Mailman 3 May 2017 - yt-users

Porting .ply files to Blender with colors?
by Jill P. Naiman 15 Aug '22

15 Aug '22

Hi All, I was curious if anyone has had any luck porting .ply files generated with yt into Blender with colors? It seems to port in the surfaces just fine, but they are a uniform color. From what I can gather, Blender imports .ply files with face color instead of vertex so I tried the surf.export_ply routine with "face" instead of "vertex" for sample_type, but no luck ("vertex" doesn't work either). Let me know if I can provide any more useful info. Thanks for any help, -J

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Stars on volume rendering
by Elizabeth Harper-Clark 11 Dec '21

11 Dec '21

Hi all, Thanks for all your help over the last couple of days. One more question: - Can I plot particles on a volume rendered image? I have stars and I want to show where they are! Thanks, Libby -- Elizabeth Harper-Clark MA MSci PhD Candidate, Canadian Institute for Theoretical Astrophysics, UofT Sciences and Engineering Coordinator, Teaching Assistants' Training Program, UofT www.astro.utoronto.ca/~h-clark <http://www.astro.utoronto.ca/%7Eh-clark> h-clark(a)cita.utoronto.ca Astronomy office phone: +1-416-978-5759

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Variance in phase/profiles
by david collins 11 Apr '20

11 Apr '20

Hi, Everybody! Does anyone out there have a technique for getting the variance out of a profile object? A profile object is good at getting <X> vs. B, I'd then like to get < (X - <X>)^2 > vs B. Matt and I had spittballed the possibility some time ago, but I was wondering if anyone out there had successfully done it. Thanks, d. -- Sent from my computer.

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[YT-USERS] Incoherence when ploting a slice - from FLASH simulation
by Gabriel RIGON 15 Jul '17

15 Jul '17

Dear all, I recently start to work with yt to analyze my FLASH simulation. The output of those simulation is an hdf5 file. When I try to plot a slice of my simulation, some weird lines appear on it. Here is an example of the python script and the results it leads to. """ import yt ds = yt.load("lasslab_hdf5_plt_cnt_0000.hdf5") yt.SlicePlot(ds, 'z', "dens").show() [cid:972219b9-edbb-4265-81cf-9a07e61cf360] """ Actually they also appear went plotting the results of a frb of a slice (even when I try to plot the x or y coordinate in 2d). Do you have any idea of the reason for such lines, or a solution for my problem? Best regards, Gabriel Rigon

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yt for analyzing Millennium simulation data
by Ankit Singh 14 Jun '17

14 Jun '17

Hi all, For some work, I had to use Millenium Simulation data. I have a catalog of halos with their positions, and I wanted to get the halos in voids. Can yt be of any use for such an analysis? The thing that makes it difficult is periodic boundary conditions it doesn't allow you to use KDtree straight away. Please help, Thanks, With Regards, Ankit

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Covering GIZMO data to uniform grid
by 梁家豪 31 May '17

31 May '17

Hello yt-commuinty, I was trying to use yt to analyse GIZMO data. Is there a function which can translate GIZMO gas data,particle0, to uniform grid with neutral hydrogen,velocity,temperature.etc? I know the "deposit " field and covering_grid in yt, but "deposit" isn't uniform and covering_grid is designed for grid-like data.. Thank you! Edward

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reading the fields correctly (ramses-rt)
by sacielo 31 May '17

31 May '17

Hi all, I'm experiencing a little trouble in reading some RAMSES files which include radiative transfer. In this (broadly used) implementation some of the fields do not follow the order they have classical RAMSES files; e.g. the pressure field is later in the fields list. Indeed when I read the files those fields do not have the correct content. Can someone please suggest a possible workaround? For instance a plugin for this kind of files, if it exists, or suggest how I could swap the fields, or rename them with the correct name? I do not want simply to create new fields, without correcting the default ones, as all derived fields (and possibly other valuable yt features) would not work properly. Thank you very much! Best, Salvatore

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2-D radial profile plotting
by Joshua Wall 30 May '17

30 May '17

Hello Dear Users, I'm recently trying to recreate some of the interesting 2-D radial plots of stellar and gas surface density the ALMA folks are making (see https://arxiv.org/abs/1703.07029 for instance) using my simulations. I've been experimenting with using an FRB to do this, but I'm having trouble resolving the innermost cells even though the FRB resolution matches my grid's highest resolution. I see that there was some discussion of including this in the code a couple of years ago (as well as where I got the idea to try FRBs for this): http://lists.spacepope.org/pipermail/yt-users-spacepope.org/2015-June/00620… Did this ever make it in? I'd love to be able to use it if so. Cordially, Josh -- Joshua Wall Doctoral Candidate Department of Physics Drexel University 3141 Chestnut Street Philadelphia, PA 19104

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producing smooth sliceplots instead of pixelated sliceplot images
by tazkera haque 30 May '17

30 May '17

Hi People, I was wondering if yt can produce smooth images of zoomed-in sliceplots, where the pixelated AMR grids are not clearly visible. I was interested to see the colors get mixed in smoothly (something like tetrahedralization), is that possible anyway in yt? Best Tazkera

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transparency and color from two arrays (cont.)
by Matěj Týč 30 May '17

30 May '17

Hello guys, our research group would like to visualize volume data, where the transfer function is bivariate (see http://lists.spacepope.org/pipermail/yt-users-spacepope.org/2017-April/0085… ). We have been struggling with this task, so I would like you to help me understand some of the basic concepts I have come across and that I find confusing. 1. I think that I somehow understand the concept of transfer functions with multiple fields, but I have difficulties of creating a volume source with multiple fields. I have somehow examined the source code, and it seems to me that only the first field is used (judging by https://github.com/yt-project/yt/blob/master/yt/visualization/volume_render… ). If I am wrong and it is meaningful and possible to construct a source with multiple fields, could you please provide an example? 2. I have no doubts that transfer functions work, but I was unable to find out how are they involved in the integration process. What I came across were the integration routines and they have mentioned that the transfer function is not used: https://github.com/yt-project/yt/blob/master/yt/utilities/lib/ray_integrato… . This is really interesting, how is it in reality? 3. You have mentioned the PlanckTransferFunction as a good example of multivariate transfer function. However, doing a Google search, hoping that we will find a code snippet featuring a non-trivial example did not yield any results. Would you be so kind and provide one? Best regards, Matej https://github.com/matejak

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Re: [yt-users] yt-users Digest, Vol 111, Issue 44
by Alexander Hamilton 24 May '17

24 May '17

Hi Matt, Cheers for the info, I’ll take a look at your Unity code, I’m betting it’ll be better than my stab at it a few months back, I used someone else’s ray-marching code: https://github.com/brianasu/unity-ray-marching/tree/volumetric-textures Is it a mercurial repository? (I’ve just never used that before) Hi Nathan, My skillset doesn’t cover Open GL or general graphics either (yet, maybe in time), but I’m more than happy to help where I can and I have enough people here interested to get their data in VR that there’s a good amount of support. :) I assume yt’s OpenGL volume rendering uses ray-marching? Hi Suoqing, Cheers, that’s cool, I’ll have to give that a try too, I’ll have to see if the data will look good on that. Hi Jill, That’s a good idea, I’d never heard of sketchfab, most of our datasets are more volume then surface, but it’s worth a try for some of my solar stuff. Thanks guys, I’m getting loads of cool ideas from here. Regards Alex ________________________________________ From: yt-users-request(a)lists.spacepope.org [yt-users-request(a)lists.spacepope.org] Sent: 23 May 2017 19:01 To: yt-users(a)lists.spacepope.org Subject: yt-users Digest, Vol 111, Issue 44 Send yt-users mailing list submissions to yt-users(a)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(a)lists.spacepope.org You can reach the person managing the list at yt-users-owner(a)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 VR Visualisation (Naiman, Jill) 2. Re: YT VR Visualisation (Suoqing Ji) 3. Ramses MHD visualization (Daniel William Murray) ---------------------------------------------------------------------- Message: 1 Date: Tue, 23 May 2017 10:00:31 +1000 From: "Naiman, Jill" <jill.naiman(a)cfa.harvard.edu> To: Discussion of the yt analysis package <yt-users(a)lists.spacepope.org> Subject: Re: [yt-users] YT VR Visualisation Message-ID: <CAFwWoV-K5rWnL_9LZVQ4ZVhvaH8znbMo0Vi1yrg0MeApeSxuXw(a)mail.gmail.com> Content-Type: text/plain; charset="utf-8" Hi All, Just FYI - one can also generate points/surfaces with yt and upload them somewhere like Sketchfab and use their VR mechanisms. Looking forward to what comes of it! Cheers, -Jill On Tue, May 23, 2017 at 2:14 AM, Nathan Goldbaum <nathan12343(a)gmail.com> wrote: > > > On Mon, May 22, 2017 at 11:07 AM, Matthew Turk <matthewturk(a)gmail.com> > wrote: > >> Hi Alex, >> >> Yup, we have been, and with the vive and oculus specifically. Right >> now though, it never got past much of a tech demo phase -- there's >> code on my group's bitbucket account (bitbucket.org/data-exp-lab/ ) >> that runs in Unity, and Nathan Goldbaum got some of the stuff that's >> in yt (the volume rendering) to work with the OpenVR python bindings >> directly (not srue where that code is) but it's all still pretty early >> on. > > > This code isn't really usable yet. In order for this to actually work, > we'll need a big overhaul of the OpenGL volume rendering in yt to use > multiple passes. > > In addition there were significant performance issues that I never tracked > down. Unfortunately I'm no expert on graphics programming and that's > probably what's needed here. > > >> Not sure it's quite shovel ready. There're some students coming >> on soon that will take another look, but July might be a bit >> optimistic... That being said, it'd be an awesome hack or >> collaboration and if you are interested in trying to push it at all, >> that'd be pretty rad. >> >> -Matt >> >> On Mon, May 22, 2017 at 10:10 AM, Alexander Hamilton >> <A.Hamilton(a)2016.hull.ac.uk> wrote: >> > Hi guys, I?m Alex from Hull University. >> > We?re hosting the UK?s National Astronomy Meeting in July and I?ve been >> > asked to run the hack day. >> > >> > I?ve managed to procure some VR headsets (HTC Vive, Oculus Rift and MS >> > Hololens) and want to try and see if we could use them for visualising >> some >> > of our simulation data. >> > I hear you guys may have been playing with VR, is that true? Is there >> > anything that we could use/play-with at this point? >> > >> > >> > >> > Thanks >> > >> > Alex >> > >> > ************************************************** >> > To view the terms under which this email is >> > distributed, please go to >> > http://www2.hull.ac.uk/legal/disclaimer.aspx >> > ************************************************** >> > _______________________________________________ >> > yt-users mailing list >> > yt-users(a)lists.spacepope.org >> > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org >> > >> _______________________________________________ >> yt-users mailing list >> yt-users(a)lists.spacepope.org >> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org >> > > > _______________________________________________ > yt-users mailing list > yt-users(a)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/201…> ------------------------------ Message: 2 Date: Mon, 22 May 2017 17:18:20 -0700 From: Suoqing Ji <suoqing(a)physics.ucsb.edu> To: Discussion of the yt analysis package <yt-users(a)lists.spacepope.org> Subject: Re: [yt-users] YT VR Visualisation Message-ID: <ca3136c6-5fe9-4aac-92df-09d17d82bffc@Spark> Content-Type: text/plain; charset="utf-8" Hi Alex, Just to add up one more point: yt is always able to generate pre-rendered virtual reality movies with stereo-spherical lens, which works perfectly with Google Cardboard. To generate the movie, you could refer to this page: http://yt-project.org/docs/dev/visualizing/volume_rendering.html#spherical-… An example move is at:?https://www.youtube.com/watch?v=ZYWY53X7UQE . You could also put your smartphone into Google Cardboard to watch the video with Youtube App. Best wishes, ? Suoqing Ji Ph.D Candidate Department of Physics University of California, Santa Barbara http://physics.ucsb.edu/~suoqing On May 22, 2017, 5:00 PM -0700, Naiman, Jill <jill.naiman(a)cfa.harvard.edu>, wrote: > Hi All, > > Just FYI - one can also generate points/surfaces with yt and upload them somewhere like Sketchfab and use their VR mechanisms. > > Looking forward to what comes of it! > > Cheers, > -Jill > > > On Tue, May 23, 2017 at 2:14 AM, Nathan Goldbaum <nathan12343(a)gmail.com> wrote: > > > > > > > > > > On Mon, May 22, 2017 at 11:07 AM, Matthew Turk <matthewturk(a)gmail.com> wrote: > > > > > Hi Alex, > > > > > > > > > > Yup, we have been, and with the vive and oculus specifically.? Right > > > > > now though, it never got past much of a tech demo phase -- there's > > > > > code on my group's bitbucket account (bitbucket.org/data-exp-lab/ ) > > > > > that runs in Unity, and Nathan Goldbaum got some of the stuff that's > > > > > in yt (the volume rendering) to work with the OpenVR python bindings > > > > > directly (not srue where that code is) but it's all still pretty early > > > > > on. > > > > > > > > This code isn't really usable yet. In order for this to actually work, we'll need a big overhaul of the OpenGL volume rendering in yt to use multiple passes. > > > > > > > > In addition there were significant performance issues that I never tracked down. Unfortunately I'm no expert on graphics programming and that's probably what's needed here. > > > > > > > > > Not sure it's quite shovel ready.? There're some students coming > > > > > on soon that will take another look, but July might be a bit > > > > > optimistic...? That being said, it'd be an awesome hack or > > > > > collaboration and if you are interested in trying to push it at all, > > > > > that'd be pretty rad. > > > > > > > > > > -Matt > > > > > > > > > > On Mon, May 22, 2017 at 10:10 AM, Alexander Hamilton > > > > > <A.Hamilton(a)2016.hull.ac.uk> wrote: > > > > > > Hi guys, I?m Alex from Hull University. > > > > > > We?re hosting the UK?s National Astronomy Meeting in July and I?ve been > > > > > > asked to run the hack day. > > > > > > > > > > > > I?ve managed to procure some VR headsets (HTC Vive, Oculus Rift and MS > > > > > > Hololens) and want to try and see if we could use them for visualising some > > > > > > of our simulation data. > > > > > > I hear you guys may have been playing with VR, is that true? Is there > > > > > > anything that we could use/play-with at this point? > > > > > > > > > > > > > > > > > > > > > > > > Thanks > > > > > > > > > > > >? ? ?Alex > > > > > > > > > > > > ************************************************** > > > > > > To view the terms under which this email is > > > > > > distributed, please go to > > > > > > http://www2.hull.ac.uk/legal/disclaimer.aspx > > > > > > ************************************************** > > > > > > _______________________________________________ > > > > > > yt-users mailing list > > > > > > yt-users(a)lists.spacepope.org > > > > > > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org > > > > > > > > > > > _______________________________________________ > > > > > yt-users mailing list > > > > > yt-users(a)lists.spacepope.org > > > > > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org > > > > > > > > > _______________________________________________ > > > yt-users mailing list > > > yt-users(a)lists.spacepope.org > > > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org > > > > > _______________________________________________ > yt-users mailing list > yt-users(a)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/201…> ------------------------------ Message: 3 Date: Tue, 23 May 2017 17:59:15 +0000 From: Daniel William Murray <dwmurray(a)uwm.edu> To: "yt-users(a)lists.spacepope.org" <yt-users(a)lists.spacepope.org> Subject: [yt-users] Ramses MHD visualization Message-ID: <MWHPR04MB1185DDA612C4C5D38349B6DDDCF90(a)MWHPR04MB1185.namprd04.prod.outlook.com> Content-Type: text/plain; charset="iso-8859-1" Dear yt folks, I am trying to visualize some RAMSES MHD simulation data. The simulation is for gravitationally collapsing gas looking at star formation. I'm looking to obtain projection and slice plots and then annotate the magnetic fields onto the resulting image. I'm on Mac OS X 10.9.5 I'm using conda 4.3.18 My version of yt is: 3.3.5-py27_0 and python 2.7.12 All of what I believe is the relevant code: pf = yt.load('output_00284/info_00284.txt') sp = pf.h.sphere(part_center, (zoom_width + 0.5, "pc")) L = sp.quantities.angular_momentum_vector() p = yt.OffAxisSlicePlot(pf, L, 'density', center=part_center, width =(zoom_width, "pc")) p.annotate_magnetic_field() p.save('test.png') The error: yt.utilities.exceptions.YTPlotCallbackError: annotate_magnetic_field callback failed with the following error: Could not find field '('all', 'magnetic_field_x')' in info_00284. If I load the field list for the data set, I can see that the B field data is there, but under 'ramses', not 'all' ('ramses', 'x-Bfield-left'), ('ramses', 'x-Bfield-right'), ('ramses', 'x-velocity'), ('ramses', 'y-Bfield-left'), ('ramses', 'y-Bfield-right'), ('ramses', 'y-velocity'), ('ramses', 'z-Bfield-left'), ('ramses', 'z-Bfield-right'), Is there a way to pass these fields to annotate_magnetic_field? Or a manner in which I can have this information load in the field ('all', 'magnetic_field_') I should also note that I can create and save the plots with no issues, so long as I do not try to annotate the magnetic fields. Cheers, Daniel Murray Graduate student at University of Wisconsin Milwaukee -------------- next part -------------- An HTML attachment was scrubbed... URL: <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/201…> ------------------------------ Subject: Digest Footer _______________________________________________ yt-users mailing list yt-users(a)lists.spacepope.org http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org ------------------------------ End of yt-users Digest, Vol 111, Issue 44 ***************************************** ************************************************** To view the terms under which this email is distributed, please go to http://www2.hull.ac.uk/legal/disclaimer.aspx **************************************************

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Ramses MHD visualization
by Daniel William Murray 23 May '17

23 May '17

Dear yt folks, I am trying to visualize some RAMSES MHD simulation data. The simulation is for gravitationally collapsing gas looking at star formation. I'm looking to obtain projection and slice plots and then annotate the magnetic fields onto the resulting image. I'm on Mac OS X 10.9.5 I'm using conda 4.3.18 My version of yt is: 3.3.5-py27_0 and python 2.7.12 All of what I believe is the relevant code: pf = yt.load('output_00284/info_00284.txt') sp = pf.h.sphere(part_center, (zoom_width + 0.5, "pc")) L = sp.quantities.angular_momentum_vector() p = yt.OffAxisSlicePlot(pf, L, 'density', center=part_center, width =(zoom_width, "pc")) p.annotate_magnetic_field() p.save('test.png') The error: yt.utilities.exceptions.YTPlotCallbackError: annotate_magnetic_field callback failed with the following error: Could not find field '('all', 'magnetic_field_x')' in info_00284. If I load the field list for the data set, I can see that the B field data is there, but under 'ramses', not 'all' ('ramses', 'x-Bfield-left'), ('ramses', 'x-Bfield-right'), ('ramses', 'x-velocity'), ('ramses', 'y-Bfield-left'), ('ramses', 'y-Bfield-right'), ('ramses', 'y-velocity'), ('ramses', 'z-Bfield-left'), ('ramses', 'z-Bfield-right'), Is there a way to pass these fields to annotate_magnetic_field? Or a manner in which I can have this information load in the field ('all', 'magnetic_field_') I should also note that I can create and save the plots with no issues, so long as I do not try to annotate the magnetic fields. Cheers, Daniel Murray Graduate student at University of Wisconsin Milwaukee

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YT VR Visualisation
by Alexander Hamilton 23 May '17

23 May '17

Hi guys, I’m Alex from Hull University. We’re hosting the UK’s National Astronomy Meeting in July and I’ve been asked to run the hack day. I’ve managed to procure some VR headsets (HTC Vive, Oculus Rift and MS Hololens) and want to try and see if we could use them for visualising some of our simulation data. I hear you guys may have been playing with VR, is that true? Is there anything that we could use/play-with at this point? Thanks Alex ************************************************** To view the terms under which this email is distributed, please go to http://www2.hull.ac.uk/legal/disclaimer.aspx **************************************************

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read user defined scalar in FLASH dataset
by Suoqing Ji 22 May '17

22 May '17

Hi, Is it possible to use yt to read some user-defined scalar in FLASH dataset? Here is the way I adopted to output scalar into FLASH data: http://flash.uchicago.edu/site/flashcode/user_support/flash4_ug_4p4/node69.… Thanks! Best wishes, — Suoqing Ji Ph.D Candidate Department of Physics University of California, Santa Barbara http://physics.ucsb.edu/~suoqing

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Volume Rendering
by Hilary Egan 19 May '17

19 May '17

Hi all, I'm trying to use the volume renderer right now, but I'm not getting the results I'm expecting. I'm trying to plot two fields at once by adding them independently as VolumeSources, but when I render the image they seem flipped relative to one another on the x-axis. Everything seems fine when I plot the fields as slices, so it's something going on in how I'm doing the volume rendering. Here's a script that shows what I'm talking about ( https://pastebin.com/ci3u68C9) and the corresponding output ( http://imgur.com/a/JeFkN). I'm using yt version 3.3.5, installed via pip. Does anyone have any insight? Hopefully I'm just misunderstanding how the volume renderer works- it's been awhile since I've used it! Thanks, -- Hilary Egan Astrophysical and Planetary Science Department University of Colorado Boulder

