[yt-svn] commit/yt: 5 new changesets
commits-noreply at bitbucket.org
commits-noreply at bitbucket.org
Tue Dec 9 19:47:21 PST 2014
5 new commits in yt:
https://bitbucket.org/yt_analysis/yt/commits/1c991a5343a0/
Changeset: 1c991a5343a0
Branch: yt
User: ngoldbaum
Date: 2014-12-10 03:00:17+00:00
Summary: Add gadget notebook to cookbook toctree. Improve linking from loading data docs.
Affected #: 2 files
diff -r a43f02e6bea17aa9d8758344689f7f7004b5bc4f -r 1c991a5343a0ab7ec3f031727722eab786009e58 doc/source/cookbook/index.rst
--- a/doc/source/cookbook/index.rst
+++ b/doc/source/cookbook/index.rst
@@ -41,6 +41,7 @@
custom_colorbar_tickmarks
embedded_javascript_animation
embedded_webm_animation
+ gadget_notebook
../analyzing/analysis_modules/sunyaev_zeldovich
fits_radio_cubes
fits_xray_images
diff -r a43f02e6bea17aa9d8758344689f7f7004b5bc4f -r 1c991a5343a0ab7ec3f031727722eab786009e58 doc/source/examining/loading_data.rst
--- a/doc/source/examining/loading_data.rst
+++ b/doc/source/examining/loading_data.rst
@@ -573,7 +573,9 @@
yt has support for reading Gadget data in both raw binary and HDF5 formats. It
is able to access the particles as it would any other particle dataset, and it
can apply smoothing kernels to the data to produce both quantitative analysis
-and visualization. See :ref:`loading-sph-data` for more details.
+and visualization. See :ref:`loading-sph-data` for more details and
+:ref:`gadget-notebook` for a detailed example of loading, analyzing, and
+visualizing a Gadget dataset.
Gadget data in HDF5 format can be loaded with the ``load`` command:
@@ -1026,8 +1028,6 @@
onto the grid, you can also effectively mimic what your data would look like at
lower resolution.
-See :ref:`gadget-notebook` for an example.
-
.. _loading-tipsy-data:
Tipsy Data
https://bitbucket.org/yt_analysis/yt/commits/edc9d1abebff/
Changeset: edc9d1abebff
Branch: yt
User: ngoldbaum
Date: 2014-12-10 03:02:44+00:00
Summary: Fix minor API docs formatting issue in PlotWindow docstrings.
Affected #: 1 file
diff -r 1c991a5343a0ab7ec3f031727722eab786009e58 -r edc9d1abebfff8980f54cb7f5106f4ec41bfa129 yt/visualization/plot_window.py
--- a/yt/visualization/plot_window.py
+++ b/yt/visualization/plot_window.py
@@ -159,8 +159,8 @@
Parameters
----------
- data_source : :class:`yt.data_objects.data_containers.YTProjBase` or
- :class:`yt.data_objects.data_containers.YTSliceBase`
+
+ data_source : :class:`yt.data_objects.data_containers.YTProjBase` or :class:`yt.data_objects.data_containers.YTSliceBase`
This is the source to be pixelized, which can be a projection or a
slice. (For cutting planes, see
`yt.visualization.fixed_resolution.ObliqueFixedResolutionBuffer`.)
https://bitbucket.org/yt_analysis/yt/commits/e6e010e60d9c/
Changeset: e6e010e60d9c
Branch: yt
User: ngoldbaum
Date: 2014-12-10 03:04:52+00:00
Summary: Fix minor sphinx formatting issue in callback docs.
Affected #: 1 file
diff -r edc9d1abebfff8980f54cb7f5106f4ec41bfa129 -r e6e010e60d9cea866f1aa0b9d4f62487bd185238 doc/source/visualizing/_cb_docstrings.inc
--- a/doc/source/visualizing/_cb_docstrings.inc
+++ b/doc/source/visualizing/_cb_docstrings.inc
@@ -201,7 +201,7 @@
:class:`~yt.visualization.plot_modifications.ImageLineCallback`.)
Plot from ``p1`` to ``p2`` (normalized image plane coordinates) with
- ``plot_args`` fed into the plot.
+ ``plot_args`` fed into the plot.
