy, or gas energy, but when we are very degenerate, the internal energy is not thermal, so the name thermal energy is misleading and perhaps dangerous. Since this is a yt convention, maybe for these codes we should return an error if thermal energy is requested and perhaps we can define a more code-agnostic general name for the gas internal energy that can be used in situations where thermal energy is wrong."
4 years, 3 months
Issue #909: calculate_isocontour_flux function raises error in parallel analysis interface (yt_analysis/yt)
by Nathan Goldbaum
New issue 909: calculate_isocontour_flux function raises error in parallel analysis interface
https://bitbucket.org/yt_analysis/yt/issue/909/calculate_isocontour_flux-...
Nathan Goldbaum:
The following test script:
```
import yt
ds = yt.load('IsolatedGalaxy/galaxy0030/galaxy0030')
dd = ds.all_data()
dd.calculate_isocontour_flux('density', 1e-23, 'x-velocity', 'y-velocity', 'z-velocity', 'density')
```
raises the following error:
```
#!python
AttributeError Traceback (most recent call last)
/home/goldbaum/Documents/yt-hg/yt/mods.pyc in <module>()
----> 1 dd.calculate_isocontour_flux('density', 1e-23, 'x-velocity', 'y-velocity', 'z-velocity', 'density')
/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.pyc in calculate_isocontour_flux(self, field, value, field_x, field_y, field_z, fluxing_field)
1106 """
1107 flux = 0.0
-> 1108 for g in self._get_grid_objs():
1109 flux += self._calculate_flux_in_grid(g, field, value,
1110 field_x, field_y, field_z, fluxing_field)
/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.pyc in _get_grid_objs(self)
1065 if self._distributed:
1066 return ParallelObjectIterator(self, True, attr='_grids')
-> 1067 return ObjectIterator(self, True, attr='_grids')
1068
1069 def get_dependencies(self, fields):
/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.pyc in __init__(self, pobj, just_list, attr)
146 gs = getattr(pobj, attr)
147 else:
--> 148 gs = getattr(pobj._data_source, attr)
149 if len(gs) == 0:
150 raise YTNoDataInObjectError(pobj)
AttributeError: 'YTRegion' object has no attribute '_data_source'
```
I think the parallel analysis interface should be using the chunking system here, but I'm not sure. I also a little mystified why the unit tests for this function didn't pick this up.
Responsible: MatthewTurk
4 years, 4 months