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Re: [yt-users] calculate the Mdot in yt.
by Kazem Ardaneh 19 May '17

19 May '17

Hi Nathan, Could you kindly let me know how do you define: 1. sphere (sph object), 2. surface (Surface structure) It seems me you defined in code unit. Best Regards, kazem

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Inspecting gradient of a field at boundary
by tazkera haque 19 May '17

19 May '17

Hi people, I am trying to define curl of a vector field in yt, but first I needed to see if correct derivatives are taken at the boundary. I am starting with a mock data set and followed yt tutorial: import yt from yt import YTArray import numpy as np posx = np.linspace(-1.0,1.0,12) posy = np.linspace(-1.0,1.0,12) posz = np.linspace(-1.0,1.0,12) X, Y, Z = np.meshgrid(posx, posy, posz, indexing='ij') # From gradient output, yt seems to use ij indexing psi = X data_dict = {"psi":(psi,'kg/cm**3'), "number_of_particles":12, "particle_position_x":(posx, 'kg/cm**3'), "particle_position_y":(posy, 'kg/cm**3'), "particle_position_z":(posz, 'kg/cm**3')} bbox = np.array([[-1.0, 1.0], [-1.0, 1.0], [-1.0, 1.0]]) y = yt.load_uniform_grid(data_dict,domain_dimensions=(12,12,12),bbox=bbox) grad_fields = y.add_gradient_fields(("stream","psi")) ad = y.all_data() print( ad["psi_gradient_x"] ) print( ad["psi_gradient_y"] ) print( ad["psi_gradient_z"] ) Output: yt : [INFO ] 2017-05-17 19:40:16,410 Parameters: current_time = 0.0 yt : [INFO ] 2017-05-17 19:40:16,410 Parameters: domain_dimensions = [12 12 12] yt : [INFO ] 2017-05-17 19:40:16,411 Parameters: domain_left_edge = [-1. -1. -1.] yt : [INFO ] 2017-05-17 19:40:16,411 Parameters: domain_right_edge = [ 1. 1. 1.] yt : [INFO ] 2017-05-17 19:40:16,412 Parameters: cosmological_simulation = 0.0 [-5.45454545 -5.45454545 -5.45454545 ..., -5.45454545 -5.45454545 -5.45454545] kg/cm**4 [ 0. 0. 0. ..., 0. 0. 0.] kg/cm**4 [ 0. 0. 0. ..., 0. 0. 0.] kg/cm**4 Now my question is, since psi(x,y,z) = x, the gradient should be (1,0,0)...and it is everywhere except the boundaries of the box. Can you please explain to me what is going wrong here? I don't think YT is interpreting the bbox and grid points as I am. Best

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calculate the Mdot in yt.
by Kazem Ardaneh 19 May '17

19 May '17

Dear All, I have a question about calculating the Mdot in yt. I tried to set some concentric spheres shells with deferent radius and calculate the mdot through them.==>> Mdot vs R I used an object in yt as: surf = ds.surface(sph,"radius",r) where sph = ds.sphere(cmax, (2, "kpc")) and r is radius of each shell. After that I used: flux = surf.calculate_flux("x-velocity","y-velocity","z-velocity","density") which calculate the flux density, Mdot. However it gives the mdot zero which is wrong. If I set the surfaces as the density iso surface, then I got the mdot as function of density, which it work. However, as a function of radius it fives zero. Does anyone has idea about this issue? how to fix it? Best Regards, kazem

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Why the two figures have different resolutions?
by bazhaoyu_sjtu 18 May '17

18 May '17

Hi yt-users: I want to ask you a question about the figures' resolution, I handled Gadget file -- hdf5. I used the 'ProjectionPlot' to plot the surface brightness map which is integrated along the 'z' axis, please see the figure 1; And I plot another surface brightness map by 'OffAxisProjectionPlot' with the normal_vector is [0, 0, 1], please see the figure 2. # I can't upload attachments ??? # Comparing two figures, we can find the structures of them is same, but the resolution is different! The 'OffAxisProjectionPlot' is obviously worse than 'ProjectionPlot', I don't know why! Below are the process I created two figures: ====================================================================== import yt import numpy as np import yt.units as units import pylab fname = "snap_206.hdf5" unit_base = {'UnitLength_in_cm' : 3.08568e+21, 'UnitMass_in_g' : 1.989e+43, 'UnitVelocity_in_cm_per_s' : 100000} bbox_lim = 1e5 # kpc bbox = [[-bbox_lim,bbox_lim], [-bbox_lim,bbox_lim], [-bbox_lim,bbox_lim]] ds = yt.load(fname,unit_base=unit_base,bounding_box=bbox) ds.index ad= ds.all_data() ## For 'ProjectionPlot' ## pz = yt.ProjectionPlot(ds, 'z', ('gas', 'surface_brightness'), 'max', width=(0.4,'Mpc')) ## For 'OffAxisProjectionPlot' ## L = [0,0,1] north_vector = [0,1,0] pz = yt.OffAxisProjectionPlot(ds, L, ('gas', 'surface_brightness'), 'max', north_vector = north_vector, width=(0.4,'Mpc')) pz.set_buff_size((3200,3200)) pz.save() ========================================================================= What can i do to fix this difference of resolution between two plot ways? Thanks a lot! Regards, Dan ================================== Department of Physics, Shanghai Jiao Tong University 800 Dongchuan Road, Minhang, Shanghai 200240, PRC E-mail : hudan_bazhaoyu(a)163.com hudan_bazhaoyu(a)sjtu.edu.cn ==================================

3 8

Inspecting gradient of a field with yt, error in boundary values
by tazkera haque 17 May '17

17 May '17

Hi people, I am trying to define curl of a vector field in yt, but first I needed to see if correct derivatives are taken at the boundary. I am starting with a mock data set and followed yt tutorial: import yt from yt import YTArray import numpy as np posx = np.linspace(-1.0,1.0,12) posy = np.linspace(-1.0,1.0,12) posz = np.linspace(-1.0,1.0,12) X, Y, Z = np.meshgrid(posx, posy, posz, indexing='ij') # From gradient output, yt seems to use ij indexing psi = X data_dict = {"psi":(psi,'kg/cm**3'), "number_of_particles":12, "particle_position_x":(posx, 'kg/cm**3'), "particle_position_y":(posy, 'kg/cm**3'), "particle_position_z":(posz, 'kg/cm**3')} bbox = np.array([[-1.0, 1.0], [-1.0, 1.0], [-1.0, 1.0]]) y = yt.load_uniform_grid(data_dict,domain_dimensions=(12,12,12),bbox=bbox) grad_fields = y.add_gradient_fields(("stream","psi")) ad = y.all_data() print( ad["psi_gradient_x"] ) print( ad["psi_gradient_y"] ) print( ad["psi_gradient_z"] ) Output: yt : [INFO ] 2017-05-17 19:40:16,410 Parameters: current_time = 0.0 yt : [INFO ] 2017-05-17 19:40:16,410 Parameters: domain_dimensions = [12 12 12] yt : [INFO ] 2017-05-17 19:40:16,411 Parameters: domain_left_edge = [-1. -1. -1.] yt : [INFO ] 2017-05-17 19:40:16,411 Parameters: domain_right_edge = [ 1. 1. 1.] yt : [INFO ] 2017-05-17 19:40:16,412 Parameters: cosmological_simulation = 0.0 [-5.45454545 -5.45454545 -5.45454545 ..., -5.45454545 -5.45454545 -5.45454545] kg/cm**4 [ 0. 0. 0. ..., 0. 0. 0.] kg/cm**4 [ 0. 0. 0. ..., 0. 0. 0.] kg/cm**4 Now my question is, since psi(x,y,z) = x, the gradient should be (1,0,0)...and it is everywhere except the boundaries of the box. Can you please explain to me what is going wrong here? I don't think YT is interpreting the bbox and grid points as I am. Best