.. python-script::
https://bitbucket.org/yt_analysis/yt/commits/acc5430d3b5c/
Changeset: acc5430d3b5c
Branch: yt
User: ngoldbaum
Date: 2014-12-10 03:07:39+00:00
Summary: Fix minor formatting issue in field list. Update RAMSES field list units.
Affected #: 2 files
diff -r e6e010e60d9cea866f1aa0b9d4f62487bd185238 -r acc5430d3b5c3bb426f9a7caa52d7fab19c17206 doc/helper_scripts/show_fields.py
--- a/doc/helper_scripts/show_fields.py
+++ b/doc/helper_scripts/show_fields.py
@@ -271,5 +271,6 @@
dp=f.dname, dw=len_disp)
print div
+ print ""
print footer
diff -r e6e010e60d9cea866f1aa0b9d4f62487bd185238 -r acc5430d3b5c3bb426f9a7caa52d7fab19c17206 doc/source/reference/field_list.rst
--- a/doc/source/reference/field_list.rst
+++ b/doc/source/reference/field_list.rst
@@ -4121,6 +4121,7 @@
('io', 'particle_metallicity1') 1
('io', 'particle_metallicity2') 1
================================ ======================================================================================================== ==================== ========= ============
+
.. _ARTIO_specific_fields:
ARTIO-Specific Fields
@@ -4155,6 +4156,7 @@
('io', 'METALLICITY_SNIa') ``metallicity_snia`` 1
('io', 'METALLICITY_SNII') ``metallicity_snii`` 1
================================== ======================================================================================================== ======================= ========= ============
+
.. _Athena_specific_fields:
Athena-Specific Fields
@@ -4168,6 +4170,7 @@
('athena', 'cell_centered_B_y') :math:`\mathrm{\rm{code_magnetic}}` ``magnetic_field_y`` 0
('athena', 'cell_centered_B_z') :math:`\mathrm{\rm{code_magnetic}}` ``magnetic_field_z`` 0
=============================== ====================================================================== ==================== ========= ============
+
.. _Boxlib_specific_fields:
Boxlib-Specific Fields
@@ -4202,6 +4205,7 @@
('io', 'particle_id') ``particle_index`` 1
('io', 'particle_mdot') :math:`\mathrm{\rm{code}~\rm{mass} / \rm{code}~\rm{time}}` 1
============================= ================================================================================================ ================== ========= ============
+
.. _Castro_specific_fields:
Castro-Specific Fields
@@ -4238,6 +4242,7 @@
('boxlib', 'maggrav') :math:`\mathrm{\frac{\rm{cm}}{\rm{s}^{2}}}` 0 :math:`|\mathbf{g}|`
('boxlib', 'phiGrav') :math:`\mathrm{\rm{erg} / \rm{g}}` 0 :math:`\Phi`
======================== ======================================================== ======================= ========= =====================================
+
.. _Maestro_specific_fields:
Maestro-Specific Fields
@@ -4289,6 +4294,7 @@
('boxlib', 'w0_y') :math:`\mathrm{\rm{cm} / \rm{s}}` 0 :math:`(w_0)_y`
('boxlib', 'w0_z') :math:`\mathrm{\rm{cm} / \rm{s}}` 0 :math:`(w_0)_z`
============================= ===================================================== ======================= ========= ===============================================
+
.. _Orion_specific_fields:
Orion-Specific Fields
@@ -4323,6 +4329,7 @@
('io', 'particle_id') ``particle_index`` 1
('io', 'particle_mdot') :math:`\mathrm{\rm{code}~\rm{mass} / \rm{code}~\rm{time}}` 1
============================= ================================================================================================ ================== ========= ============
+
.. _ChomboPIC_specific_fields:
ChomboPIC-Specific Fields
@@ -4338,6 +4345,7 @@
('io', 'particle_position_x') :math:`\mathrm{\rm{code}~\rm{length}}` 1
('io', 'particle_velocity_x') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` 1
=================================== ========================================================================== =========================== ========= ============
+
.. _Orion2_specific_fields:
Orion2-Specific Fields
@@ -4356,6 +4364,7 @@
('io', 'particle_velocity_x') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` 1
('io', 'particle_velocity_y') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` 1
=================================== ========================================================================== =========================== ========= ============
+
.. _Pluto_specific_fields:
Pluto-Specific Fields
@@ -4377,6 +4386,7 @@