1 0

ENZO build error
by Alankar Dutta 13 May '17

13 May '17

Hello yt-community, I was trying to build ENZO. I downloaded yt for Python 2 compiled all dependent libraries and activated yt with mercurial installed. when I issue make, I get the following error. I am also attaching my make.mach file I used. Alankar Updating DEPEND make: [Makefile:361: dep] Error 127 (ignored) make: [Makefile:362: dep] Error 127 (ignored) make: [Makefile:363: dep] Error 127 (ignored) make: [Makefile:364: dep] Error 127 (ignored) make: [Makefile:365: dep] Error 127 (ignored) make: [Makefile:366: dep] Error 127 (ignored) make: [Makefile:367: dep] Error 127 (ignored) Compiling enzo.C Compiling MHDLoopInit.C Compiling Grid_MHDLoopInitGrid.C Compiling acml_st1.F Compiling AdiabaticExpansionInitialize.C Compiling AdjustRefineRegion.C Compiling AdjustMustRefineParticlesRefineToLevel.C Compiling AMRH5writer.C Compiling AnalysisBaseClass.C Compiling AnalysisBaseClass_HDF5Utils.C Compiling arccosh.C Compiling arcsinh.C Compiling AssignGridToTaskMap.C Compiling auto_show_compile_options.C Compiling auto_show_config.C Compiling auto_show_flags.C Compiling auto_show_version.C Compiling BlockSolve.F Compiling calcdiss.F Compiling calc_dt.F Compiling calc_dt_c.c Compiling calc_eigen.F Compiling calc_photo_rates.F Compiling calc_rad.F Compiling calc_rates.F Compiling calc_tdust_1d.F Compiling calc_tdust_3d.F Compiling CalcEmiss.C Compiling CheckEmissivity.C Compiling ClearEmissivity.C Compiling CalculateSubtractionParameters.C Compiling CallProblemSpecificRoutines.C Compiling CallPython.C Compiling CheckEnergyConservation.C Compiling CheckForOutput.C Compiling CheckForResubmit.C Compiling CheckForTimeAction.C Compiling CheckShearingBoundaryConsistency.C Compiling chtable.F Compiling cic_deposit.F Compiling cic_deposit_c.c Compiling cic_flag.F Compiling cic_flag_c.c Compiling cic_interp.F Compiling cic_interp_c.c Compiling cicinterp.F Compiling cie_thin_cooling_rate.F Compiling cluster_maker.F Compiling ClusterInitialize.C Compiling ClusterSMBHSumGasMass.C Compiling c_message.C Compiling colh2diss.F Compiling CollapseTestInitialize.C Compiling coll_rates.F Compiling CommunicationBroadcastValue.C Compiling CommunicationBufferedSend.C Compiling CommunicationCombineGrids.C Compiling CommunicationCollectParticles.C Compiling CommunicationInitialize.C Compiling CommunicationLoadBalanceRootGrids.C Compiling CommunicationLoadBalanceGrids.C Compiling CommunicationMergeStarParticle.C Compiling CommunicationParallelFFT.C Compiling CommunicationPartitionGrid.C Compiling CommunicationReceiveFluxes.C Compiling CommunicationReceiveHandler.C Compiling CommunicationSendFluxes.C Compiling CommunicationShareGrids.C Compiling CommunicationShareParticles.C Compiling CommunicationShareStars.C Compiling CommunicationSyncNumberOfParticles.C Compiling CommunicationTransferParticlesOpt.C Compiling CommunicationTransferStarsOpt.C Compiling CommunicationTransferSubgridParticles.C Compiling CommunicationTranspose.C Compiling CommunicationUpdateStarParticleCount.C Compiling CommunicationUtilities.C Compiling ConductionBubbleInitialize.C Compiling ConductionCloudInitialize.C Compiling ConductionTestInitialize.C Compiling comp_accel.F Compiling ComputePotentialFieldLevelZero.C Compiling ComputeRandomForcingNormalization.C Compiling ComputeTable.C Compiling Continue.C Compiling cool1d_cloudy.F Compiling cool1d_koyama.F Compiling cool1d_multi.F Compiling cool1d_sep.F Compiling cool1d.F Compiling cool_multi_lum.F Compiling cool_multi_time.F Compiling cool_time.F Compiling CoolingTestInitialize.C Compiling CopyParticlesAcrossPeriodicBoundaries.C Compiling CopyOverlappingParticleMassFields.C Compiling CopyOverlappingZones.C Compiling CopyZonesFromOldGrids.C Compiling CosmoIonizationInitialize.C Compiling CosmologyComputeExpansionFactor.C Compiling CosmologyComputeExpansionTimestep.C Compiling CosmologyComputeTimeFromRedshift.C Compiling CosmologyGetUnits.C Compiling CosmologyReadParameters.C Compiling CosmologySimulationInitialize.C Compiling CosmologyWriteParameters.C Compiling cray_x1_fft64.F Compiling cray_x1_st1_fft64.F Compiling CreateSiblingList.C Compiling CreateSmoothedDarkMatterFields.C Compiling CreateSUBlingList.C Compiling CreateFluxes.C Compiling CRShockTubesInitialize.C Compiling InitializeFluxes.C Compiling DeleteFluxes.C Compiling DeleteSUBlingList.C Compiling DepositBaryons.C Compiling DepositParticleMassField.C Compiling DepositParticleMassFlaggingField.C Compiling DetermineNumberOfNodes.C Compiling DetermineParallelism.C Compiling DetermineSubgridSizeExtrema.C Compiling DoubleMachInitialize.C Compiling E_ColumnFormat.C Compiling ealFloat.C Compiling ealInt.C Compiling Enzo_Dims_create.C Compiling EnzoVector.C Compiling EnzoVector_Exchange.C Compiling EnzoVector_ExchangeStart.C Compiling EnzoVector_ExchangeEnd.C Compiling EnzoVector_test.C Compiling euler.F Compiling EvolveHierarchy.C Compiling EventHooks.C Compiling execinfo_local.c Compiling expand_terms.F Compiling expand_mhd_terms.F Compiling ExternalBoundary_AddField.C Compiling ExposeDataHierarchy.C Compiling ExposeGridHierarchy.C Compiling ExternalBoundary_AppendForcingToBaryonFields.C Compiling ExternalBoundary_constructor.C Compiling ExternalBoundary_DetachForcingFromBaryonFields.C Compiling ExternalBoundary_DeleteObsoleteFields.C Compiling ExternalBoundary_IdentifyPhysicalQuantities.C Compiling ExternalBoundary_InitializeExternalBoundaryFaceIO.C Compiling ExternalBoundary_Prepare.C Compiling ExternalBoundary_ReadExternalBoundary.C Compiling ExternalBoundary_SetDoubleMachBoundary.C Compiling ExternalBoundary_SetExternalBoundaryIO.C Compiling ExternalBoundary_SetExternalBoundaryParticles.C Compiling ExternalBoundary_SetShockPoolBoundary.C Compiling ExternalBoundary_SetGalaxySimulationBoundary.C Compiling ExternalBoundary_SetWavePoolBoundary.C Compiling ExternalBoundary_SetWengenCollidingFlowBoundary.C Compiling ExternalBoundary_WriteExternalBoundary.C Compiling ExtraOutput.C Compiling ExtractSection.C Compiling FastFourierTransform.C Compiling FastFourierTransformPrepareComplex.C Compiling FastFourierTransformSGIMATH.C Compiling EvolveLevel.C Compiling FastSiblingLocatorFinalize.C Compiling FastSiblingLocatorInitialize.C Compiling FastSiblingLocatorInitializeStaticChainingMesh.C Compiling feedback_formulae.F Compiling fft66.F Compiling fft90.F90 Compiling ffte4X.F90 Compiling ffte_st1.F90 Compiling fft_utils.F Compiling FinalizeFluxes.C Compiling FindCube.C Compiling FindField.C Compiling FindSubgrids.C Compiling flow.C Compiling flux_hll.F Compiling flux_hllc.F Compiling flux_twoshock.F Compiling FOF.C Compiling FOF_allocate.C Compiling FOF_cmpfunc.C Compiling FOF_density.C Compiling FOF_Finalize.C Compiling FOF_forcetree.C Compiling FOF_iindexx.C Compiling FOF_indexx.C Compiling FOF_Initialize.C Compiling FOF_ngbtree.C Compiling FOF_nrutil.C Compiling FOF_potential.C Compiling FOF_properties.C Compiling FOF_selectb.C Compiling FOF_sort2_flt_int.C Compiling FOF_sort2_int.C Compiling FOF_sort_int.C Compiling FOF_subfind.C Compiling FOF_subgroups.C Compiling FOF_unbind.C Compiling fortio.F Compiling fourn.F Compiling FreeRealMem.c Compiling FreeExpansionInitialize.C Compiling FreezeRateData.C Compiling FriendOfFriend.C Compiling FSMultiSourceInitialize.C Compiling FSProb_ComputeOpacityLW.C Compiling FSProb_constructor.C Compiling FSProb_destructor.C Compiling FSProb_FInterface.C Compiling FSProb_EnforceBoundary.C Compiling FSProb_Evolve.C Compiling FSProb_Initialize.C Compiling FSProb_Dump.C Compiling FSProb_InitialGuess.F90 Compiling FSProb_SetupSystem.F90 Compiling FSProb_WriteParameters.C Compiling FSProb_RadiationSource.F90 Compiling FSProb_SetupBoundary.C Compiling F_ColumnFormat.C Compiling f_message.F Compiling Gadget.C Compiling GadgetInitCoolMemory.C Compiling GadgetIonizeParamsTable.C Compiling GadgetMakeCoolingTable.C Compiling GadgetReadIonizeParams.C Compiling GalaxySimulationInitialize.C Compiling GenerateGridArray.C Compiling GetNodeFreeMemory.C Compiling GetUnits.C Compiling gFLDProblem_AnalyticalEqns.F90 Compiling gFLDProblem_ChemistrySource.F90 Compiling gFLDProblem_ComputeRHS.C Compiling gFLDProblem_ComputeRadiationIntegrals.C Compiling gFLDProblem_ComputeTemperature.C Compiling gFLDProblem_ComputeTimeStep.C Compiling gFLDProblem_constructor.C Compiling gFLDProblem_CrossSections.C Compiling gFLDProblem_destructor.C Compiling gFLDProblem_DiffRHS.F90 Compiling gFLDProblem_Dump.C Compiling gFLDProblem_EnforceBoundary.C Compiling gFLDProblem_Evolve.C Compiling gFLDProblem_FInterface.C Compiling gFLDProblem_GasEnergySource.F90 Compiling gFLDProblem_InitialGuess.C Compiling gFLDProblem_Initialize.C Compiling gFLDProblem_LocalJac.F90 Compiling gFLDProblem_LocalRHS.F90 Compiling gFLDProblem_LocRHS.C Compiling gFLDProblem_lsetup.C Compiling gFLDProblem_lsolve.C Compiling gFLDProblem_MatrixEntries.F90 Compiling gFLDProblem_nlresid.C Compiling gFLDProblem_Opacity.F90 Compiling gFLDProblem_RadiationSource.F90 Compiling gFLDProblem_RadiationSpectrum.C Compiling gFLDProblem_SetNewtonBCs.F90 Compiling gFLDProblem_SetupBoundary.C Compiling gFLDProblem_UpdateBoundary.C Compiling gFLDProblem_WriteParameters.C Compiling gFLDSplit_AnalyticChemistry.F90 Compiling gFLDSplit_ChemistrySource.F90 Compiling gFLDSplit_ComputeRadiationIntegrals.C Compiling gFLDSplit_ComputeTemperature.C Compiling gFLDSplit_ComputeTimeStep.C Compiling gFLDSplit_constructor.C Compiling gFLDSplit_CrossSections.C Compiling gFLDSplit_destructor.C Compiling gFLDSplit_Dump.C Compiling gFLDSplit_EnforceBoundary.C Compiling gFLDSplit_Evolve.C Compiling gFLDSplit_FInterface.C Compiling gFLDSplit_FillRates.C Compiling gFLDSplit_GasEnergySource.F90 Compiling gFLDSplit_InitialGuess.C Compiling gFLDSplit_Initialize.C Compiling gFLDSplit_Opacity.F90 Compiling gFLDSplit_RadiationSource.F90 Compiling gFLDSplit_RadiationSpectrum.C Compiling gFLDSplit_SetupBoundary.C Compiling gFLDSplit_SetupSystem.F90 Compiling gFLDSplit_WriteParameters.C Compiling GravityEquilibriumTestInitialize.C Compiling Grid_AccelerationBoundaryRoutines.C Compiling Grid_AccessBaryonFields.C Compiling Grid_AddBaryonsToGravitatingMassField.C Compiling Grid_AddExternalAcceleration.C Compiling Grid_AddExternalPotentialField.C Compiling Grid_AddFeedbackSphere.C Compiling Grid_AddFieldMassToMassFlaggingField.C Compiling Grid_AddFields.C Compiling Grid_AddOneParticleFromList.C Compiling Grid_AddOverlappingParticleMassField.C Compiling Grid_AddParticlesFromList.C Compiling Grid_AddRandomForcing.C Compiling Grid_AddToBoundaryFluxes.C Compiling Grid_AllocateGrids.C Compiling Grid_AnalyzeTrackPeaks.C Compiling Grid_AppendForcingToBaryonFields.C Compiling Grid_ApplyTimeAction.C Compiling Grid_CalculateAngularMomentum.C Compiling Grid_ChangeParticleTypeBeforeSN.C Compiling Grid_CheckForExternalReflections.C Compiling Grid_CheckForOverlap.C Compiling Grid_CheckForPossibleOverlap.C Compiling Grid_CheckForSharedFace.C Compiling grid_cic.F Compiling grid_ngp.F Compiling Grid_CleanUpMovedParticles.C Compiling Grid_CleanUp.C Compiling Grid_ClearBoundaryFluxes.C Compiling Grid_ClearFlaggingField.C Compiling Grid_ClearGravitatingMassField.C Compiling Grid_ClearGravitatingMassFieldParticles.C Compiling Grid_ClearMassFlaggingField.C Compiling Grid_ClearParticleAccelerations.C Compiling Grid_ClearParticleMassFlaggingField.C Compiling Grid_ClusterInitializeGrid.C Compiling Grid_ClusterSMBHFeedback.C Compiling Grid_ClusterSMBHEachGridGasMass.C Compiling Grid_CollapseTestInitializeGrid.C Compiling Grid_CollectGridInformation.C Compiling Grid_CollectParticles.C Compiling Grid_CollectParticleMassFlaggingField.C Compiling Grid_CollectStars.C Compiling Grid_CommunicationMoveGrid.C Compiling Grid_CommunicationReceiveRegion.C Compiling Grid_CommunicationSendParticles.C Compiling Grid_CommunicationSendStars.C Compiling Grid_CommunicationSendRegion.C Compiling Grid_CommunicationTransferParticlesOpt.C Compiling Grid_CommunicationTransferStarsOpt.C Compiling Grid_ComovingExpansionTerms.C Compiling Grid_ComovingGravitySourceTerm.C Compiling Grid_ComputeAccelerationFieldExternal.C Compiling Grid_ComputeAccelerationField.C Compiling Grid_ComputeAccelerations.C Compiling Grid_ComputeAccelerationsFromExternalPotential.C Compiling Grid_ComputeCellCenteredField.C Compiling Grid_ComputeConductionTimeStep.C Compiling Grid_ComputeCoolingTime.C Compiling Grid_ComputeCRDiffusion.C Compiling Grid_ComputeCRDiffusionTimeStep.C Compiling Grid_ComputeDustTemperatureField.C Compiling Grid_ComputeElementalDensity.C Compiling Grid_ComputeEnergy.C Compiling Grid_ComputeExternalNohBoundary.C Compiling Grid_ComputeGammaField.C Compiling Grid_ComputeHeat.C Compiling Grid_ComputeLuminosity.C Compiling Grid_ComputeMetalLineLuminosity.C Compiling Grid_ComputeOneZoneCollapseFactor.C Compiling Grid_ComputePressure.C Compiling Grid_ComputeRandomForcingFields.C Compiling Grid_ComputeTemperatureField.C Compiling Grid_ComputeTimeStep.C Compiling Grid_ComputeVectorAnalysisFields.C Compiling Grid_ComputeVertexCenteredField.C Compiling Grid_ComputeXrayEmissivity.C Compiling Grid_ConductHeat.C Compiling Grid_ConductionBubbleInitialize.C Compiling Grid_ConductionCloudInitialize.C Compiling Grid_ConductionTestInitialize.C Compiling Grid_constructor.C Compiling Grid_ConvertTotalEnergyToGasEnergy.C Compiling Grid_ConvertToNumpy.C Compiling Grid_CoolingTestResetEnergies.C Compiling Grid_CoolingTestInitializeGrid.C Compiling Grid_CopyBaryonFieldToOldBaryonField.C Compiling Grid_CopyOverlappingMassField.C Compiling Grid_CopyParentToGravitatingFieldBoundary.C Compiling Grid_CopyPotentialField.C Compiling Grid_CopyPotentialToBaryonField.C Compiling Grid_CopyZonesFromGridCountOnly.C Compiling Grid_CopyZonesFromGrid.C Compiling Grid_CorrectForRefinedFluxes.C Compiling Grid_CosmoIonizationInitializeGrid.C Compiling Grid_CosmologyInitializeParticles.C Compiling Grid_CosmologySimulationInitializeGrid.C Compiling Grid_CreateChildParticles.C Compiling Grid_CreateFieldArray.C Compiling Grid_CreateParticleTypeGrouping.C Compiling Grid_CRShockTubesInitializeGrid.C Compiling Grid_DebugCheck.C Compiling Grid_DeleteAllButParticles.C Compiling Grid_DeleteAllFields.C Compiling Grid_DeleteBaryonFields.C Compiling Grid_DeleteFlaggingField.C Compiling Grid_DeleteObsoleteFields.C Compiling Grid_DepositBaryons.C Compiling Grid_DepositMustRefineParticles.C Compiling Grid_DepositParticlePositions.C Compiling Grid_DepositParticlePositionsLocal.C Compiling Grid_DepositPositions.C Compiling Grid_destructor.C Compiling Grid_DetachForcingFromBaryonFields.C Compiling Grid_DoubleMachInitializeGrid.C Compiling Grid_FastSiblingLocatorAddGrid.C Compiling Grid_FastSiblingLocatorFindSiblings.C Compiling Grid_FindAllStarParticles.C Compiling Grid_FindMassiveParticles.C Compiling Grid_FindMinimumParticleMass.C Compiling Grid_FindNewStarParticles.C Compiling Grid_FindShocks.C Compiling Grid_FinishFFT.C Compiling Grid_FlagBufferZones.C Compiling Grid_FlagCellsToAvoidRefinement.C Compiling Grid_FlagCellsToAvoidRefinementRegion.C Compiling Grid_FlagCellsToBeRefinedByCoolingTime.C Compiling Grid_FlagCellsToBeRefinedByJeansLength.C Compiling Grid_FlagCellsToBeRefinedByTotalJeansLength.C Compiling Grid_FlagCellsToBeRefinedByMass.C Compiling Grid_FlagCellsToBeRefinedByMetallicity.C Compiling Grid_FlagCellsToBeRefinedByMetalMass.C Compiling Grid_FlagCellsToBeRefinedByMustRefineRegion.C Compiling Grid_FlagCellsToBeRefinedByResistiveLength.C Compiling Grid_FlagCellsToBeRefinedByShear.C Compiling Grid_FlagCellsToBeRefinedByShocks.C Compiling Grid_FlagCellsToBeRefinedByShockwaves.C Compiling Grid_FlagCellsToBeRefinedBySlope.C Compiling Grid_FlagCellsToBeRefinedBySecondDerivative.C Compiling Grid_FlagRefinedCells.C Compiling Grid_FlagGridArray.C Compiling Grid_FreeExpansionInitializeGrid.C Compiling Grid_FSMultiSourceInitializeGrid.C Compiling Grid_GadgetCalculateCooling.C Compiling Grid_GadgetComputeTemperatureDEF.C Compiling Grid_GadgetComputeTemperature.C Compiling Grid_Gadgetconvertutotemp.C Compiling Grid_GadgetCoolingRate.C Compiling Grid_GadgetCoolingRateFromU.C Compiling Grid_GadgetCoolingTime.C Compiling Grid_Gadgetfindabundancesandrates.C Compiling Grid_GadgetEquilibriumCooling.C Compiling Grid_GalaxySimulationInitializeGrid.C Compiling Grid_GetEnclosedMass.C Compiling Grid_GetEnclosedMassInShell.C Compiling Grid_GetProjectedBoundaryFluxes.C Compiling Grid_GrackleWrapper.C Compiling Grid_GravityEquilibriumTestInitializeGrid.C Compiling Grid_Group_WriteGridInterpolate.C Compiling Grid_Group_WriteGrid.C Compiling Grid_Group_ReadGrid.C Compiling New_Grid_WriteGrid.C Compiling New_Grid_ReadGrid.C Compiling Grid_IdentifyColourFields.C Compiling Grid_HydroShockTubesInitializeGrid.C Compiling Grid_IdentifyShockSpeciesFields.C Compiling Grid_IdentifyGloverSpeciesFields.C Compiling Grid_IdentifyNewSubgrids.C Compiling Grid_IdentifyNewSubgridsSmall.C Compiling Grid_IdentifyPhysicalQuantities.C Compiling Grid_IdentifyRadiativeTransferFields.C Compiling Grid_IdentifySpeciesFields.C Compiling Grid_ImplosionInitializeGrid.C Compiling Grid_InheritProperties.C Compiling Grid_InitializeGravitatingMassField.C Compiling Grid_InitializeGravitatingMassFieldParticles.C Compiling Grid_InitializeUniformGrid.C Compiling Grid_InterpolateAccelerations.C Compiling Grid_InterpolateBoundaryFromParent.C Compiling Grid_InterpolateFieldValues.C Compiling Grid_InterpolateParticlePositions.C Compiling Grid_InterpolateParticlesToGrid.C Compiling Grid_InterpolatePositions.C Compiling Grid_InterpolateStarParticlesToGrid.C Compiling Grid_KHInitializeGrid.C Compiling Grid_KHInitializeGridRamp.C Compiling Grid_MagneticFieldResetter.C Compiling Grid_MirrorStarParticles.C Compiling Grid_MoveAllParticles.C Compiling Grid_MoveAllStars.C Compiling Grid_MoveParticlesFOF.C Compiling Grid_MoveSubgridParticlesFast.C Compiling Grid_MoveSubgridParticles.C Compiling Grid_MoveSubgridStars.C Compiling Grid_MultiSpeciesHandler.C Compiling Grid_MustRefineParticlesFlagFromList.C Compiling Grid_MustRefineParticlesFlagInRegion.C Compiling Grid_NestedCosmologySimulationInitializeGrid.C Compiling Grid_NohInitializeGrid.C Compiling Grid_OneZoneFreefallTestInitializeGrid.C Compiling Grid_OutputAsParticleData.C Compiling Grid_OutputStarParticleInformation.C Compiling Grid_ParticleSplitter.C Compiling Grid_PoissonSolver.C Compiling Grid_PoissonSolverCGA.C Compiling Grid_PoissonSolverTestInitializeGrid.C Compiling Grid_PrepareBoundaryFluxes.C Compiling Grid_PrepareFFT.C Compiling Grid_PrepareGreensFunction.C Compiling Grid_PrepareGridDerivedQuantities.C Compiling Grid_PrepareGrid.C Compiling Grid_PreparePeriodicGreensFunction.C Compiling Grid_PreparePotentialField.C Compiling Grid_PrepareRandomForcingNormalization.C Compiling Grid_PressurelessCollapseInitialize.C Compiling Grid_ProjectSolutionToParentGrid.C Compiling Grid_ProjectToPlane.C Compiling Grid_ProjectToPlane2.C Compiling Grid_ProtostellarCollapseInitializeGrid.C Compiling Grid_PutSinkRestartInitialize.C Compiling Grid_RadHydroConstTestInitializeGrid.C Compiling Grid_RadHydroGreyMarshakWaveInitializeGrid.C Compiling Grid_RadHydroPulseTestInitializeGrid.C Compiling Grid_RadHydroRadShockInitializeGrid.C Compiling Grid_RadHydroStreamTestInitializeGrid.C Compiling Grid_RadiationComputeDensities.C Compiling Grid_RadiatingShockInitializeGrid.C Compiling Grid_ReadGrid.C Compiling Grid_CosmologyReadParticles3D.C Compiling Grid_ReadHierarchyInformationHDF5.C Compiling Grid_ReadRandomForcingFields.C Compiling Grid_RemoveForcingFromBaryonFields.C Compiling Grid_RemoveParticle.C Compiling Grid_RestoreEnergyConsistency.C Compiling Grid_ReturnFluxDims.C Compiling Grid_ReturnGridInfo.C Compiling Grid_ReturnNumberOfStarParticles.C Compiling Grid_ReturnParticleEntry.C Compiling Grid_ReturnStarStatistics.C Compiling Grid_RHIonizationClumpInitializeGrid.C Compiling Grid_RHIonizationSteepInitializeGrid.C Compiling Grid_RHIonizationTestInitializeGrid.C Compiling Grid_RotatingCylinderInitialize.C Compiling Grid_RotatingDiskInitializeGrid.C Compiling Grid_RotatingSphereInitialize.C Compiling Grid_SedovBlastInitializeGrid.C Compiling Grid_SedovBlastInitializeGrid3D.C Compiling Grid_SetExternalBoundaryValues.C Compiling Grid_SetFlaggingField.C Compiling Grid_SetFlaggingFieldMultiRefineRegions.C Compiling Grid_SetFlaggingFieldStaticRegions.C Compiling Grid_SetIsolatedPotentialBoundary.C Compiling Grid_SetMinimumSupport.C Compiling Grid_SetNewParticleIndex.C Compiling Grid_SetParticleMassFlaggingField.C Compiling Grid_ShearingBoxInitializeGrid.C Compiling Grid_ShearingBox2DInitializeGrid.C Compiling Grid_ShearingBoxStratifiedInitializeGrid.C Compiling Grid_ShocksHandler.C Compiling Grid_SolveForPotential.C Compiling Grid_SolveHydroEquations.C Compiling Grid_SolveOneZoneFreefall.C Compiling Grid_SolveMHD_Li.C Compiling Grid_SolvePPM_DE.C Compiling Grid_SolveRadiativeCooling.C Compiling Grid_SolveRateAndCoolEquations.C Compiling Grid_SolveRateEquations.C Compiling Grid_SortParticlesByNumber.C Compiling Grid_SortParticlesByType.C Compiling Grid_SphericalInfallGetProfile.C Compiling Grid_SphericalInfallInitializeGrid.C Compiling Grid_StarParticleHandler.C Compiling Grid_StratifiedMediumExplosionInitialize.C Compiling Grid_SupernovaRestartInitialize.C Compiling Grid_SubtractAccretedMassFromSphere.C Compiling Grid_TestGravityCheckResults.C Compiling Grid_TestGravityInitializeGrid.C Compiling Grid_TestGravityMotionInitializeGrid.C Compiling Grid_TestGravitySphereCheckResults.C Compiling Grid_TestGravitySphereInitializeGrid.C Compiling Grid_TestOrbitInitializeGrid.C Compiling Grid_TestStarParticleInitializeGrid.C Compiling Grid_TracerParticleCreateParticles.C Compiling Grid_TracerParticleOutputData.C Compiling Grid_TracerParticleSetVelocity.C Compiling Grid_TransferSubgridParticles.C Compiling Grid_TransferSubgridStars.C Compiling Grid_TurbulenceSimulationInitialize.C Compiling Grid_UpdateParticlePosition.C Compiling Grid_UpdateParticleVelocity.C Compiling Grid_UpdateStarParticles.C Compiling Grid_WriteCubeInterpolate.C Compiling Grid_WriteCube.C Compiling Grid_WriteGridInterpolate.C Compiling Grid_WriteGrid.C Compiling Grid_WriteGridX.C Compiling Grid_WriteHierarchyInformationHDF5.C Compiling Grid_WriteMemoryMap.C Compiling Grid_WriteNewMovieData.C Compiling Grid_WriteNewMovieDataSeparateParticles.C Compiling Grid_WriteStuff.C Compiling Grid_WriteTaskMap.C Compiling Grid_ZeldovichPancakeInitializeGrid.C Compiling Grid_ZeroSolutionUnderSubgrid.C Compiling Grid_ZeusSolver.C Compiling Grid_xEulerSweep.C Compiling Grid_yEulerSweep.C Compiling Grid_zEulerSweep.C Compiling Group_ReadAllData.C Compiling Group_ReadDataHierarchy.C Compiling Group_WriteAllData.C Compiling Group_WriteDataHierarchy.C Compiling h5utilities.C Compiling HilbertCurve3D.C Compiling Hierarchy_DeleteHierarchyEntry.C Compiling HydroShockTubesInitialize.C Compiling ibm_fft64.F Compiling ibm_st1_fft64.F Compiling I_ColumnFormat.C Compiling IdentifyNewSubgridsBySignature.C Compiling ImplosionInitialize.C Compiling InexactNewton.C Compiling InexactNewton_constructor.C 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KHInitialize.C Compiling LevelHierarchy_AddLevel.C Compiling lgrg.F Compiling ListIO.C Compiling LoadBalanceHilbertCurve.C Compiling LoadBalanceHilbertCurveRootGrids.C Compiling LoadBalanceSimulatedAnnealing.C Compiling MagneticFieldResetter.C Compiling mbh_maker.C Compiling mcooling.F Compiling MakeFieldConservative.C Compiling MemoryAllocationRoutines.C Compiling MemoryPoolRoutines.C Compiling MersenneTwister.C Compiling mg_calc_defect.F Compiling mg_prolong2.F Compiling mg_prolong.F Compiling mg_relax.F Compiling mg_restrict.F Compiling mkl_st1.F90 Compiling Mpich_V1_Dims_create.c Compiling multi_cool.F Compiling MultigridSolver.C Compiling mused.C Compiling NestedCosmologySimulationInitialize.C Compiling ngpinterp.F Compiling ngp_deposit.F Compiling ngp_deposit_c.c Compiling NohInitialize.C Compiling nr_1d.F90 Compiling nr_2d.F90 Compiling nr_3d.F90 Compiling nr_st1.F90 Compiling NullProblem.C Compiling OneZoneFreefallTestInitialize.C Compiling OutputAsParticleData.C Compiling OutputCoolingTimeOnly.C Compiling OutputDustTemperatureOnly.C Compiling OutputFromEvolveLevel.C Compiling OutputLevelInformation.C Compiling OutputPotentialFieldOnly.C Compiling OutputSmoothedDarkMatterOnly.C Compiling P_ColumnFormat.C Compiling ParticleMergeRoutines.C Compiling ParticleSplitter.C Compiling performance.C Compiling pgas2d_dual.F Compiling pgas2d.F Compiling PoissonSolverTestInitialize.C Compiling pop3_color_maker.F Compiling pop3_color_maker_c.c Compiling pop3_maker.F Compiling pop3_properties.F Compiling power_of_2.F Compiling prefort2.F Compiling PrepareDensityField.C Compiling PrepareGravitatingMassField.C Compiling PrepareIsolatedGreensFunction.C Compiling PressurelessCollapseInitialize.C Compiling ProblemType.C Compiling ProblemType_RotatingCylinder.C Compiling ProblemType_CollapsingCoolingCloud.C Compiling ProblemType_ExplodingCloud.C Compiling ProblemType_MagneticReconnection.C Compiling ProblemType_AgoraRestart.C Compiling ProcMap.C Compiling project.F Compiling projectbool.F Compiling ProjectToPlane.C Compiling ProjectToPlane2.C Compiling projplane.F Compiling prolong.F Compiling prolong_tsc.F Compiling ProtostellarCollapseInitialize.C Compiling ProtoSubgrid_AcceptableGrid.C Compiling ProtoSubgrid_CleanUp.C Compiling ProtoSubgrid_ComputeSecondDerivative.C Compiling ProtoSubgrid_ComputeSignature.C Compiling ProtoSubgrid_constructor.C Compiling ProtoSubgrid_CopyFlaggedZonesFromGrid.C Compiling ProtoSubgrid_CopyToNewSubgrid.C Compiling ProtoSubgrid_FindGridsByZeroSignature.C Compiling ProtoSubgrid_LargeAxisRatioCheck.C Compiling ProtoSubgrid_ReturnNthLongestDimension.C Compiling ProtoSubgrid_ShrinkToMinimumSize.C Compiling PutSinkRestartInitialize.C Compiling QuickSortAndDrag.C Compiling RadHydroConstTestInitialize.C Compiling RadHydroGreyMarshakWaveInitialize.C Compiling RadHydroPulseTestInitialize.C Compiling RadHydroRadShockInitialize.C Compiling RadHydroStreamTestInitialize.C Compiling RadiationGetUnits.C Compiling RadiatingShockInitialize.C Compiling RadiationFieldCalculateRates.C Compiling RadiationFieldLymanWernerTable.C Compiling RadiationFieldUpdate.C Compiling ReadAllData.C Compiling ReadAttr.C Compiling ReadEvolveRefineFile.C Compiling read_bt.C Compiling read_bv.C Compiling ReadDataHierarchy.C Compiling ReadFile.C Compiling ReadGridFile.C Compiling ReadIntFile.C Compiling ReadMetalCoolingRates.C Compiling ReadMetalCoolingRatios.C Compiling ReadParameterFile.C Compiling ReadRadiationData.C Compiling ReadStarParticleData.C Compiling ReadUnits.C Compiling RebuildHierarchy.C Compiling RecalibrateAccretingMass.C Compiling RecalibrateMBHFeedbackThermalRadius.C Compiling ReduceFragmentation.C Compiling Reduce_Times.C Compiling remap.F Compiling ReportMemoryUsage.C Compiling ReturnWallTime.C Compiling RHIonizationClumpInitialize.C Compiling RHIonizationSteepInitialize.C Compiling RHIonizationTestInitialize.C Compiling rotate2d.F Compiling rotate3d.F Compiling RotatingCylinderInitialize.C Compiling RotatingDiskInitialize.C Compiling RotatingSphereInitialize.C Compiling s66_st1.F90 Compiling s90_st1.F90 Compiling SearchUtilities.C Compiling SedovBlastInitialize.C Compiling select_fft.F90 Compiling SetBoundaryConditions.C Compiling SetDefaultGlobalValues.C Compiling SetLevelTimeStep.C Compiling SetEvolveRefineRegion.C Compiling sgi_st1_fft64.F90 Compiling ShearingBoxInitialize.C Compiling ShearingBox2DInitialize.C Compiling ShearingBoxStratifiedInitialize.C Compiling ShellSortAndDrag.C Compiling ShockInABoxInitialize.C Compiling ShockPoolInitialize.C Compiling sink_maker.C Compiling smooth_deposit.F Compiling smooth_deposit_c.c Compiling smooth.F Compiling solve_cool.F Compiling solve_rate.F Compiling solve_rate_cool.F Compiling SortCompareFunctions.C Compiling SphericalInfallInitialize.C Compiling StarListRoutines.C Compiling StarParticleAccretion.C Compiling StarParticleAddFeedback.C Compiling StarParticleCountOnly.C Compiling StarParticleDeath.C Compiling StarParticleFinalize.C Compiling StarParticleFindAll.C Compiling StarParticleInitialize.C Compiling StarParticleMergeNew.C Compiling StarParticleMergeMBH.C Compiling StarParticlePopIII_IMFInitialize.C Compiling StarParticleSetRefinementLevel.C Compiling StarParticleSubtractAccretedMass.C Compiling StarRoutines.C Compiling Star_Accrete.C Compiling Star_AccreteAngularMomentum.C Compiling Star_ActivateNewStar.C Compiling Star_ApplyFeedbackTrue.C Compiling Star_AssignAccretedAngularMomentum.C Compiling Star_AssignFinalMassFromIMF.C Compiling Star_CalculateFeedbackParameters.C Compiling Star_CalculateMassAccretion.C Compiling Star_CalculateMassLoss.C Compiling Star_ComputePhotonRates.C Compiling Star_DeleteCopyInGridGlobal.C Compiling Star_DeleteParticle.C Compiling Star_DisableParticle.C Compiling Star_FindFeedbackSphere.C Compiling Star_HitEndpoint.C Compiling Star_IsARadiationSource.C Compiling Star_MirrorToParticle.C Compiling Star_MultiplyAccretionRate.C Compiling Star_RemoveMassFromStarAfterFeedback.C Compiling Star_SetFeedbackFlag.C Compiling Star_SphereContained.C Compiling Star_SubtractAccretedMassFromCell.C Compiling star_feedback_pn_snia.F Compiling star_maker1.F Compiling star_maker2.F Compiling star_maker3mom.F Compiling star_maker3.F Compiling star_maker4.F Compiling star_maker5.F Compiling star_maker7.F Compiling star_maker8.C Compiling star_maker9.C Compiling star_maker10.F Compiling star_maker_h2reg.F Compiling star_maker_ssn.F Compiling StratifiedMediumExplosionInitialize.C Compiling SupernovaRestartInitialize.C Compiling SysMkdir.C Compiling TestGravityCheckResults.C Compiling TestGravityInitialize.C Compiling TestGravityMotion.C Compiling TestGravitySphereCheckResults.C Compiling TestGravitySphereInitialize.C Compiling TestOrbitInitialize.C Compiling TestStarParticleInitialize.C Compiling TracerParticleCreation.C Compiling TransposeRegionOverlap.C Compiling tscint1d.F Compiling tscint2d.F Compiling tscint3d.F Compiling TurbulenceSimulationInitialize.C Compiling turboinit.F Compiling twoshock.F Compiling UpdateFromFinerGrids.C Compiling UpdateLocalDatabase.C Compiling UpdateParticlePositions.C Compiling utilities.F Compiling uuid.C Compiling uuid/clear.c Compiling uuid/compare.c Compiling uuid/copy.c Compiling uuid/gen_uuid.c Compiling uuid/isnull.c Compiling uuid/pack.c Compiling uuid/parse.c Compiling uuid/unpack.c Compiling uuid/unparse.c Compiling uuid/uuid_time.c Compiling libconfig/grammar.c Compiling libconfig/libconfig.c Compiling libconfig/scanctx.c Compiling libconfig/scanner.c Compiling libconfig/strbuf.c Compiling wall_clock.c Compiling WavePoolInitialize.C Compiling wrapper1d.F90 Compiling wrapper2d.F90 Compiling wrapper3d.F90 Compiling WriteAllDataCubes.C Compiling WriteAllData.C Compiling write_bt.C Compiling write_bv.C Compiling WriteConfigure.C Compiling WriteDataCubes.C Compiling WriteDataHierarchy.C Compiling WriteHDF5HierarchyFile.C Compiling WriteMemoryMap.C Compiling WriteParameterFile.C Compiling WriteRadiationData.C Compiling WriteStarParticleData.C Compiling WriteStreamData.C Compiling WriteStringAttr.C Compiling WriteTaskMap.C Compiling WriteTracerParticleData.C Compiling WriteUnits.C Compiling ZeldovichPancakeInitialize.C Compiling ZeusUtilities.C Compiling ZeusSource.C Compiling Zeus_xTransport.C Compiling Zeus_yTransport.C Compiling Zeus_zTransport.C Compiling Grid_MHD_Diagnose.C Compiling Grid_MHDCTEnergyToggle.C Compiling MHDBlastInitialize.C Compiling Grid_MHDBlastInitializeGrid.C Compiling Grid_MHD_ProjectFace.C Compiling Grid_ClearAvgElectricField.C Compiling ExternalBoundary_SetMagneticBoundary.C Compiling mhd_dt.F Compiling Grid_MHD_UpdateMagneticField.C Compiling Grid_MHDOrszagTangInitGrid.C Compiling Grid_MHD_SetupDims.C Compiling MHDOrszagTangInit.C Compiling MHDCT_ParameterJuggle.C Compiling MHDCTSetupFieldLabels.C Compiling mhd_li.F Compiling mhd_li_ms.F Compiling Grid_CenterMagneticField.C Compiling Grid_ComputeElectricField.C Compiling Grid_MHD_Curl.C Compiling pde1dsolver_mhd.F Compiling 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CommunicationSyncNumberOfPhotons.C Compiling CommunicationTransferPhotons.C Compiling CreateSourceClusteringTree.C Compiling DeletePhotonPackage.C Compiling DeleteRadiationSource.C Compiling EvolvePhotons.C Compiling FindCrossSection.C Compiling FindRootGrid.C Compiling FindSuperSource.C Compiling FindSuperSourceByPosition.C Compiling FLDCorrectForImpulses.C Compiling Grid_AddH2Dissociation.C Compiling Grid_AddH2DissociationFromSources.C Compiling Grid_AddH2DissociationFromTree.C Compiling Grid_AddRadiationImpulse.C Compiling Grid_AddRadiationPressureAcceleration.C Compiling Grid_AllocateInterpolatedRadiation.C Compiling Grid_CheckSubgridMarker.C Compiling Grid_CommunicationSendPhotonPackages.C Compiling Grid_CommunicationSendSubgridMarker.C Compiling Grid_ComputePhotonTimestep.C Compiling Grid_ComputePhotonTimestepHII.C Compiling Grid_ComputePhotonTimestepTau.C Compiling Grid_ConvertToCellCenteredRadiation.C Compiling Grid_CorrectRadiationIncompleteness.C Compiling Grid_CreateEmissivityLW.C Compiling Grid_DeleteEmissivity.C Compiling Grid_DeletePhotonPackages.C Compiling Grid_DetectIonizationFrontApprox.C Compiling Grid_ElectronFractionEstimate.C Compiling Grid_ExtraFunction.C Compiling Grid_FinalizeRadiationFields.C Compiling Grid_FindPhotonNewGrid.C Compiling Grid_FlagCellsToBeRefinedByOpticalDepth.C Compiling Grid_IdentifyRadiationPressureFields.C Compiling Grid_InitializeRadiativeTransferFields.C Compiling Grid_InitializeSource.C Compiling Grid_InterpolateRadiationFromParent.C Compiling Grid_MergePausedPhotonPackages.C Compiling Grid_RegridPausedPhotonPackage.C Compiling Grid_MoveAllPhotonPackages.C Compiling Grid_PhotonPeriodicBoundary.C Compiling Grid_PhotonTestInitializeGrid.C Compiling Grid_PhotonTestRestartInitializeGrid.C Compiling Grid_PhotonSortLinkedLists.C Compiling Grid_ReassignSuperSources.C Compiling Grid_ReturnSubgridMarker.C Compiling Grid_SetSubgridMarkerFromParent.C Compiling Grid_SetSubgridMarkerFromSibling.C Compiling 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TemperatureFieldToolsForComptonHeating.C Compiling WritePhotonSources.C Compiling hydro_rk/ModifiedBesselFunctions.C Compiling hydro_rk/AGNDiskInitialize.C Compiling hydro_rk/Collapse1DInitialize.C Compiling hydro_rk/Collapse3DInitialize.C Compiling hydro_rk/ComputeDednerWaveSpeeds.C Compiling hydro_rk/EvolveLevel_RK2.C Compiling hydro_rk/GalaxyDiskInitialize.C Compiling hydro_rk/Grid_AddSelfGravity.C Compiling hydro_rk/Grid_AddViscosity.C Compiling hydro_rk/Grid_AGNDiskInitializeGrid.C Compiling hydro_rk/Grid_Collapse1DInitializeGrid.C Compiling hydro_rk/Grid_Collapse3DInitializeGrid.C Compiling hydro_rk/Grid_CopyOldBaryonFieldToBaryonField.C Compiling hydro_rk/Grid_GalaxyDiskInitializeGrid.C Compiling hydro_rk/Grid_Hydro3D.C Compiling hydro_rk/Grid_ReturnHydroRKPointers.C Compiling hydro_rk/Grid_ReturnOldHydroRKPointers.C Compiling hydro_rk/Grid_RungeKutta2_1stStep.C Compiling hydro_rk/Grid_RungeKutta2_2ndStep.C Compiling hydro_rk/Grid_SaveSubgridFluxes.C Compiling hydro_rk/Grid_SetFloor.C Compiling hydro_rk/Grid_SetNumberOfColours.C Compiling hydro_rk/Grid_SourceTerms.C Compiling hydro_rk/Grid_TurbulenceInitializeGrid.C Compiling hydro_rk/Grid_UpdatePrim.C Compiling hydro_rk/Grid_ZeroFluxes.C Compiling hydro_rk/Grid_PrepareVelocityNormalization.C Compiling hydro_rk/Grid_PrepareAlfvenVelocityNormalization.C Compiling hydro_rk/Grid_NormalizeVelocities.C Compiling hydro_rk/Grid_NormalizeMagneticFields.C Compiling hydro_rk/Turbulence_Generator.C Compiling hydro_rk/HLL_PLM.C Compiling hydro_rk/HLL_PPM.C Compiling hydro_rk/HLLC_PLM.C Compiling hydro_rk/HydroLine.C Compiling hydro_rk/HydroSweepX.C Compiling hydro_rk/HydroSweepY.C Compiling hydro_rk/HydroSweepZ.C Compiling hydro_rk/LLF_PLM.C Compiling hydro_rk/LLF_Zero.C Compiling hydro_rk/LLF_Zero_MHD.C Compiling hydro_rk/Rec_PLM.C Compiling hydro_rk/Rec_ConsPLM.C Compiling hydro_rk/Rec_PPM.C Compiling hydro_rk/Riemann_HLL.C Compiling hydro_rk/Riemann_HLLC.C Compiling hydro_rk/Riemann_LLF.C Compiling hydro_rk/TurbulenceInitialize.C Compiling hydro_rk/CollapseMHD3DInitialize.C Compiling hydro_rk/Grid_AddAmbipolarDiffusion.C Compiling hydro_rk/Grid_AddResistivity.C Compiling hydro_rk/Grid_CollapseMHD3DInitializeGrid.C Compiling hydro_rk/Grid_MHD1DTestInitializeGrid.C Compiling hydro_rk/Grid_MHD1DTestWavesInitializeGrid.C Compiling hydro_rk/Grid_MHD2DTestInitializeGrid.C Compiling hydro_rk/Grid_MHD3DTestInitializeGrid.C Compiling hydro_rk/Grid_MHD3D.C Compiling hydro_rk/Grid_MHDRK2_1stStep.C Compiling hydro_rk/Grid_MHDRK2_2ndStep.C Compiling hydro_rk/Grid_MHDSourceTerms.C Compiling hydro_rk/Grid_MHDTurbulenceInitializeGrid.C Compiling hydro_rk/Grid_MHDDecayingRandomFieldInitializeGrid.C Compiling hydro_rk/Grid_ReduceWindBoundary.C Compiling hydro_rk/Grid_SaveMHDSubgridFluxes.C Compiling hydro_rk/Grid_UpdateMHDPrim.C Compiling hydro_rk/Grid_UpdateElectronDensity.C Compiling hydro_rk/HLL_PLM_MHD.C Compiling hydro_rk/LLF_PLM_MHD.C Compiling hydro_rk/HLL_PPM_MHD.C Compiling hydro_rk/HLLD_PLM_MHD.C Compiling hydro_rk/HLLD_Zero_MHD.C Compiling hydro_rk/MHD1DTestInitialize.C Compiling hydro_rk/MHD1DTestWavesInitialize.C Compiling hydro_rk/MHD2DTestInitialize.C Compiling hydro_rk/MHD3DTestInitialize.C Compiling hydro_rk/MHDLine.C Compiling hydro_rk/MHDSweepX.C Compiling hydro_rk/MHDSweepY.C Compiling hydro_rk/MHDSweepZ.C Compiling hydro_rk/MHDTurbulenceInitialize.C Compiling hydro_rk/MHDDecayingRandomFieldInitialize.C Compiling hydro_rk/Riemann_HLL_MHD.C Compiling hydro_rk/Riemann_HLLD_MHD.C Compiling hydro_rk/Riemann_LLF_MHD.C Linking enzo executable. Type cat out.compile in case it fails. make: *** [Makefile:137: enzo.exe] Error 1