('io', 'particle_velocity_y') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` 1
('io', 'particle_velocity_z') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` 1
=================================== ========================================================================== =========================== ========= ============
+
.. _Eagle_specific_fields:
Eagle-Specific Fields
@@ -4413,6 +4423,7 @@
('io', 'Metallicity_09') ``Ca_fraction`` 1
('io', 'Metallicity_10') ``Fe_fraction`` 1
============================ ====================================================================== ===================== ========= ============
+
.. _Enzo_specific_fields:
Enzo-Specific Fields
@@ -4464,6 +4475,7 @@
('io', 'identifier') ``particle_index`` 1
('io', 'level') 1
================================ ====================================================================== ============================ ========= ============
+
.. _FLASH_specific_fields:
FLASH-Specific Fields
@@ -4521,6 +4533,7 @@
('io', 'particle_tag') ``particle_index`` 1
('io', 'particle_mass') :math:`\mathrm{\rm{code}~\rm{mass}}` ``particle_mass`` 1
======================= ==================================================================================================== =========================== ========= ===================================================
+
.. _Gadget_specific_fields:
Gadget-Specific Fields
@@ -4557,6 +4570,7 @@
('io', 'Metallicity_09') ``Ca_fraction`` 1
('io', 'Metallicity_10') ``Fe_fraction`` 1
============================ ====================================================================== ===================== ========= ============
+
.. _GDF_specific_fields:
GDF-Specific Fields
@@ -4576,6 +4590,7 @@
('gdf', 'mag_field_y') :math:`\mathrm{\rm{gauss}}` ``magnetic_field_y`` 0
('gdf', 'mag_field_z') :math:`\mathrm{\rm{gauss}}` ``magnetic_field_z`` 0
========================== ============================================= ==================== ========= ============
+
.. _HaloCatalog_specific_fields:
HaloCatalog-Specific Fields
@@ -4594,6 +4609,7 @@
('io', 'particle_mass') :math:`\mathrm{\rm{g}}` 1 :math:`Virial Mass`
('io', 'virial_radius') :math:`\mathrm{\rm{cm}}` 1 :math:`Virial Radius`
============================= ================================= ======= ========= =====================
+
.. _OWLS_specific_fields:
OWLS-Specific Fields
@@ -4630,6 +4646,7 @@
('io', 'Metallicity_09') ``Ca_fraction`` 1
('io', 'Metallicity_10') ``Fe_fraction`` 1
============================ ====================================================================== ===================== ========= ============
+
.. _OWLSSubfind_specific_fields:
OWLSSubfind-Specific Fields
@@ -4664,32 +4681,34 @@
('io', 'BH_Mdot') :math:`\mathrm{\rm{code}~\rm{mass} / \rm{code}~\rm{time}}` 1
('io', 'StarFormationRate') :math:`\mathrm{\rm{code}~\rm{mass} / \rm{code}~\rm{time}}` 1
================================ ========================================================== ======================= ========= ============
+
.. _RAMSES_specific_fields:
RAMSES-Specific Fields
----------------------
-=================================== ================================================================================================ ================== ========= ============
-field name units aliases particle? display name
-=================================== ================================================================================================ ================== ========= ============
-('ramses', 'Density') :math:`\mathrm{\frac{\rm{code}~\rm{mass}}{\rm{code}~\rm{length}^{3}}}` ``density`` 0
-('ramses', 'x-velocity') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` ``velocity_x`` 0
-('ramses', 'y-velocity') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` ``velocity_y`` 0
-('ramses', 'z-velocity') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` ``velocity_z`` 0
-('ramses', 'Pressure') :math:`\mathrm{\frac{\rm{code}~\rm{mass}}{\rm{code}~\rm{length} \cdot \rm{code}~\rm{time}^{2}}}` ``pressure`` 0
-('ramses', 'Metallicity') ``metallicity`` 0
-('io', 'particle_position_x') :math:`\mathrm{\rm{code}~\rm{length}}` 1
-('io', 'particle_position_y') :math:`\mathrm{\rm{code}~\rm{length}}` 1
-('io', 'particle_position_z') :math:`\mathrm{\rm{code}~\rm{length}}` 1