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Re: [yt-users] How to generate ghost zones?
by Kalina Borkiewicz 11 May '17

11 May '17

Hi Nathan, Thanks for getting back to me. Yes, I am looking to compute a field in the grid, and a ghost zone of size 1 surrounding the grid, for FLASH data, specifically. Your code snippet works for the IsolatedGalaxy Enzo dataset, but doesn't work on the GasSloshing FLASH dataset from http://yt-project.org/data/ . I get this error on retrieve_ghost_zones: " Traceback (most recent call last): File "writeAMRVDB_FLASH.py", line 28, in <module> gz_grid = grid.retrieve_ghost_zones(1, variable) File "/i0/src/sci/yt33ana/yt-conda/src/yt-hg/yt/data_objects/grid_patch.py", line 250, in retrieve_ghost_zones **kwargs) File "/i0/src/sci/yt33ana/yt-conda/src/yt-hg/yt/data_objects/construction_data_containers.py", line 543, in __init__ self.get_data(fields) File "/i0/src/sci/yt33ana/yt-conda/src/yt-hg/yt/data_objects/construction_data_containers.py", line 629, in get_data if len(fill) > 0: self._fill_fields(fill) File "/i0/src/sci/yt33ana/yt-conda/src/yt-hg/yt/data_objects/construction_data_containers.py", line 667, in _fill_fields for chunk in self._data_source.chunks(fields, "io"): File "/i0/src/sci/yt33ana/yt-conda/src/yt-hg/yt/data_objects/data_containers.py", line 1079, in chunks self.get_data() # Ensure we have built ourselves File "/i0/src/sci/yt33ana/yt-conda/src/yt-hg/yt/data_objects/data_containers.py", line 1113, in get_data self.index._identify_base_chunk(self) File "/i0/src/sci/yt33ana/yt-conda/src/yt-hg/yt/geometry/grid_geometry_handler.py", line 290, in _identify_base_chunk gi = dobj.selector.select_grids(self.grid_left_edge, File "/i0/src/sci/yt33ana/yt-conda/src/yt-hg/yt/data_objects/data_containers.py", line 1074, in selector self._selector = sclass(self) File "yt/geometry/selection_routines.pyx", line 855, in yt.geometry.selection_routines.RegionSelector.__init__ (yt/geometry/selection_routines.c:16696) RuntimeError: Error: yt attempted to read outside the boundaries of a non-periodic domain along dimension 0. Region left edge = -4.16556e+24 code_length, Region right edge = 4.16556e+24 code_length Dataset left edge = -3.70272e+24 code_length, Dataset right edge = 3.70272e+24 code_length This commonly happens when trying to compute ghost cells up to the domain boundary. Two possible solutions are to load a smaller region that does not border the edge or override the periodicity for this dataset. " -Kalina ------------------------------------------------------------------------ Hi Kalina, We have a way of generating ghost zones using internal APIs that you may be able to use. What sort of ghost zone information do you need? Something like for a given grid patch, you want to be able to compute a field in the grid and some ghost zones surrounding the grid? If so, something like this should work: import yt # available for download at yt-project.org/data ds = yt.load('IsolatedGalaxy/galaxy0030/galaxy0030') # grab a grid object, ds.index.grids is a python list containing # references to all of the grids in the simulation grid = ds.index.grids[0] gz_grid = grid.retrieve_ghost_zones(3, 'density') print(gz_grid['density'].shape) print(grid['density'].shape) This should print "(38, 38, 38)" and "(32, 32, 32)". Note that this will only work for patch AMR data (e.g. FLASH, Enzo, Boxlib, etc). Also note that the retrieve_ghost_zones function takes a "smoothed" keyword argument, which if set to True will use interpolation to estimate field values and if set to False (the default) will use nearest neighbor sampling. -Nathan On Wed, May 3, 2017 at 11:50 AM, Kalina Borkiewicz <kalina at illinois.edu <http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org>> wrote: >/I see in the yt 3.3 change log that "ghost zone generation" is a thing, />/but I can't seem to find anything else about this. />//>/I would like to generate ghost zones for FLASH data. I tried />/retrieve_ghost_zones() but that gives an error, and I can't find any other />/ghost zone-related functions. Could I get some advice? />//>/Thanks, />/Kalina/ On 05/11/2017 10:55 AM, yt-users-request(a)lists.spacepope.org wrote: > Send yt-users mailing list submissions to > yt-users(a)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(a)lists.spacepope.org > > You can reach the person managing the list at > yt-users-owner(a)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: ENZO build error (Alankar Dutta) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Thu, 11 May 2017 21:24:55 +0530 > From: Alankar Dutta <dutta.alankar(a)gmail.com> > To: Discussion of the yt analysis package > <yt-users(a)lists.spacepope.org> > Subject: Re: [yt-users] ENZO build error > Message-ID: > <CA+6Z7qpeKA+zXdtWHjNe4wsf5S0aYexW8F9dGKXJsJY_C5AXVw(a)mail.gmail.com> > Content-Type: text/plain; charset="utf-8" > > Hi David, > > I saw that file. Couldn't figure out what's wrong. > I am attaching it. > > Alankar > > On Thu, May 11, 2017 at 6:28 PM, David Collins <dcollins4096(a)gmail.com> > wrote: > >> Hi, Alankar-- >> >> In src/enzo there's a file, out.compile. That will have your linking >> errors, look in that. Let me know if it's not obvious what to do after you >> look there. >> >> d. >> >> On Wed, May 10, 2017 at 11:50 PM, Alankar Dutta <dutta.alankar(a)gmail.com> >> wrote: >> >>> Hello yt-community, >>> >>> I was trying to build ENZO. I downloaded yt for Python 2 compiled all >>> dependent libraries and activated yt with mercurial installed. when I issue >>> make, I get the following error. I am also attaching my make.mach file I >>> used. >>> >>> Alankar >>> >>> Updating DEPEND >>> make: [Makefile:361: dep] Error 127 (ignored) >>> make: [Makefile:362: dep] Error 127 (ignored) >>> make: [Makefile:363: dep] Error 127 (ignored) >>> make: [Makefile:364: dep] Error 127 (ignored) >>> make: [Makefile:365: dep] Error 127 (ignored) >>> make: [Makefile:366: dep] Error 127 (ignored) >>> make: [Makefile:367: dep] Error 127 (ignored) >>> Compiling enzo.C >>> Compiling MHDLoopInit.C >>> Compiling Grid_MHDLoopInitGrid.C >>> Compiling acml_st1.F >>> Compiling AdiabaticExpansionInitialize.C >>> Compiling AdjustRefineRegion.C >>> Compiling AdjustMustRefineParticlesRefineToLevel.C >>> Compiling AMRH5writer.C >>> Compiling AnalysisBaseClass.C >>> Compiling AnalysisBaseClass_HDF5Utils.C >>> Compiling arccosh.C >>> Compiling arcsinh.C >>> Compiling AssignGridToTaskMap.C >>> Compiling auto_show_compile_options.C >>> Compiling auto_show_config.C >>> Compiling auto_show_flags.C >>> Compiling auto_show_version.C >>> Compiling BlockSolve.F >>> Compiling calcdiss.F >>> Compiling calc_dt.F >>> Compiling calc_dt_c.c >>> Compiling calc_eigen.F >>> Compiling calc_photo_rates.F >>> Compiling calc_rad.F >>> Compiling calc_rates.F >>> Compiling calc_tdust_1d.F >>> Compiling calc_tdust_3d.F >>> Compiling CalcEmiss.C >>> Compiling CheckEmissivity.C >>> Compiling ClearEmissivity.C >>> Compiling CalculateSubtractionParameters.C >>> Compiling CallProblemSpecificRoutines.C >>> Compiling CallPython.C >>> Compiling CheckEnergyConservation.C >>> Compiling CheckForOutput.C >>> Compiling CheckForResubmit.C >>> Compiling CheckForTimeAction.C >>> Compiling CheckShearingBoundaryConsistency.C >>> Compiling chtable.F >>> Compiling cic_deposit.F >>> Compiling cic_deposit_c.c >>> Compiling cic_flag.F >>> Compiling cic_flag_c.c >>> Compiling cic_interp.F >>> Compiling cic_interp_c.c >>> Compiling cicinterp.F >>> Compiling cie_thin_cooling_rate.F >>> Compiling cluster_maker.F >>> Compiling ClusterInitialize.C >>> Compiling ClusterSMBHSumGasMass.C >>> Compiling c_message.C >>> Compiling colh2diss.F >>> Compiling CollapseTestInitialize.C >>> Compiling coll_rates.F >>> Compiling CommunicationBroadcastValue.C >>> Compiling CommunicationBufferedSend.C >>> Compiling CommunicationCombineGrids.C >>> Compiling CommunicationCollectParticles.C >>> Compiling CommunicationInitialize.C >>> Compiling CommunicationLoadBalanceRootGrids.C >>> Compiling CommunicationLoadBalanceGrids.C >>> Compiling CommunicationMergeStarParticle.C >>> Compiling CommunicationParallelFFT.C >>> Compiling CommunicationPartitionGrid.C >>> Compiling CommunicationReceiveFluxes.C >>> Compiling CommunicationReceiveHandler.C >>> Compiling CommunicationSendFluxes.C >>> Compiling CommunicationShareGrids.C >>> Compiling CommunicationShareParticles.C >>> Compiling CommunicationShareStars.C >>> Compiling CommunicationSyncNumberOfParticles.C >>> Compiling CommunicationTransferParticlesOpt.C >>> Compiling CommunicationTransferStarsOpt.C >>> Compiling CommunicationTransferSubgridParticles.C >>> Compiling CommunicationTranspose.C >>> Compiling CommunicationUpdateStarParticleCount.C >>> Compiling CommunicationUtilities.C >>> Compiling ConductionBubbleInitialize.C >>> Compiling ConductionCloudInitialize.C >>> Compiling ConductionTestInitialize.C >>> Compiling comp_accel.F >>> Compiling ComputePotentialFieldLevelZero.C >>> Compiling ComputeRandomForcingNormalization.C >>> Compiling ComputeTable.C >>> Compiling Continue.C >>> Compiling cool1d_cloudy.F >>> Compiling cool1d_koyama.F >>> Compiling cool1d_multi.F >>> Compiling cool1d_sep.F >>> Compiling cool1d.F >>> Compiling cool_multi_lum.F >>> Compiling cool_multi_time.F >>> Compiling cool_time.F >>> Compiling CoolingTestInitialize.C >>> Compiling CopyParticlesAcrossPeriodicBoundaries.C >>> Compiling CopyOverlappingParticleMassFields.C >>> Compiling CopyOverlappingZones.C >>> Compiling CopyZonesFromOldGrids.C >>> Compiling CosmoIonizationInitialize.C >>> Compiling CosmologyComputeExpansionFactor.C >>> Compiling CosmologyComputeExpansionTimestep.C >>> Compiling CosmologyComputeTimeFromRedshift.C >>> Compiling CosmologyGetUnits.C >>> Compiling CosmologyReadParameters.C >>> Compiling CosmologySimulationInitialize.C >>> Compiling CosmologyWriteParameters.C >>> Compiling cray_x1_fft64.F >>> Compiling cray_x1_st1_fft64.F >>> Compiling CreateSiblingList.C >>> Compiling CreateSmoothedDarkMatterFields.C >>> Compiling CreateSUBlingList.C >>> Compiling CreateFluxes.C >>> Compiling CRShockTubesInitialize.C >>> Compiling InitializeFluxes.C >>> Compiling DeleteFluxes.C >>> Compiling DeleteSUBlingList.C >>> Compiling DepositBaryons.C >>> Compiling DepositParticleMassField.C >>> Compiling DepositParticleMassFlaggingField.C >>> Compiling DetermineNumberOfNodes.C >>> Compiling DetermineParallelism.C >>> Compiling DetermineSubgridSizeExtrema.C >>> Compiling DoubleMachInitialize.C >>> Compiling E_ColumnFormat.C >>> Compiling ealFloat.C >>> Compiling ealInt.C >>> Compiling Enzo_Dims_create.C >>> Compiling EnzoVector.C >>> Compiling EnzoVector_Exchange.C >>> Compiling EnzoVector_ExchangeStart.C >>> Compiling EnzoVector_ExchangeEnd.C >>> Compiling EnzoVector_test.C >>> Compiling euler.F >>> Compiling EvolveHierarchy.C >>> Compiling EventHooks.C >>> Compiling execinfo_local.c >>> Compiling expand_terms.F >>> Compiling expand_mhd_terms.F >>> Compiling ExternalBoundary_AddField.C >>> Compiling ExposeDataHierarchy.C >>> Compiling ExposeGridHierarchy.C >>> Compiling ExternalBoundary_AppendForcingToBaryonFields.C >>> Compiling ExternalBoundary_constructor.C >>> Compiling ExternalBoundary_DetachForcingFromBaryonFields.C >>> Compiling ExternalBoundary_DeleteObsoleteFields.C >>> Compiling ExternalBoundary_IdentifyPhysicalQuantities.C >>> Compiling ExternalBoundary_InitializeExternalBoundaryFaceIO.C >>> Compiling ExternalBoundary_Prepare.C >>> Compiling ExternalBoundary_ReadExternalBoundary.C >>> Compiling ExternalBoundary_SetDoubleMachBoundary.C >>> Compiling ExternalBoundary_SetExternalBoundaryIO.C >>> Compiling ExternalBoundary_SetExternalBoundaryParticles.C >>> Compiling ExternalBoundary_SetShockPoolBoundary.C >>> Compiling ExternalBoundary_SetGalaxySimulationBoundary.C >>> Compiling ExternalBoundary_SetWavePoolBoundary.C >>> Compiling ExternalBoundary_SetWengenCollidingFlowBoundary.C >>> Compiling ExternalBoundary_WriteExternalBoundary.C >>> Compiling ExtraOutput.C >>> Compiling ExtractSection.C >>> Compiling FastFourierTransform.C >>> Compiling FastFourierTransformPrepareComplex.C >>> Compiling FastFourierTransformSGIMATH.C >>> Compiling EvolveLevel.C >>> Compiling FastSiblingLocatorFinalize.C >>> Compiling FastSiblingLocatorInitialize.C >>> Compiling FastSiblingLocatorInitializeStaticChainingMesh.C >>> Compiling feedback_formulae.F >>> Compiling fft66.F >>> Compiling fft90.F90 >>> Compiling ffte4X.F90 >>> Compiling ffte_st1.F90 >>> Compiling fft_utils.F >>> Compiling FinalizeFluxes.C >>> Compiling FindCube.C >>> Compiling FindField.C >>> Compiling FindSubgrids.C >>> Compiling flow.C >>> Compiling flux_hll.F >>> Compiling flux_hllc.F >>> Compiling flux_twoshock.F >>> Compiling FOF.C >>> Compiling FOF_allocate.C >>> Compiling FOF_cmpfunc.C >>> Compiling FOF_density.C >>> Compiling FOF_Finalize.C >>> Compiling FOF_forcetree.C >>> Compiling FOF_iindexx.C >>> Compiling FOF_indexx.C >>> Compiling FOF_Initialize.C >>> Compiling FOF_ngbtree.C >>> Compiling FOF_nrutil.C >>> Compiling FOF_potential.C >>> Compiling FOF_properties.C >>> Compiling FOF_selectb.C >>> Compiling FOF_sort2_flt_int.C >>> Compiling FOF_sort2_int.C >>> Compiling FOF_sort_int.C >>> Compiling FOF_subfind.C >>> Compiling FOF_subgroups.C >>> Compiling FOF_unbind.C >>> Compiling fortio.F >>> Compiling fourn.F >>> Compiling FreeRealMem.c >>> Compiling FreeExpansionInitialize.C >>> Compiling FreezeRateData.C >>> Compiling FriendOfFriend.C >>> Compiling FSMultiSourceInitialize.C >>> Compiling FSProb_ComputeOpacityLW.C >>> Compiling FSProb_constructor.C >>> Compiling FSProb_destructor.C >>> Compiling FSProb_FInterface.C >>> Compiling FSProb_EnforceBoundary.C >>> Compiling FSProb_Evolve.C >>> Compiling FSProb_Initialize.C >>> Compiling FSProb_Dump.C >>> Compiling FSProb_InitialGuess.F90 >>> Compiling FSProb_SetupSystem.F90 >>> Compiling FSProb_WriteParameters.C >>> Compiling FSProb_RadiationSource.F90 >>> Compiling FSProb_SetupBoundary.C >>> Compiling F_ColumnFormat.C >>> Compiling f_message.F >>> Compiling Gadget.C >>> Compiling GadgetInitCoolMemory.C >>> Compiling GadgetIonizeParamsTable.C >>> Compiling GadgetMakeCoolingTable.C >>> Compiling GadgetReadIonizeParams.C >>> Compiling GalaxySimulationInitialize.C >>> Compiling GenerateGridArray.C >>> Compiling GetNodeFreeMemory.C >>> Compiling GetUnits.C >>> Compiling gFLDProblem_AnalyticalEqns.F90 >>> Compiling gFLDProblem_ChemistrySource.F90 >>> Compiling gFLDProblem_ComputeRHS.C >>> Compiling gFLDProblem_ComputeRadiationIntegrals.C >>> Compiling gFLDProblem_ComputeTemperature.C >>> Compiling gFLDProblem_ComputeTimeStep.C >>> Compiling gFLDProblem_constructor.C >>> Compiling gFLDProblem_CrossSections.C >>> Compiling gFLDProblem_destructor.C >>> Compiling gFLDProblem_DiffRHS.F90 >>> Compiling gFLDProblem_Dump.C >>> Compiling gFLDProblem_EnforceBoundary.C >>> Compiling gFLDProblem_Evolve.C >>> Compiling gFLDProblem_FInterface.C >>> Compiling gFLDProblem_GasEnergySource.F90 >>> Compiling gFLDProblem_InitialGuess.C >>> Compiling gFLDProblem_Initialize.C >>> Compiling gFLDProblem_LocalJac.F90 >>> Compiling gFLDProblem_LocalRHS.F90 >>> Compiling gFLDProblem_LocRHS.C >>> Compiling gFLDProblem_lsetup.C >>> Compiling gFLDProblem_lsolve.C >>> Compiling gFLDProblem_MatrixEntries.F90 >>> Compiling gFLDProblem_nlresid.C >>> Compiling gFLDProblem_Opacity.F90 >>> Compiling gFLDProblem_RadiationSource.F90 >>> Compiling gFLDProblem_RadiationSpectrum.C >>> Compiling gFLDProblem_SetNewtonBCs.F90 >>> Compiling gFLDProblem_SetupBoundary.C >>> Compiling gFLDProblem_UpdateBoundary.C >>> Compiling gFLDProblem_WriteParameters.C >>> Compiling gFLDSplit_AnalyticChemistry.F90 >>> Compiling gFLDSplit_ChemistrySource.F90 >>> Compiling gFLDSplit_ComputeRadiationIntegrals.C >>> Compiling gFLDSplit_ComputeTemperature.C >>> Compiling gFLDSplit_ComputeTimeStep.C >>> Compiling gFLDSplit_constructor.C >>> Compiling gFLDSplit_CrossSections.C >>> Compiling gFLDSplit_destructor.C >>> Compiling gFLDSplit_Dump.C >>> Compiling gFLDSplit_EnforceBoundary.C >>> Compiling gFLDSplit_Evolve.C >>> Compiling gFLDSplit_FInterface.C >>> Compiling gFLDSplit_FillRates.C >>> Compiling gFLDSplit_GasEnergySource.F90 >>> Compiling gFLDSplit_InitialGuess.C >>> Compiling gFLDSplit_Initialize.C >>> Compiling gFLDSplit_Opacity.F90 >>> Compiling gFLDSplit_RadiationSource.F90 >>> Compiling gFLDSplit_RadiationSpectrum.C >>> Compiling gFLDSplit_SetupBoundary.C >>> Compiling gFLDSplit_SetupSystem.F90 >>> Compiling gFLDSplit_WriteParameters.C >>> Compiling GravityEquilibriumTestInitialize.C >>> Compiling Grid_AccelerationBoundaryRoutines.C >>> Compiling Grid_AccessBaryonFields.C >>> Compiling Grid_AddBaryonsToGravitatingMassField.C >>> Compiling Grid_AddExternalAcceleration.C >>> Compiling Grid_AddExternalPotentialField.C >>> Compiling Grid_AddFeedbackSphere.C >>> Compiling Grid_AddFieldMassToMassFlaggingField.C >>> Compiling Grid_AddFields.C >>> Compiling Grid_AddOneParticleFromList.C >>> Compiling Grid_AddOverlappingParticleMassField.C >>> Compiling Grid_AddParticlesFromList.C >>> Compiling Grid_AddRandomForcing.C >>> Compiling Grid_AddToBoundaryFluxes.C >>> Compiling Grid_AllocateGrids.C >>> Compiling Grid_AnalyzeTrackPeaks.C >>> Compiling Grid_AppendForcingToBaryonFields.C >>> Compiling Grid_ApplyTimeAction.C >>> Compiling Grid_CalculateAngularMomentum.C >>> Compiling Grid_ChangeParticleTypeBeforeSN.C >>> Compiling Grid_CheckForExternalReflections.C >>> Compiling Grid_CheckForOverlap.C >>> Compiling Grid_CheckForPossibleOverlap.C >>> Compiling Grid_CheckForSharedFace.C >>> Compiling grid_cic.F >>> Compiling grid_ngp.F >>> Compiling Grid_CleanUpMovedParticles.C >>> Compiling Grid_CleanUp.C >>> Compiling Grid_ClearBoundaryFluxes.C >>> Compiling Grid_ClearFlaggingField.C >>> Compiling Grid_ClearGravitatingMassField.C >>> Compiling Grid_ClearGravitatingMassFieldParticles.C >>> Compiling Grid_ClearMassFlaggingField.C >>> Compiling Grid_ClearParticleAccelerations.C >>> Compiling Grid_ClearParticleMassFlaggingField.C >>> Compiling Grid_ClusterInitializeGrid.C >>> Compiling Grid_ClusterSMBHFeedback.C >>> Compiling Grid_ClusterSMBHEachGridGasMass.C >>> Compiling Grid_CollapseTestInitializeGrid.C >>> Compiling Grid_CollectGridInformation.C >>> Compiling Grid_CollectParticles.C >>> Compiling Grid_CollectParticleMassFlaggingField.C >>> Compiling Grid_CollectStars.C >>> Compiling Grid_CommunicationMoveGrid.C >>> Compiling Grid_CommunicationReceiveRegion.C >>> Compiling Grid_CommunicationSendParticles.C >>> Compiling Grid_CommunicationSendStars.C >>> Compiling Grid_CommunicationSendRegion.C >>> Compiling Grid_CommunicationTransferParticlesOpt.C >>> Compiling Grid_CommunicationTransferStarsOpt.C >>> Compiling Grid_ComovingExpansionTerms.C >>> Compiling Grid_ComovingGravitySourceTerm.C >>> Compiling Grid_ComputeAccelerationFieldExternal.C >>> Compiling Grid_ComputeAccelerationField.C >>> Compiling Grid_ComputeAccelerations.C >>> Compiling Grid_ComputeAccelerationsFromExternalPotential.C >>> Compiling Grid_ComputeCellCenteredField.C >>> Compiling Grid_ComputeConductionTimeStep.C >>> Compiling Grid_ComputeCoolingTime.C >>> Compiling Grid_ComputeCRDiffusion.C >>> Compiling Grid_ComputeCRDiffusionTimeStep.C >>> Compiling Grid_ComputeDustTemperatureField.C >>> Compiling Grid_ComputeElementalDensity.C >>> Compiling Grid_ComputeEnergy.C >>> Compiling Grid_ComputeExternalNohBoundary.C >>> Compiling Grid_ComputeGammaField.C >>> Compiling Grid_ComputeHeat.C >>> Compiling Grid_ComputeLuminosity.C >>> Compiling Grid_ComputeMetalLineLuminosity.C >>> Compiling Grid_ComputeOneZoneCollapseFactor.C >>> Compiling Grid_ComputePressure.C >>> Compiling Grid_ComputeRandomForcingFields.C >>> Compiling Grid_ComputeTemperatureField.C >>> Compiling Grid_ComputeTimeStep.C >>> Compiling Grid_ComputeVectorAnalysisFields.C >>> Compiling Grid_ComputeVertexCenteredField.C >>> Compiling Grid_ComputeXrayEmissivity.C >>> Compiling Grid_ConductHeat.C >>> Compiling Grid_ConductionBubbleInitialize.C >>> Compiling Grid_ConductionCloudInitialize.C >>> Compiling Grid_ConductionTestInitialize.C >>> Compiling Grid_constructor.C >>> Compiling Grid_ConvertTotalEnergyToGasEnergy.C >>> Compiling Grid_ConvertToNumpy.C >>> Compiling Grid_CoolingTestResetEnergies.C >>> Compiling Grid_CoolingTestInitializeGrid.C >>> Compiling Grid_CopyBaryonFieldToOldBaryonField.C >>> Compiling Grid_CopyOverlappingMassField.C >>> Compiling Grid_CopyParentToGravitatingFieldBoundary.C >>> Compiling Grid_CopyPotentialField.C >>> Compiling Grid_CopyPotentialToBaryonField.C >>> Compiling Grid_CopyZonesFromGridCountOnly.C >>> Compiling Grid_CopyZonesFromGrid.C >>> Compiling Grid_CorrectForRefinedFluxes.C >>> Compiling Grid_CosmoIonizationInitializeGrid.C >>> Compiling Grid_CosmologyInitializeParticles.C >>> Compiling Grid_CosmologySimulationInitializeGrid.C >>> Compiling Grid_CreateChildParticles.C >>> Compiling Grid_CreateFieldArray.C >>> Compiling Grid_CreateParticleTypeGrouping.C >>> Compiling Grid_CRShockTubesInitializeGrid.C >>> Compiling Grid_DebugCheck.C >>> Compiling Grid_DeleteAllButParticles.C >>> Compiling Grid_DeleteAllFields.C >>> Compiling Grid_DeleteBaryonFields.C >>> Compiling Grid_DeleteFlaggingField.C >>> Compiling Grid_DeleteObsoleteFields.C >>> Compiling Grid_DepositBaryons.C >>> Compiling Grid_DepositMustRefineParticles.C >>> Compiling Grid_DepositParticlePositions.C >>> Compiling Grid_DepositParticlePositionsLocal.C >>> Compiling Grid_DepositPositions.C >>> Compiling Grid_destructor.C >>> Compiling Grid_DetachForcingFromBaryonFields.C >>> Compiling Grid_DoubleMachInitializeGrid.C >>> Compiling Grid_FastSiblingLocatorAddGrid.C >>> Compiling Grid_FastSiblingLocatorFindSiblings.C >>> Compiling Grid_FindAllStarParticles.C >>> Compiling Grid_FindMassiveParticles.C >>> Compiling Grid_FindMinimumParticleMass.C >>> Compiling Grid_FindNewStarParticles.C >>> Compiling Grid_FindShocks.C >>> Compiling Grid_FinishFFT.C >>> Compiling Grid_FlagBufferZones.C >>> Compiling Grid_FlagCellsToAvoidRefinement.C >>> Compiling Grid_FlagCellsToAvoidRefinementRegion.C >>> Compiling Grid_FlagCellsToBeRefinedByCoolingTime.C >>> Compiling Grid_FlagCellsToBeRefinedByJeansLength.C >>> Compiling Grid_FlagCellsToBeRefinedByTotalJeansLength.C >>> Compiling Grid_FlagCellsToBeRefinedByMass.C >>> Compiling Grid_FlagCellsToBeRefinedByMetallicity.C >>> Compiling Grid_FlagCellsToBeRefinedByMetalMass.C >>> Compiling Grid_FlagCellsToBeRefinedByMustRefineRegion.C >>> Compiling Grid_FlagCellsToBeRefinedByResistiveLength.C >>> Compiling Grid_FlagCellsToBeRefinedByShear.C >>> Compiling Grid_FlagCellsToBeRefinedByShocks.C >>> Compiling Grid_FlagCellsToBeRefinedByShockwaves.C >>> Compiling Grid_FlagCellsToBeRefinedBySlope.C >>> Compiling Grid_FlagCellsToBeRefinedBySecondDerivative.C >>> Compiling Grid_FlagRefinedCells.C >>> Compiling Grid_FlagGridArray.C >>> Compiling Grid_FreeExpansionInitializeGrid.C >>> Compiling Grid_FSMultiSourceInitializeGrid.C >>> Compiling Grid_GadgetCalculateCooling.C >>> Compiling Grid_GadgetComputeTemperatureDEF.C >>> Compiling Grid_GadgetComputeTemperature.C >>> Compiling Grid_Gadgetconvertutotemp.C >>> Compiling Grid_GadgetCoolingRate.C >>> Compiling Grid_GadgetCoolingRateFromU.C >>> Compiling Grid_GadgetCoolingTime.C >>> Compiling Grid_Gadgetfindabundancesandrates.C >>> Compiling Grid_GadgetEquilibriumCooling.C >>> Compiling Grid_GalaxySimulationInitializeGrid.C >>> Compiling Grid_GetEnclosedMass.C >>> Compiling Grid_GetEnclosedMassInShell.C >>> Compiling Grid_GetProjectedBoundaryFluxes.C >>> Compiling Grid_GrackleWrapper.C >>> Compiling Grid_GravityEquilibriumTestInitializeGrid.C >>> Compiling Grid_Group_WriteGridInterpolate.C >>> Compiling Grid_Group_WriteGrid.C >>> Compiling Grid_Group_ReadGrid.C >>> Compiling New_Grid_WriteGrid.C >>> Compiling New_Grid_ReadGrid.C >>> Compiling Grid_IdentifyColourFields.C >>> Compiling Grid_HydroShockTubesInitializeGrid.C >>> Compiling Grid_IdentifyShockSpeciesFields.C >>> Compiling Grid_IdentifyGloverSpeciesFields.C >>> Compiling Grid_IdentifyNewSubgrids.C >>> Compiling Grid_IdentifyNewSubgridsSmall.C >>> Compiling Grid_IdentifyPhysicalQuantities.C >>> Compiling Grid_IdentifyRadiativeTransferFields.C >>> Compiling Grid_IdentifySpeciesFields.C >>> Compiling Grid_ImplosionInitializeGrid.C >>> Compiling Grid_InheritProperties.C >>> Compiling Grid_InitializeGravitatingMassField.C >>> Compiling Grid_InitializeGravitatingMassFieldParticles.C >>> Compiling Grid_InitializeUniformGrid.C >>> Compiling Grid_InterpolateAccelerations.C >>> Compiling Grid_InterpolateBoundaryFromParent.C >>> Compiling Grid_InterpolateFieldValues.C >>> Compiling Grid_InterpolateParticlePositions.C >>> Compiling Grid_InterpolateParticlesToGrid.C >>> Compiling Grid_InterpolatePositions.C >>> Compiling Grid_InterpolateStarParticlesToGrid.C >>> Compiling Grid_KHInitializeGrid.C >>> Compiling Grid_KHInitializeGridRamp.C >>> Compiling Grid_MagneticFieldResetter.C >>> Compiling Grid_MirrorStarParticles.C >>> Compiling Grid_MoveAllParticles.C >>> Compiling Grid_MoveAllStars.C >>> Compiling Grid_MoveParticlesFOF.C >>> Compiling Grid_MoveSubgridParticlesFast.C >>> Compiling Grid_MoveSubgridParticles.C >>> Compiling Grid_MoveSubgridStars.C >>> Compiling Grid_MultiSpeciesHandler.C >>> Compiling Grid_MustRefineParticlesFlagFromList.C >>> Compiling Grid_MustRefineParticlesFlagInRegion.C >>> Compiling Grid_NestedCosmologySimulationInitializeGrid.C >>> Compiling Grid_NohInitializeGrid.C >>> Compiling Grid_OneZoneFreefallTestInitializeGrid.C >>> Compiling Grid_OutputAsParticleData.C >>> Compiling Grid_OutputStarParticleInformation.C >>> Compiling Grid_ParticleSplitter.C >>> Compiling Grid_PoissonSolver.C >>> Compiling Grid_PoissonSolverCGA.C >>> Compiling Grid_PoissonSolverTestInitializeGrid.C >>> Compiling Grid_PrepareBoundaryFluxes.C >>> Compiling Grid_PrepareFFT.C >>> Compiling Grid_PrepareGreensFunction.C >>> Compiling Grid_PrepareGridDerivedQuantities.C >>> Compiling Grid_PrepareGrid.C >>> Compiling Grid_PreparePeriodicGreensFunction.C >>> Compiling Grid_PreparePotentialField.C >>> Compiling Grid_PrepareRandomForcingNormalization.C >>> Compiling Grid_PressurelessCollapseInitialize.C >>> Compiling Grid_ProjectSolutionToParentGrid.C >>> Compiling Grid_ProjectToPlane.C >>> Compiling Grid_ProjectToPlane2.C >>> Compiling Grid_ProtostellarCollapseInitializeGrid.C >>> Compiling Grid_PutSinkRestartInitialize.C >>> Compiling Grid_RadHydroConstTestInitializeGrid.C >>> Compiling Grid_RadHydroGreyMarshakWaveInitializeGrid.C >>> Compiling Grid_RadHydroPulseTestInitializeGrid.C >>> Compiling Grid_RadHydroRadShockInitializeGrid.C >>> Compiling Grid_RadHydroStreamTestInitializeGrid.C >>> Compiling Grid_RadiationComputeDensities.C >>> Compiling Grid_RadiatingShockInitializeGrid.C >>> Compiling Grid_ReadGrid.C >>> Compiling Grid_CosmologyReadParticles3D.C >>> Compiling Grid_ReadHierarchyInformationHDF5.C >>> Compiling Grid_ReadRandomForcingFields.C >>> Compiling Grid_RemoveForcingFromBaryonFields.C >>> Compiling Grid_RemoveParticle.C >>> Compiling Grid_RestoreEnergyConsistency.C >>> Compiling Grid_ReturnFluxDims.C >>> Compiling Grid_ReturnGridInfo.C >>> Compiling Grid_ReturnNumberOfStarParticles.C >>> Compiling Grid_ReturnParticleEntry.C >>> Compiling Grid_ReturnStarStatistics.C >>> Compiling Grid_RHIonizationClumpInitializeGrid.C >>> Compiling Grid_RHIonizationSteepInitializeGrid.C >>> Compiling Grid_RHIonizationTestInitializeGrid.C >>> Compiling Grid_RotatingCylinderInitialize.C >>> Compiling Grid_RotatingDiskInitializeGrid.C >>> Compiling Grid_RotatingSphereInitialize.C >>> Compiling Grid_SedovBlastInitializeGrid.C >>> Compiling Grid_SedovBlastInitializeGrid3D.C >>> Compiling Grid_SetExternalBoundaryValues.C >>> Compiling Grid_SetFlaggingField.C >>> Compiling Grid_SetFlaggingFieldMultiRefineRegions.C >>> Compiling Grid_SetFlaggingFieldStaticRegions.C >>> Compiling Grid_SetIsolatedPotentialBoundary.C >>> Compiling Grid_SetMinimumSupport.C >>> Compiling Grid_SetNewParticleIndex.C >>> Compiling Grid_SetParticleMassFlaggingField.C >>> Compiling Grid_ShearingBoxInitializeGrid.C >>> Compiling Grid_ShearingBox2DInitializeGrid.C >>> Compiling Grid_ShearingBoxStratifiedInitializeGrid.C >>> Compiling Grid_ShocksHandler.C >>> Compiling Grid_SolveForPotential.C >>> Compiling Grid_SolveHydroEquations.C >>> Compiling Grid_SolveOneZoneFreefall.C >>> Compiling Grid_SolveMHD_Li.C >>> Compiling Grid_SolvePPM_DE.C >>> Compiling Grid_SolveRadiativeCooling.C >>> Compiling Grid_SolveRateAndCoolEquations.C >>> Compiling Grid_SolveRateEquations.C >>> Compiling Grid_SortParticlesByNumber.C >>> Compiling Grid_SortParticlesByType.C >>> Compiling Grid_SphericalInfallGetProfile.C >>> Compiling Grid_SphericalInfallInitializeGrid.C >>> Compiling Grid_StarParticleHandler.C >>> Compiling Grid_StratifiedMediumExplosionInitialize.C >>> Compiling Grid_SupernovaRestartInitialize.C >>> Compiling Grid_SubtractAccretedMassFromSphere.C >>> Compiling Grid_TestGravityCheckResults.C >>> Compiling Grid_TestGravityInitializeGrid.C >>> Compiling Grid_TestGravityMotionInitializeGrid.C >>> Compiling Grid_TestGravitySphereCheckResults.C >>> Compiling Grid_TestGravitySphereInitializeGrid.C >>> Compiling Grid_TestOrbitInitializeGrid.C >>> Compiling Grid_TestStarParticleInitializeGrid.C >>> Compiling Grid_TracerParticleCreateParticles.C >>> Compiling Grid_TracerParticleOutputData.C >>> Compiling Grid_TracerParticleSetVelocity.C >>> Compiling Grid_TransferSubgridParticles.C >>> Compiling Grid_TransferSubgridStars.C >>> Compiling Grid_TurbulenceSimulationInitialize.C >>> Compiling Grid_UpdateParticlePosition.C >>> Compiling Grid_UpdateParticleVelocity.C >>> Compiling Grid_UpdateStarParticles.C >>> Compiling Grid_WriteCubeInterpolate.C >>> Compiling Grid_WriteCube.C >>> Compiling Grid_WriteGridInterpolate.C >>> Compiling Grid_WriteGrid.C >>> Compiling Grid_WriteGridX.C >>> Compiling Grid_WriteHierarchyInformationHDF5.C >>> Compiling Grid_WriteMemoryMap.C >>> Compiling Grid_WriteNewMovieData.C >>> Compiling Grid_WriteNewMovieDataSeparateParticles.C >>> Compiling Grid_WriteStuff.C >>> Compiling Grid_WriteTaskMap.C >>> Compiling Grid_ZeldovichPancakeInitializeGrid.C >>> Compiling Grid_ZeroSolutionUnderSubgrid.C >>> Compiling Grid_ZeusSolver.C >>> Compiling Grid_xEulerSweep.C >>> Compiling Grid_yEulerSweep.C >>> Compiling Grid_zEulerSweep.C >>> Compiling Group_ReadAllData.C >>> Compiling Group_ReadDataHierarchy.C >>> Compiling Group_WriteAllData.C >>> Compiling Group_WriteDataHierarchy.C >>> Compiling h5utilities.C >>> Compiling HilbertCurve3D.C >>> Compiling Hierarchy_DeleteHierarchyEntry.C >>> Compiling HydroShockTubesInitialize.C >>> Compiling ibm_fft64.F >>> Compiling ibm_st1_fft64.F >>> Compiling I_ColumnFormat.C >>> Compiling IdentifyNewSubgridsBySignature.C >>> Compiling ImplosionInitialize.C >>> Compiling InexactNewton.C >>> Compiling InexactNewton_constructor.C >>> Compiling InexactNewton_destructor.C >>> Compiling InexactNewton_InexactNewtonForce.C >>> Compiling InexactNewton_LinesearchStepSize.C >>> Compiling InexactNewton_Solve.C >>> Compiling InitializeCloudyCooling.C >>> Compiling InitializeEquilibriumCoolData.C >>> Compiling InitializeGadgetEquilibriumCoolData.C >>> Compiling InitializeLocal.C >>> Compiling InitializeLymanWernerTable.C >>> Compiling InitializeHM12Photorates.C >>> Compiling InitializeMovieFile.C >>> Compiling InitializeNew.C >>> Compiling InitializePythonInterface.C >>> Compiling InitializeRadiationFieldData.C >>> Compiling InitializeRadiativeTransferSpectrumTable.C >>> Compiling InitializeRateData.C >>> Compiling InitialLoadBalanceRootGrids.C >>> Compiling init_random_seed.F >>> Compiling interp1d.F >>> Compiling interp2d.F >>> Compiling interp3d.F >>> Compiling interpolate.F >>> Compiling InterpretCommandLine.C >>> Compiling inteuler.F >>> Compiling intlgrg.F >>> Compiling int_lin3d.F >>> Compiling intrmp.F >>> Compiling int_spline.F >>> Compiling intpos.F >>> Compiling intprim.F >>> Compiling intvar.F >>> Compiling Isdigit.C >>> Compiling KHInitialize.C >>> Compiling LevelHierarchy_AddLevel.C >>> Compiling lgrg.F >>> Compiling ListIO.C >>> Compiling LoadBalanceHilbertCurve.C >>> Compiling LoadBalanceHilbertCurveRootGrids.C >>> Compiling LoadBalanceSimulatedAnnealing.C >>> Compiling MagneticFieldResetter.C >>> Compiling mbh_maker.C >>> Compiling mcooling.F >>> Compiling MakeFieldConservative.C >>> Compiling MemoryAllocationRoutines.C >>> Compiling MemoryPoolRoutines.C >>> Compiling MersenneTwister.C >>> Compiling mg_calc_defect.F >>> Compiling mg_prolong2.F >>> Compiling mg_prolong.F >>> Compiling mg_relax.F >>> Compiling mg_restrict.F >>> Compiling mkl_st1.F90 >>> Compiling Mpich_V1_Dims_create.c >>> Compiling multi_cool.F >>> Compiling MultigridSolver.C >>> Compiling mused.C >>> Compiling NestedCosmologySimulationInitialize.C >>> Compiling ngpinterp.F >>> Compiling ngp_deposit.F >>> Compiling ngp_deposit_c.c >>> Compiling NohInitialize.C >>> Compiling nr_1d.F90 >>> Compiling nr_2d.F90 >>> Compiling nr_3d.F90 >>> Compiling nr_st1.F90 >>> Compiling NullProblem.C >>> Compiling OneZoneFreefallTestInitialize.C >>> Compiling OutputAsParticleData.C >>> Compiling OutputCoolingTimeOnly.C >>> Compiling OutputDustTemperatureOnly.C >>> Compiling OutputFromEvolveLevel.C >>> Compiling OutputLevelInformation.C >>> Compiling OutputPotentialFieldOnly.C >>> Compiling OutputSmoothedDarkMatterOnly.C >>> Compiling P_ColumnFormat.C >>> Compiling ParticleMergeRoutines.C >>> Compiling ParticleSplitter.C >>> Compiling performance.C >>> Compiling pgas2d_dual.F >>> Compiling pgas2d.F >>> Compiling PoissonSolverTestInitialize.C >>> Compiling pop3_color_maker.F >>> Compiling pop3_color_maker_c.c >>> Compiling pop3_maker.F >>> Compiling pop3_properties.F >>> Compiling power_of_2.F >>> Compiling prefort2.F >>> Compiling PrepareDensityField.C >>> Compiling PrepareGravitatingMassField.C >>> Compiling PrepareIsolatedGreensFunction.C >>> Compiling PressurelessCollapseInitialize.C >>> Compiling ProblemType.C >>> Compiling ProblemType_RotatingCylinder.C >>> Compiling ProblemType_CollapsingCoolingCloud.C >>> Compiling ProblemType_ExplodingCloud.C >>> Compiling ProblemType_MagneticReconnection.C >>> Compiling ProblemType_AgoraRestart.C >>> Compiling ProcMap.C >>> Compiling project.F >>> Compiling projectbool.F >>> Compiling