-('io', 'particle_velocity_x') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` 1
-('io', 'particle_velocity_y') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` 1
-('io', 'particle_velocity_z') :math:`\mathrm{\rm{code}~\rm{length} / \rm{code}~\rm{time}}` 1
-('io', 'particle_mass') :math:`\mathrm{\rm{code}~\rm{mass}}` 1
-('io', 'particle_identifier') ``particle_index`` 1
-('io', 'particle_refinement_level') 1
-('io', 'particle_age') :math:`\mathrm{\rm{code}~\rm{time}}` 1
-('io', 'particle_metallicity') 1
-=================================== ================================================================================================ ================== ========= ============
+=================================== ======================================== ================== ========= ============
+field name units aliases particle? display name
+=================================== ======================================== ================== ========= ============
+('ramses', 'Density') :math:`\mathrm{\rm{code_density}}` ``density`` 0
+('ramses', 'x-velocity') :math:`\mathrm{\rm{code}~\rm{velocity}}` ``velocity_x`` 0
+('ramses', 'y-velocity') :math:`\mathrm{\rm{code}~\rm{velocity}}` ``velocity_y`` 0
+('ramses', 'z-velocity') :math:`\mathrm{\rm{code}~\rm{velocity}}` ``velocity_z`` 0
+('ramses', 'Pressure') :math:`\mathrm{\rm{code_pressure}}` ``pressure`` 0
+('ramses', 'Metallicity') ``metallicity`` 0
+('io', 'particle_position_x') :math:`\mathrm{\rm{code}~\rm{length}}` 1
+('io', 'particle_position_y') :math:`\mathrm{\rm{code}~\rm{length}}` 1
+('io', 'particle_position_z') :math:`\mathrm{\rm{code}~\rm{length}}` 1
+('io', 'particle_velocity_x') :math:`\mathrm{\rm{code}~\rm{velocity}}` 1
+('io', 'particle_velocity_y') :math:`\mathrm{\rm{code}~\rm{velocity}}` 1
+('io', 'particle_velocity_z') :math:`\mathrm{\rm{code}~\rm{velocity}}` 1
+('io', 'particle_mass') :math:`\mathrm{\rm{code}~\rm{mass}}` 1
+('io', 'particle_identifier') ``particle_index`` 1
+('io', 'particle_refinement_level') 1
+('io', 'particle_age') :math:`\mathrm{\rm{code}~\rm{time}}` 1
+('io', 'particle_metallicity') 1
+=================================== ======================================== ================== ========= ============
+
.. _Rockstar_specific_fields:
Rockstar-Specific Fields
@@ -4756,6 +4775,7 @@
('io', 'min_vel_err') 1
('io', 'min_bulkvel_err') 1
============================= ======================================= ======= ========= =================================
+
.. _Tipsy_specific_fields:
Tipsy-Specific Fields
@@ -4812,6 +4832,7 @@
============================ ====================================================================== ===================== ========= ============
+
Index of Fields
---------------
https://bitbucket.org/yt_analysis/yt/commits/e936ed325441/
Changeset: e936ed325441
Branch: yt
User: ngoldbaum
Date: 2014-12-10 03:09:40+00:00
Summary: Fix quoting in plotting documentation.
Affected #: 1 file
diff -r acc5430d3b5c3bb426f9a7caa52d7fab19c17206 -r e936ed325441400e985218d68c924517ed5ff52f doc/source/visualizing/plots.rst
--- a/doc/source/visualizing/plots.rst
+++ b/doc/source/visualizing/plots.rst
@@ -127,13 +127,14 @@
If supplied without units, the center is assumed by in code units. There are also
the following alternative options for the `center` keyword:
-* `"center"`, "c"`: the domain center
-* `"max"`, `"m"`: the position of the maximum density
-* `("min", field)`: the position of the minimum of `field`
-* `("max", field)`: the position of the maximum of `field`
+* ``"center"``, ``"c"``: the domain center
+* ``"max"``, ``"m"``: the position of the maximum density
+* ``("min", field)``: the position of the minimum of ``field``
+* ``("max", field)``: the position of the maximum of ``field``
-where for the last two objects any spatial field, such as `"density"`, `"velocity_z"`,
-etc., may be used, e.g. `center=("min","temperature")`
+where for the last two objects any spatial field, such as ``"density"``,
+``"velocity_z"``,
+etc., may be used, e.g. ``center=("min","temperature")``.
Here is an example that combines all of the options we just discussed.
Repository URL: https://bitbucket.org/yt_analysis/yt/
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