ProjectToPlane.C >>> Compiling ProjectToPlane2.C >>> Compiling projplane.F >>> Compiling prolong.F >>> Compiling prolong_tsc.F >>> Compiling ProtostellarCollapseInitialize.C >>> Compiling ProtoSubgrid_AcceptableGrid.C >>> Compiling ProtoSubgrid_CleanUp.C >>> Compiling ProtoSubgrid_ComputeSecondDerivative.C >>> Compiling ProtoSubgrid_ComputeSignature.C >>> Compiling ProtoSubgrid_constructor.C >>> Compiling ProtoSubgrid_CopyFlaggedZonesFromGrid.C >>> Compiling ProtoSubgrid_CopyToNewSubgrid.C >>> Compiling ProtoSubgrid_FindGridsByZeroSignature.C >>> Compiling ProtoSubgrid_LargeAxisRatioCheck.C >>> Compiling ProtoSubgrid_ReturnNthLongestDimension.C >>> Compiling ProtoSubgrid_ShrinkToMinimumSize.C >>> Compiling PutSinkRestartInitialize.C >>> Compiling QuickSortAndDrag.C >>> Compiling RadHydroConstTestInitialize.C >>> Compiling RadHydroGreyMarshakWaveInitialize.C >>> Compiling RadHydroPulseTestInitialize.C >>> Compiling RadHydroRadShockInitialize.C >>> Compiling RadHydroStreamTestInitialize.C >>> Compiling RadiationGetUnits.C >>> Compiling RadiatingShockInitialize.C >>> Compiling RadiationFieldCalculateRates.C >>> Compiling RadiationFieldLymanWernerTable.C >>> Compiling RadiationFieldUpdate.C >>> Compiling ReadAllData.C >>> Compiling ReadAttr.C >>> Compiling ReadEvolveRefineFile.C >>> Compiling read_bt.C >>> Compiling read_bv.C >>> Compiling ReadDataHierarchy.C >>> Compiling ReadFile.C >>> Compiling ReadGridFile.C >>> Compiling ReadIntFile.C >>> Compiling ReadMetalCoolingRates.C >>> Compiling ReadMetalCoolingRatios.C >>> Compiling ReadParameterFile.C >>> Compiling ReadRadiationData.C >>> Compiling ReadStarParticleData.C >>> Compiling ReadUnits.C >>> Compiling RebuildHierarchy.C >>> Compiling RecalibrateAccretingMass.C >>> Compiling RecalibrateMBHFeedbackThermalRadius.C >>> Compiling ReduceFragmentation.C >>> Compiling Reduce_Times.C >>> Compiling remap.F >>> Compiling ReportMemoryUsage.C >>> Compiling ReturnWallTime.C >>> Compiling RHIonizationClumpInitialize.C >>> Compiling RHIonizationSteepInitialize.C >>> Compiling RHIonizationTestInitialize.C >>> Compiling rotate2d.F >>> Compiling rotate3d.F >>> Compiling RotatingCylinderInitialize.C >>> Compiling RotatingDiskInitialize.C >>> Compiling RotatingSphereInitialize.C >>> Compiling s66_st1.F90 >>> Compiling s90_st1.F90 >>> Compiling SearchUtilities.C >>> Compiling SedovBlastInitialize.C >>> Compiling select_fft.F90 >>> Compiling SetBoundaryConditions.C >>> Compiling SetDefaultGlobalValues.C >>> Compiling SetLevelTimeStep.C >>> Compiling SetEvolveRefineRegion.C >>> Compiling sgi_st1_fft64.F90 >>> Compiling ShearingBoxInitialize.C >>> Compiling ShearingBox2DInitialize.C >>> Compiling ShearingBoxStratifiedInitialize.C >>> Compiling ShellSortAndDrag.C >>> Compiling ShockInABoxInitialize.C >>> Compiling ShockPoolInitialize.C >>> Compiling sink_maker.C >>> Compiling smooth_deposit.F >>> Compiling smooth_deposit_c.c >>> Compiling smooth.F >>> Compiling solve_cool.F >>> Compiling solve_rate.F >>> Compiling solve_rate_cool.F >>> Compiling SortCompareFunctions.C >>> Compiling SphericalInfallInitialize.C >>> Compiling StarListRoutines.C >>> Compiling StarParticleAccretion.C >>> Compiling StarParticleAddFeedback.C >>> Compiling StarParticleCountOnly.C >>> Compiling StarParticleDeath.C >>> Compiling StarParticleFinalize.C >>> Compiling StarParticleFindAll.C >>> Compiling StarParticleInitialize.C >>> Compiling StarParticleMergeNew.C >>> Compiling StarParticleMergeMBH.C >>> Compiling StarParticlePopIII_IMFInitialize.C >>> Compiling StarParticleSetRefinementLevel.C >>> Compiling StarParticleSubtractAccretedMass.C >>> Compiling StarRoutines.C >>> Compiling Star_Accrete.C >>> Compiling Star_AccreteAngularMomentum.C >>> Compiling Star_ActivateNewStar.C >>> Compiling Star_ApplyFeedbackTrue.C >>> Compiling Star_AssignAccretedAngularMomentum.C >>> Compiling Star_AssignFinalMassFromIMF.C >>> Compiling Star_CalculateFeedbackParameters.C >>> Compiling Star_CalculateMassAccretion.C >>> Compiling Star_CalculateMassLoss.C >>> Compiling Star_ComputePhotonRates.C >>> Compiling Star_DeleteCopyInGridGlobal.C >>> Compiling Star_DeleteParticle.C >>> Compiling Star_DisableParticle.C >>> Compiling Star_FindFeedbackSphere.C >>> Compiling Star_HitEndpoint.C >>> Compiling Star_IsARadiationSource.C >>> Compiling Star_MirrorToParticle.C >>> Compiling Star_MultiplyAccretionRate.C >>> Compiling Star_RemoveMassFromStarAfterFeedback.C >>> Compiling Star_SetFeedbackFlag.C >>> Compiling Star_SphereContained.C >>> Compiling Star_SubtractAccretedMassFromCell.C >>> Compiling star_feedback_pn_snia.F >>> Compiling star_maker1.F >>> Compiling star_maker2.F >>> Compiling star_maker3mom.F >>> Compiling star_maker3.F >>> Compiling star_maker4.F >>> Compiling star_maker5.F >>> Compiling star_maker7.F >>> Compiling star_maker8.C >>> Compiling star_maker9.C >>> Compiling star_maker10.F >>> Compiling star_maker_h2reg.F >>> Compiling star_maker_ssn.F >>> Compiling StratifiedMediumExplosionInitialize.C >>> Compiling SupernovaRestartInitialize.C >>> Compiling SysMkdir.C >>> Compiling TestGravityCheckResults.C >>> Compiling TestGravityInitialize.C >>> Compiling TestGravityMotion.C >>> Compiling TestGravitySphereCheckResults.C >>> Compiling TestGravitySphereInitialize.C >>> Compiling TestOrbitInitialize.C >>> Compiling TestStarParticleInitialize.C >>> Compiling TracerParticleCreation.C >>> Compiling TransposeRegionOverlap.C >>> Compiling tscint1d.F >>> Compiling tscint2d.F >>> Compiling tscint3d.F >>> Compiling TurbulenceSimulationInitialize.C >>> Compiling turboinit.F >>> Compiling twoshock.F >>> Compiling UpdateFromFinerGrids.C >>> Compiling UpdateLocalDatabase.C >>> Compiling UpdateParticlePositions.C >>> Compiling utilities.F >>> Compiling uuid.C >>> Compiling uuid/clear.c >>> Compiling uuid/compare.c >>> Compiling uuid/copy.c >>> Compiling uuid/gen_uuid.c >>> Compiling uuid/isnull.c >>> Compiling uuid/pack.c >>> Compiling uuid/parse.c >>> Compiling uuid/unpack.c >>> Compiling uuid/unparse.c >>> Compiling uuid/uuid_time.c >>> Compiling libconfig/grammar.c >>> Compiling libconfig/libconfig.c >>> Compiling libconfig/scanctx.c >>> Compiling libconfig/scanner.c >>> Compiling libconfig/strbuf.c >>> Compiling wall_clock.c >>> Compiling WavePoolInitialize.C >>> Compiling wrapper1d.F90 >>> Compiling wrapper2d.F90 >>> Compiling wrapper3d.F90 >>> Compiling WriteAllDataCubes.C >>> Compiling WriteAllData.C >>> Compiling write_bt.C >>> Compiling write_bv.C >>> Compiling WriteConfigure.C >>> Compiling WriteDataCubes.C >>> Compiling WriteDataHierarchy.C >>> Compiling WriteHDF5HierarchyFile.C >>> Compiling WriteMemoryMap.C >>> Compiling WriteParameterFile.C >>> Compiling WriteRadiationData.C >>> Compiling WriteStarParticleData.C >>> Compiling WriteStreamData.C >>> Compiling WriteStringAttr.C >>> Compiling WriteTaskMap.C >>> Compiling WriteTracerParticleData.C >>> Compiling WriteUnits.C >>> Compiling ZeldovichPancakeInitialize.C >>> Compiling ZeusUtilities.C >>> Compiling ZeusSource.C >>> Compiling Zeus_xTransport.C >>> Compiling Zeus_yTransport.C >>> Compiling Zeus_zTransport.C >>> Compiling Grid_MHD_Diagnose.C >>> Compiling Grid_MHDCTEnergyToggle.C >>> Compiling MHDBlastInitialize.C >>> Compiling Grid_MHDBlastInitializeGrid.C >>> Compiling Grid_MHD_ProjectFace.C >>> Compiling Grid_ClearAvgElectricField.C >>> Compiling ExternalBoundary_SetMagneticBoundary.C >>> Compiling mhd_dt.F >>> Compiling Grid_MHD_UpdateMagneticField.C >>> Compiling Grid_MHDOrszagTangInitGrid.C >>> Compiling Grid_MHD_SetupDims.C >>> Compiling MHDOrszagTangInit.C >>> Compiling MHDCT_ParameterJuggle.C >>> Compiling MHDCTSetupFieldLabels.C >>> Compiling mhd_li.F >>> Compiling mhd_li_ms.F >>> Compiling Grid_CenterMagneticField.C >>> Compiling Grid_ComputeElectricField.C >>> Compiling Grid_MHD_Curl.C >>> Compiling pde1dsolver_mhd.F >>> Compiling pde1dsolver_mhd_ms.F >>> Compiling pde1dsolver_mhd_NewMS.F >>> Compiling riemann_mhd.F >>> Compiling mhd_hlld_isothermal.F >>> Compiling mhd_hlld_adiabatic.F >>> Compiling DebugTools.C >>> Compiling Grid_MHD_CID.C >>> Compiling Grid_MHD_ProlongAllocate.C >>> Compiling mhd_interpolate.F >>> Compiling Grid_MHD_SendOldFineGrids.C >>> Compiling StochasticForcing_CommunicationBroadcastFlags.C >>> Compiling StochasticForcing_CommunicationBroadcastSpectrum.C >>> Compiling StochasticForcing_constructor.C >>> Compiling StochasticForcing_destructor.C >>> Compiling StochasticForcing_Evolve.C >>> Compiling StochasticForcing_Init.C >>> Compiling StochasticForcing_GaussDeviate.C >>> Compiling StochasticForcing_ReadAndWrite.C >>> Compiling ComputeStochasticForcing.C >>> Compiling Grid_FTStochasticForcing.C >>> Compiling DrivenFlowInitialize.C >>> Compiling Grid_DrivenFlowInitializeGrid.C >>> Compiling Grid_Phases.C >>> Compiling CommunicationLoadBalancePhotonGrids.C >>> Compiling CommunicationNonblockingRoutines.C >>> Compiling CommunicationReceiverPhotons.C >>> Compiling CommunicationSyncNumberOfPhotons.C >>> Compiling CommunicationTransferPhotons.C >>> Compiling CreateSourceClusteringTree.C >>> Compiling DeletePhotonPackage.C >>> Compiling DeleteRadiationSource.C >>> Compiling EvolvePhotons.C >>> Compiling FindCrossSection.C >>> Compiling FindRootGrid.C >>> Compiling FindSuperSource.C >>> Compiling FindSuperSourceByPosition.C >>> Compiling FLDCorrectForImpulses.C >>> Compiling Grid_AddH2Dissociation.C >>> Compiling Grid_AddH2DissociationFromSources.C >>> Compiling Grid_AddH2DissociationFromTree.C >>> Compiling Grid_AddRadiationImpulse.C >>> Compiling Grid_AddRadiationPressureAcceleration.C >>> Compiling Grid_AllocateInterpolatedRadiation.C >>> Compiling Grid_CheckSubgridMarker.C >>> Compiling Grid_CommunicationSendPhotonPackages.C >>> Compiling Grid_CommunicationSendSubgridMarker.C >>> Compiling Grid_ComputePhotonTimestep.C >>> Compiling Grid_ComputePhotonTimestepHII.C >>> Compiling Grid_ComputePhotonTimestepTau.C >>> Compiling Grid_ConvertToCellCenteredRadiation.C >>> Compiling Grid_CorrectRadiationIncompleteness.C >>> Compiling Grid_CreateEmissivityLW.C >>> Compiling Grid_DeleteEmissivity.C >>> Compiling Grid_DeletePhotonPackages.C >>> Compiling Grid_DetectIonizationFrontApprox.C >>> Compiling Grid_ElectronFractionEstimate.C >>> Compiling Grid_ExtraFunction.C >>> Compiling Grid_FinalizeRadiationFields.C >>> Compiling Grid_FindPhotonNewGrid.C >>> Compiling Grid_FlagCellsToBeRefinedByOpticalDepth.C >>> Compiling Grid_IdentifyRadiationPressureFields.C >>> Compiling Grid_InitializeRadiativeTransferFields.C >>> Compiling Grid_InitializeSource.C >>> Compiling Grid_InterpolateRadiationFromParent.C >>> Compiling Grid_MergePausedPhotonPackages.C >>> Compiling Grid_RegridPausedPhotonPackage.C >>> Compiling Grid_MoveAllPhotonPackages.C >>> Compiling Grid_PhotonPeriodicBoundary.C >>> Compiling Grid_PhotonTestInitializeGrid.C >>> Compiling Grid_PhotonTestRestartInitializeGrid.C >>> Compiling Grid_PhotonSortLinkedLists.C >>> Compiling Grid_ReassignSuperSources.C >>> Compiling Grid_ReturnSubgridMarker.C >>> Compiling Grid_SetSubgridMarkerFromParent.C >>> Compiling Grid_SetSubgridMarkerFromSibling.C >>> Compiling Grid_SetSubgridMarkerFromSubgrid.C >>> Compiling Grid_SubgridMarkerPostParallel.C >>> Compiling Grid_Shine.C >>> Compiling Grid_TransportPhotonPackages.C >>> Compiling Grid_WalkPhotonPackage.C >>> Compiling LinkedListRoutines.C >>> Compiling PhotonPackageRoutines.C >>> Compiling PhotonTestInitialize.C >>> Compiling PhotonTestRestartInitialize.C >>> Compiling RadiativeTransferCallFLD.C >>> Compiling RadiativeTransferComputeTimestep.C >>> Compiling RadiativeTransferHealpixRoutines.C >>> Compiling RadiativeTransferLoadBalanceRevert.C >>> Compiling RadiativeTransferInitialize.C >>> Compiling RadiativeTransferPrepare.C >>> Compiling RadiativeTransferReadParameters.C >>> Compiling RadiativeTransferWriteParameters.C >>> Compiling RadiativeTransferMoveLocalPhotons.C >>> Compiling ReadPhotonSources.C >>> Compiling ReadRadiativeTransferSpectrumTable.C >>> Compiling ReassignSuperSources.C >>> Compiling RestartPhotons.C >>> Compiling ReturnValuesFromSpectrumTable.C >>> Compiling SetSubgridMarker.C >>> Compiling SplitPhotonPackage.C >>> Compiling StarParticleRadTransfer.C >>> Compiling TemperatureFieldToolsForComptonHeating.C >>> Compiling WritePhotonSources.C >>> Compiling hydro_rk/ModifiedBesselFunctions.C >>> Compiling hydro_rk/AGNDiskInitialize.C >>> Compiling hydro_rk/Collapse1DInitialize.C >>> Compiling hydro_rk/Collapse3DInitialize.C >>> Compiling hydro_rk/ComputeDednerWaveSpeeds.C >>> Compiling hydro_rk/EvolveLevel_RK2.C >>> Compiling hydro_rk/GalaxyDiskInitialize.C >>> Compiling hydro_rk/Grid_AddSelfGravity.C >>> Compiling hydro_rk/Grid_AddViscosity.C >>> Compiling hydro_rk/Grid_AGNDiskInitializeGrid.C >>> Compiling hydro_rk/Grid_Collapse1DInitializeGrid.C >>> Compiling hydro_rk/Grid_Collapse3DInitializeGrid.C >>> Compiling hydro_rk/Grid_CopyOldBaryonFieldToBaryonField.C >>> Compiling hydro_rk/Grid_GalaxyDiskInitializeGrid.C >>> Compiling hydro_rk/Grid_Hydro3D.C >>> Compiling hydro_rk/Grid_ReturnHydroRKPointers.C >>> Compiling hydro_rk/Grid_ReturnOldHydroRKPointers.C >>> Compiling hydro_rk/Grid_RungeKutta2_1stStep.C >>> Compiling hydro_rk/Grid_RungeKutta2_2ndStep.C >>> Compiling hydro_rk/Grid_SaveSubgridFluxes.C >>> Compiling hydro_rk/Grid_SetFloor.C >>> Compiling hydro_rk/Grid_SetNumberOfColours.C >>> Compiling hydro_rk/Grid_SourceTerms.C >>> Compiling hydro_rk/Grid_TurbulenceInitializeGrid.C >>> Compiling hydro_rk/Grid_UpdatePrim.C >>> Compiling hydro_rk/Grid_ZeroFluxes.C >>> Compiling hydro_rk/Grid_PrepareVelocityNormalization.C >>> Compiling hydro_rk/Grid_PrepareAlfvenVelocityNormalization.C >>> Compiling hydro_rk/Grid_NormalizeVelocities.C >>> Compiling hydro_rk/Grid_NormalizeMagneticFields.C >>> Compiling hydro_rk/Turbulence_Generator.C >>> Compiling hydro_rk/HLL_PLM.C >>> Compiling hydro_rk/HLL_PPM.C >>> Compiling hydro_rk/HLLC_PLM.C >>> Compiling hydro_rk/HydroLine.C >>> Compiling hydro_rk/HydroSweepX.C >>> Compiling hydro_rk/HydroSweepY.C >>> Compiling hydro_rk/HydroSweepZ.C >>> Compiling hydro_rk/LLF_PLM.C >>> Compiling hydro_rk/LLF_Zero.C >>> Compiling hydro_rk/LLF_Zero_MHD.C >>> Compiling hydro_rk/Rec_PLM.C >>> Compiling hydro_rk/Rec_ConsPLM.C >>> Compiling hydro_rk/Rec_PPM.C >>> Compiling hydro_rk/Riemann_HLL.C >>> Compiling hydro_rk/Riemann_HLLC.C >>> Compiling hydro_rk/Riemann_LLF.C >>> Compiling hydro_rk/TurbulenceInitialize.C >>> Compiling hydro_rk/CollapseMHD3DInitialize.C >>> Compiling hydro_rk/Grid_AddAmbipolarDiffusion.C >>> Compiling hydro_rk/Grid_AddResistivity.C >>> Compiling hydro_rk/Grid_CollapseMHD3DInitializeGrid.C >>> Compiling hydro_rk/Grid_MHD1DTestInitializeGrid.C >>> Compiling hydro_rk/Grid_MHD1DTestWavesInitializeGrid.C >>> Compiling hydro_rk/Grid_MHD2DTestInitializeGrid.C >>> Compiling hydro_rk/Grid_MHD3DTestInitializeGrid.C >>> Compiling hydro_rk/Grid_MHD3D.C >>> Compiling hydro_rk/Grid_MHDRK2_1stStep.C >>> Compiling hydro_rk/Grid_MHDRK2_2ndStep.C >>> Compiling hydro_rk/Grid_MHDSourceTerms.C >>> Compiling hydro_rk/Grid_MHDTurbulenceInitializeGrid.C >>> Compiling hydro_rk/Grid_MHDDecayingRandomFieldInitializeGrid.C >>> Compiling hydro_rk/Grid_ReduceWindBoundary.C >>> Compiling hydro_rk/Grid_SaveMHDSubgridFluxes.C >>> Compiling hydro_rk/Grid_UpdateMHDPrim.C >>> Compiling hydro_rk/Grid_UpdateElectronDensity.C >>> Compiling hydro_rk/HLL_PLM_MHD.C >>> Compiling hydro_rk/LLF_PLM_MHD.C >>> Compiling hydro_rk/HLL_PPM_MHD.C >>> Compiling hydro_rk/HLLD_PLM_MHD.C >>> Compiling hydro_rk/HLLD_Zero_MHD.C >>> Compiling hydro_rk/MHD1DTestInitialize.C >>> Compiling hydro_rk/MHD1DTestWavesInitialize.C >>> Compiling hydro_rk/MHD2DTestInitialize.C >>> Compiling hydro_rk/MHD3DTestInitialize.C >>> Compiling hydro_rk/MHDLine.C >>> Compiling hydro_rk/MHDSweepX.C >>> Compiling hydro_rk/MHDSweepY.C >>> Compiling hydro_rk/MHDSweepZ.C >>> Compiling hydro_rk/MHDTurbulenceInitialize.C >>> Compiling hydro_rk/MHDDecayingRandomFieldInitialize.C >>> Compiling hydro_rk/Riemann_HLL_MHD.C >>> Compiling hydro_rk/Riemann_HLLD_MHD.C >>> Compiling hydro_rk/Riemann_LLF_MHD.C >>> Linking enzo executable. Type cat out.compile in case it fails. >>> make: *** [Makefile:137: enzo.exe] Error 1 >>> >>> >>> _______________________________________________ >>> yt-users mailing list >>> yt-users(a)lists.spacepope.org >>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org >>> >>> >> >> -- >> -- Sent from a computer. >> >> _______________________________________________ >> yt-users mailing list >> yt-users(a)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/201…> > -------------- next part -------------- > A non-text attachment was scrubbed... > Name: out.compile > Type: application/octet-stream > Size: 123593 bytes > Desc: not available > URL: <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/201…> > > ------------------------------ > > Subject: Digest Footer > > _______________________________________________ > yt-users mailing list > yt-users(a)lists.spacepope.org > http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org > > > ------------------------------ > > End of yt-users Digest, Vol 111, Issue 15 > *****************************************

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Error building ENZO
by Alankar Dutta 11 May '17

11 May '17

Hello yt-community, I was trying to build ENZO. I downloaded yt for Python 2 compiled all dependent libraries and activated yt with mercurial installed. when I issue make, I get the following error. I am also attaching my make.mach file I used. Alankar Updating DEPEND make: [Makefile:361: dep] Error 127 (ignored) make: [Makefile:362: dep] Error 127 (ignored) make: [Makefile:363: dep] Error 127 (ignored) make: [Makefile:364: dep] Error 127 (ignored) make: [Makefile:365: dep] Error 127 (ignored) make: [Makefile:366: dep] Error 127 (ignored) make: [Makefile:367: dep] Error 127 (ignored) Compiling enzo.C Compiling MHDLoopInit.C Compiling Grid_MHDLoopInitGrid.C Compiling acml_st1.F Compiling AdiabaticExpansionInitialize.C Compiling AdjustRefineRegion.C Compiling AdjustMustRefineParticlesRefineToLevel.C Compiling AMRH5writer.C Compiling AnalysisBaseClass.C Compiling AnalysisBaseClass_HDF5Utils.C Compiling arccosh.C Compiling arcsinh.C Compiling AssignGridToTaskMap.C Compiling auto_show_compile_options.C Compiling auto_show_config.C Compiling auto_show_flags.C Compiling auto_show_version.C Compiling BlockSolve.F Compiling calcdiss.F Compiling calc_dt.F Compiling calc_dt_c.c Compiling calc_eigen.F Compiling calc_photo_rates.F Compiling calc_rad.F Compiling calc_rates.F Compiling calc_tdust_1d.F Compiling calc_tdust_3d.F Compiling CalcEmiss.C Compiling CheckEmissivity.C Compiling ClearEmissivity.C Compiling CalculateSubtractionParameters.C Compiling CallProblemSpecificRoutines.C Compiling CallPython.C Compiling CheckEnergyConservation.C Compiling CheckForOutput.C Compiling CheckForResubmit.C Compiling CheckForTimeAction.C Compiling CheckShearingBoundaryConsistency.C Compiling chtable.F Compiling cic_deposit.F Compiling cic_deposit_c.c Compiling cic_flag.F Compiling cic_flag_c.c Compiling cic_interp.F Compiling cic_interp_c.c Compiling cicinterp.F Compiling cie_thin_cooling_rate.F Compiling cluster_maker.F Compiling ClusterInitialize.C Compiling ClusterSMBHSumGasMass.C Compiling c_message.C Compiling colh2diss.F Compiling CollapseTestInitialize.C Compiling coll_rates.F Compiling CommunicationBroadcastValue.C Compiling CommunicationBufferedSend.C Compiling CommunicationCombineGrids.C Compiling CommunicationCollectParticles.C Compiling CommunicationInitialize.C Compiling CommunicationLoadBalanceRootGrids.C Compiling CommunicationLoadBalanceGrids.C Compiling CommunicationMergeStarParticle.C Compiling CommunicationParallelFFT.C Compiling CommunicationPartitionGrid.C Compiling CommunicationReceiveFluxes.C Compiling CommunicationReceiveHandler.C Compiling CommunicationSendFluxes.C Compiling CommunicationShareGrids.C Compiling CommunicationShareParticles.C Compiling CommunicationShareStars.C Compiling CommunicationSyncNumberOfParticles.C Compiling CommunicationTransferParticlesOpt.C Compiling CommunicationTransferStarsOpt.C Compiling CommunicationTransferSubgridParticles.C Compiling CommunicationTranspose.C Compiling CommunicationUpdateStarParticleCount.C Compiling CommunicationUtilities.C Compiling ConductionBubbleInitialize.C Compiling ConductionCloudInitialize.C Compiling ConductionTestInitialize.C Compiling comp_accel.F Compiling ComputePotentialFieldLevelZero.C Compiling ComputeRandomForcingNormalization.C Compiling ComputeTable.C Compiling Continue.C Compiling cool1d_cloudy.F Compiling cool1d_koyama.F Compiling cool1d_multi.F Compiling cool1d_sep.F Compiling cool1d.F Compiling cool_multi_lum.F Compiling cool_multi_time.F Compiling cool_time.F Compiling CoolingTestInitialize.C Compiling CopyParticlesAcrossPeriodicBoundaries.C Compiling CopyOverlappingParticleMassFields.C Compiling CopyOverlappingZones.C Compiling CopyZonesFromOldGrids.C Compiling CosmoIonizationInitialize.C Compiling CosmologyComputeExpansionFactor.C Compiling CosmologyComputeExpansionTimestep.C Compiling CosmologyComputeTimeFromRedshift.C Compiling CosmologyGetUnits.C Compiling CosmologyReadParameters.C Compiling CosmologySimulationInitialize.C Compiling CosmologyWriteParameters.C Compiling cray_x1_fft64.F Compiling cray_x1_st1_fft64.F Compiling CreateSiblingList.C Compiling CreateSmoothedDarkMatterFields.C Compiling CreateSUBlingList.C Compiling CreateFluxes.C Compiling CRShockTubesInitialize.C Compiling InitializeFluxes.C Compiling DeleteFluxes.C Compiling DeleteSUBlingList.C Compiling DepositBaryons.C Compiling DepositParticleMassField.C Compiling DepositParticleMassFlaggingField.C Compiling DetermineNumberOfNodes.C Compiling DetermineParallelism.C Compiling DetermineSubgridSizeExtrema.C Compiling DoubleMachInitialize.C Compiling E_ColumnFormat.C Compiling ealFloat.C Compiling ealInt.C Compiling Enzo_Dims_create.C Compiling EnzoVector.C Compiling EnzoVector_Exchange.C Compiling EnzoVector_ExchangeStart.C Compiling EnzoVector_ExchangeEnd.C Compiling EnzoVector_test.C Compiling euler.F Compiling EvolveHierarchy.C Compiling EventHooks.C Compiling execinfo_local.c Compiling expand_terms.F Compiling expand_mhd_terms.F Compiling ExternalBoundary_AddField.C Compiling ExposeDataHierarchy.C Compiling ExposeGridHierarchy.C Compiling ExternalBoundary_AppendForcingToBaryonFields.C Compiling ExternalBoundary_constructor.C Compiling ExternalBoundary_DetachForcingFromBaryonFields.C Compiling ExternalBoundary_DeleteObsoleteFields.C Compiling ExternalBoundary_IdentifyPhysicalQuantities.C Compiling ExternalBoundary_InitializeExternalBoundaryFaceIO.C Compiling ExternalBoundary_Prepare.C Compiling ExternalBoundary_ReadExternalBoundary.C Compiling ExternalBoundary_SetDoubleMachBoundary.C Compiling ExternalBoundary_SetExternalBoundaryIO.C Compiling ExternalBoundary_SetExternalBoundaryParticles.C Compiling ExternalBoundary_SetShockPoolBoundary.C Compiling ExternalBoundary_SetGalaxySimulationBoundary.C Compiling ExternalBoundary_SetWavePoolBoundary.C Compiling ExternalBoundary_SetWengenCollidingFlowBoundary.C Compiling ExternalBoundary_WriteExternalBoundary.C Compiling ExtraOutput.C Compiling ExtractSection.C Compiling FastFourierTransform.C Compiling FastFourierTransformPrepareComplex.C Compiling FastFourierTransformSGIMATH.C Compiling EvolveLevel.C Compiling FastSiblingLocatorFinalize.C Compiling FastSiblingLocatorInitialize.C Compiling FastSiblingLocatorInitializeStaticChainingMesh.C Compiling feedback_formulae.F Compiling fft66.F Compiling fft90.F90 Compiling ffte4X.F90 Compiling ffte_st1.F90 Compiling fft_utils.F Compiling FinalizeFluxes.C Compiling FindCube.C Compiling FindField.C Compiling FindSubgrids.C Compiling flow.C Compiling flux_hll.F Compiling flux_hllc.F Compiling flux_twoshock.F Compiling FOF.C Compiling FOF_allocate.C Compiling FOF_cmpfunc.C Compiling FOF_density.C Compiling FOF_Finalize.C Compiling FOF_forcetree.C Compiling FOF_iindexx.C Compiling FOF_indexx.C Compiling FOF_Initialize.C Compiling FOF_ngbtree.C Compiling FOF_nrutil.C Compiling FOF_potential.C Compiling FOF_properties.C Compiling FOF_selectb.C Compiling FOF_sort2_flt_int.C Compiling FOF_sort2_int.C Compiling FOF_sort_int.C Compiling FOF_subfind.C Compiling FOF_subgroups.C Compiling FOF_unbind.C Compiling fortio.F Compiling fourn.F Compiling FreeRealMem.c Compiling FreeExpansionInitialize.C Compiling FreezeRateData.C Compiling FriendOfFriend.C Compiling FSMultiSourceInitialize.C Compiling FSProb_ComputeOpacityLW.C Compiling FSProb_constructor.C Compiling FSProb_destructor.C Compiling FSProb_FInterface.C Compiling FSProb_EnforceBoundary.C Compiling FSProb_Evolve.C Compiling FSProb_Initialize.C Compiling FSProb_Dump.C Compiling FSProb_InitialGuess.F90 Compiling FSProb_SetupSystem.F90 Compiling FSProb_WriteParameters.C Compiling FSProb_RadiationSource.F90 Compiling FSProb_SetupBoundary.C Compiling F_ColumnFormat.C Compiling f_message.F Compiling Gadget.C Compiling GadgetInitCoolMemory.C Compiling GadgetIonizeParamsTable.C Compiling GadgetMakeCoolingTable.C Compiling GadgetReadIonizeParams.C Compiling GalaxySimulationInitialize.C Compiling GenerateGridArray.C Compiling GetNodeFreeMemory.C Compiling GetUnits.C Compiling gFLDProblem_AnalyticalEqns.F90 Compiling gFLDProblem_ChemistrySource.F90 Compiling gFLDProblem_ComputeRHS.C Compiling gFLDProblem_ComputeRadiationIntegrals.C Compiling gFLDProblem_ComputeTemperature.C Compiling gFLDProblem_ComputeTimeStep.C Compiling gFLDProblem_constructor.C Compiling gFLDProblem_CrossSections.C Compiling gFLDProblem_destructor.C Compiling gFLDProblem_DiffRHS.F90 Compiling gFLDProblem_Dump.C Compiling gFLDProblem_EnforceBoundary.C Compiling gFLDProblem_Evolve.C Compiling gFLDProblem_FInterface.C Compiling gFLDProblem_GasEnergySource.F90 Compiling gFLDProblem_InitialGuess.C Compiling gFLDProblem_Initialize.C Compiling gFLDProblem_LocalJac.F90 Compiling gFLDProblem_LocalRHS.F90 Compiling gFLDProblem_LocRHS.C Compiling gFLDProblem_lsetup.C Compiling gFLDProblem_lsolve.C Compiling gFLDProblem_MatrixEntries.F90 Compiling gFLDProblem_nlresid.C Compiling gFLDProblem_Opacity.F90 Compiling gFLDProblem_RadiationSource.F90 Compiling gFLDProblem_RadiationSpectrum.C Compiling gFLDProblem_SetNewtonBCs.F90 Compiling gFLDProblem_SetupBoundary.C Compiling gFLDProblem_UpdateBoundary.C Compiling gFLDProblem_WriteParameters.C Compiling gFLDSplit_AnalyticChemistry.F90 Compiling gFLDSplit_ChemistrySource.F90 Compiling gFLDSplit_ComputeRadiationIntegrals.C Compiling gFLDSplit_ComputeTemperature.C Compiling gFLDSplit_ComputeTimeStep.C Compiling gFLDSplit_constructor.C Compiling gFLDSplit_CrossSections.C Compiling gFLDSplit_destructor.C Compiling gFLDSplit_Dump.C Compiling gFLDSplit_EnforceBoundary.C Compiling gFLDSplit_Evolve.C Compiling gFLDSplit_FInterface.C Compiling gFLDSplit_FillRates.C Compiling gFLDSplit_GasEnergySource.F90 Compiling gFLDSplit_InitialGuess.C Compiling gFLDSplit_Initialize.C Compiling gFLDSplit_Opacity.F90 Compiling gFLDSplit_RadiationSource.F90 Compiling gFLDSplit_RadiationSpectrum.C Compiling gFLDSplit_SetupBoundary.C Compiling gFLDSplit_SetupSystem.F90 Compiling gFLDSplit_WriteParameters.C Compiling GravityEquilibriumTestInitialize.C Compiling Grid_AccelerationBoundaryRoutines.C Compiling Grid_AccessBaryonFields.C Compiling Grid_AddBaryonsToGravitatingMassField.C Compiling Grid_AddExternalAcceleration.C Compiling Grid_AddExternalPotentialField.C Compiling Grid_AddFeedbackSphere.C Compiling Grid_AddFieldMassToMassFlaggingField.C Compiling Grid_AddFields.C Compiling Grid_AddOneParticleFromList.C Compiling Grid_AddOverlappingParticleMassField.C Compiling Grid_AddParticlesFromList.C Compiling Grid_AddRandomForcing.C Compiling Grid_AddToBoundaryFluxes.C Compiling Grid_AllocateGrids.C Compiling Grid_AnalyzeTrackPeaks.C Compiling Grid_AppendForcingToBaryonFields.C Compiling Grid_ApplyTimeAction.C Compiling Grid_CalculateAngularMomentum.C Compiling Grid_ChangeParticleTypeBeforeSN.C Compiling Grid_CheckForExternalReflections.C Compiling Grid_CheckForOverlap.C Compiling Grid_CheckForPossibleOverlap.C Compiling Grid_CheckForSharedFace.C Compiling grid_cic.F Compiling grid_ngp.F Compiling Grid_CleanUpMovedParticles.C Compiling Grid_CleanUp.C Compiling Grid_ClearBoundaryFluxes.C Compiling Grid_ClearFlaggingField.C Compiling Grid_ClearGravitatingMassField.C Compiling Grid_ClearGravitatingMassFieldParticles.C Compiling Grid_ClearMassFlaggingField.C Compiling Grid_ClearParticleAccelerations.C Compiling Grid_ClearParticleMassFlaggingField.C Compiling Grid_ClusterInitializeGrid.C Compiling Grid_ClusterSMBHFeedback.C Compiling Grid_ClusterSMBHEachGridGasMass.C Compiling Grid_CollapseTestInitializeGrid.C Compiling Grid_CollectGridInformation.C Compiling Grid_CollectParticles.C Compiling Grid_CollectParticleMassFlaggingField.C Compiling Grid_CollectStars.C Compiling Grid_CommunicationMoveGrid.C Compiling Grid_CommunicationReceiveRegion.C Compiling Grid_CommunicationSendParticles.C Compiling Grid_CommunicationSendStars.C Compiling Grid_CommunicationSendRegion.C Compiling Grid_CommunicationTransferParticlesOpt.C Compiling Grid_CommunicationTransferStarsOpt.C Compiling Grid_ComovingExpansionTerms.C Compiling Grid_ComovingGravitySourceTerm.C Compiling Grid_ComputeAccelerationFieldExternal.C Compiling Grid_ComputeAccelerationField.C Compiling Grid_ComputeAccelerations.C Compiling Grid_ComputeAccelerationsFromExternalPotential.C Compiling Grid_ComputeCellCenteredField.C Compiling Grid_ComputeConductionTimeStep.C Compiling Grid_ComputeCoolingTime.C Compiling Grid_ComputeCRDiffusion.C Compiling Grid_ComputeCRDiffusionTimeStep.C Compiling Grid_ComputeDustTemperatureField.C Compiling Grid_ComputeElementalDensity.C Compiling Grid_ComputeEnergy.C Compiling Grid_ComputeExternalNohBoundary.C Compiling Grid_ComputeGammaField.C Compiling Grid_ComputeHeat.C Compiling Grid_ComputeLuminosity.C Compiling Grid_ComputeMetalLineLuminosity.C Compiling Grid_ComputeOneZoneCollapseFactor.C Compiling Grid_ComputePressure.C Compiling Grid_ComputeRandomForcingFields.C Compiling Grid_ComputeTemperatureField.C Compiling Grid_ComputeTimeStep.C Compiling Grid_ComputeVectorAnalysisFields.C Compiling Grid_ComputeVertexCenteredField.C Compiling Grid_ComputeXrayEmissivity.C Compiling Grid_ConductHeat.C Compiling Grid_ConductionBubbleInitialize.C Compiling Grid_ConductionCloudInitialize.C Compiling Grid_ConductionTestInitialize.C Compiling Grid_constructor.C Compiling Grid_ConvertTotalEnergyToGasEnergy.C Compiling Grid_ConvertToNumpy.C Compiling Grid_CoolingTestResetEnergies.C Compiling Grid_CoolingTestInitializeGrid.C Compiling Grid_CopyBaryonFieldToOldBaryonField.C Compiling Grid_CopyOverlappingMassField.C Compiling Grid_CopyParentToGravitatingFieldBoundary.C Compiling Grid_CopyPotentialField.C Compiling Grid_CopyPotentialToBaryonField.C Compiling Grid_CopyZonesFromGridCountOnly.C Compiling Grid_CopyZonesFromGrid.C Compiling Grid_CorrectForRefinedFluxes.C Compiling Grid_CosmoIonizationInitializeGrid.C Compiling Grid_CosmologyInitializeParticles.C Compiling Grid_CosmologySimulationInitializeGrid.C Compiling Grid_CreateChildParticles.C Compiling Grid_CreateFieldArray.C Compiling Grid_CreateParticleTypeGrouping.C Compiling Grid_CRShockTubesInitializeGrid.C Compiling Grid_DebugCheck.C Compiling Grid_DeleteAllButParticles.C Compiling Grid_DeleteAllFields.C Compiling Grid_DeleteBaryonFields.C Compiling Grid_DeleteFlaggingField.C Compiling Grid_DeleteObsoleteFields.C Compiling Grid_DepositBaryons.C Compiling Grid_DepositMustRefineParticles.C Compiling Grid_DepositParticlePositions.C Compiling Grid_DepositParticlePositionsLocal.C Compiling Grid_DepositPositions.C Compiling Grid_destructor.C Compiling Grid_DetachForcingFromBaryonFields.C Compiling Grid_DoubleMachInitializeGrid.C Compiling Grid_FastSiblingLocatorAddGrid.C Compiling Grid_FastSiblingLocatorFindSiblings.C Compiling Grid_FindAllStarParticles.C Compiling Grid_FindMassiveParticles.C Compiling Grid_FindMinimumParticleMass.C Compiling Grid_FindNewStarParticles.C Compiling Grid_FindShocks.C Compiling Grid_FinishFFT.C Compiling Grid_FlagBufferZones.C Compiling Grid_FlagCellsToAvoidRefinement.C Compiling Grid_FlagCellsToAvoidRefinementRegion.C Compiling Grid_FlagCellsToBeRefinedByCoolingTime.C Compiling Grid_FlagCellsToBeRefinedByJeansLength.C Compiling Grid_FlagCellsToBeRefinedByTotalJeansLength.C Compiling Grid_FlagCellsToBeRefinedByMass.C Compiling Grid_FlagCellsToBeRefinedByMetallicity.C Compiling Grid_FlagCellsToBeRefinedByMetalMass.C Compiling Grid_FlagCellsToBeRefinedByMustRefineRegion.C Compiling Grid_FlagCellsToBeRefinedByResistiveLength.C Compiling Grid_FlagCellsToBeRefinedByShear.C Compiling Grid_FlagCellsToBeRefinedByShocks.C Compiling Grid_FlagCellsToBeRefinedByShockwaves.C Compiling Grid_FlagCellsToBeRefinedBySlope.C Compiling Grid_FlagCellsToBeRefinedBySecondDerivative.C Compiling Grid_FlagRefinedCells.C Compiling Grid_FlagGridArray.C Compiling Grid_FreeExpansionInitializeGrid.C Compiling Grid_FSMultiSourceInitializeGrid.C Compiling Grid_GadgetCalculateCooling.C Compiling Grid_GadgetComputeTemperatureDEF.C Compiling Grid_GadgetComputeTemperature.C Compiling Grid_Gadgetconvertutotemp.C Compiling Grid_GadgetCoolingRate.C Compiling Grid_GadgetCoolingRateFromU.C Compiling Grid_GadgetCoolingTime.C Compiling Grid_Gadgetfindabundancesandrates.C Compiling Grid_GadgetEquilibriumCooling.C Compiling Grid_GalaxySimulationInitializeGrid.C Compiling Grid_GetEnclosedMass.C Compiling Grid_GetEnclosedMassInShell.C Compiling Grid_GetProjectedBoundaryFluxes.C Compiling Grid_GrackleWrapper.C Compiling Grid_GravityEquilibriumTestInitializeGrid.C Compiling Grid_Group_WriteGridInterpolate.C Compiling Grid_Group_WriteGrid.C Compiling Grid_Group_ReadGrid.C Compiling New_Grid_WriteGrid.C Compiling New_Grid_ReadGrid.C Compiling Grid_IdentifyColourFields.C Compiling Grid_HydroShockTubesInitializeGrid.C Compiling Grid_IdentifyShockSpeciesFields.C Compiling Grid_IdentifyGloverSpeciesFields.C Compiling Grid_IdentifyNewSubgrids.C Compiling Grid_IdentifyNewSubgridsSmall.C Compiling Grid_IdentifyPhysicalQuantities.C Compiling Grid_IdentifyRadiativeTransferFields.C Compiling Grid_IdentifySpeciesFields.C Compiling Grid_ImplosionInitializeGrid.C Compiling Grid_InheritProperties.C Compiling Grid_InitializeGravitatingMassField.C Compiling Grid_InitializeGravitatingMassFieldParticles.C Compiling Grid_InitializeUniformGrid.C Compiling Grid_InterpolateAccelerations.C Compiling Grid_InterpolateBoundaryFromParent.C Compiling Grid_InterpolateFieldValues.C Compiling Grid_InterpolateParticlePositions.C Compiling Grid_InterpolateParticlesToGrid.C Compiling Grid_InterpolatePositions.C Compiling Grid_InterpolateStarParticlesToGrid.C Compiling Grid_KHInitializeGrid.C Compiling Grid_KHInitializeGridRamp.C Compiling Grid_MagneticFieldResetter.C Compiling Grid_MirrorStarParticles.C Compiling Grid_MoveAllParticles.C Compiling Grid_MoveAllStars.C Compiling Grid_MoveParticlesFOF.C Compiling Grid_MoveSubgridParticlesFast.C Compiling Grid_MoveSubgridParticles.C Compiling Grid_MoveSubgridStars.C Compiling Grid_MultiSpeciesHandler.C Compiling Grid_MustRefineParticlesFlagFromList.C Compiling Grid_MustRefineParticlesFlagInRegion.C Compiling Grid_NestedCosmologySimulationInitializeGrid.C Compiling Grid_NohInitializeGrid.C Compiling Grid_OneZoneFreefallTestInitializeGrid.C Compiling Grid_OutputAsParticleData.C Compiling Grid_OutputStarParticleInformation.C Compiling Grid_ParticleSplitter.C Compiling Grid_PoissonSolver.C Compiling Grid_PoissonSolverCGA.C Compiling Grid_PoissonSolverTestInitializeGrid.C Compiling Grid_PrepareBoundaryFluxes.C Compiling Grid_PrepareFFT.C Compiling Grid_PrepareGreensFunction.C Compiling Grid_PrepareGridDerivedQuantities.C Compiling Grid_PrepareGrid.C Compiling Grid_PreparePeriodicGreensFunction.C Compiling Grid_PreparePotentialField.C Compiling Grid_PrepareRandomForcingNormalization.C Compiling Grid_PressurelessCollapseInitialize.C Compiling Grid_ProjectSolutionToParentGrid.C Compiling Grid_ProjectToPlane.C Compiling Grid_ProjectToPlane2.C Compiling Grid_ProtostellarCollapseInitializeGrid.C Compiling Grid_PutSinkRestartInitialize.C Compiling Grid_RadHydroConstTestInitializeGrid.C Compiling Grid_RadHydroGreyMarshakWaveInitializeGrid.C Compiling Grid_RadHydroPulseTestInitializeGrid.C Compiling Grid_RadHydroRadShockInitializeGrid.C Compiling Grid_RadHydroStreamTestInitializeGrid.C Compiling Grid_RadiationComputeDensities.C Compiling Grid_RadiatingShockInitializeGrid.C Compiling Grid_ReadGrid.C Compiling Grid_CosmologyReadParticles3D.C Compiling Grid_ReadHierarchyInformationHDF5.C Compiling Grid_ReadRandomForcingFields.C Compiling Grid_RemoveForcingFromBaryonFields.C Compiling Grid_RemoveParticle.C Compiling Grid_RestoreEnergyConsistency.C Compiling Grid_ReturnFluxDims.C Compiling Grid_ReturnGridInfo.C Compiling Grid_ReturnNumberOfStarParticles.C Compiling Grid_ReturnParticleEntry.C Compiling Grid_ReturnStarStatistics.C Compiling Grid_RHIonizationClumpInitializeGrid.C Compiling Grid_RHIonizationSteepInitializeGrid.C Compiling Grid_RHIonizationTestInitializeGrid.C Compiling Grid_RotatingCylinderInitialize.C Compiling Grid_RotatingDiskInitializeGrid.C Compiling Grid_RotatingSphereInitialize.C Compiling Grid_SedovBlastInitializeGrid.C Compiling Grid_SedovBlastInitializeGrid3D.C Compiling Grid_SetExternalBoundaryValues.C Compiling Grid_SetFlaggingField.C Compiling Grid_SetFlaggingFieldMultiRefineRegions.C Compiling Grid_SetFlaggingFieldStaticRegions.C Compiling Grid_SetIsolatedPotentialBoundary.C Compiling Grid_SetMinimumSupport.C Compiling Grid_SetNewParticleIndex.C Compiling Grid_SetParticleMassFlaggingField.C Compiling Grid_ShearingBoxInitializeGrid.C Compiling Grid_ShearingBox2DInitializeGrid.C Compiling Grid_ShearingBoxStratifiedInitializeGrid.C Compiling Grid_ShocksHandler.C Compiling Grid_SolveForPotential.C Compiling Grid_SolveHydroEquations.C Compiling Grid_SolveOneZoneFreefall.C Compiling Grid_SolveMHD_Li.C Compiling Grid_SolvePPM_DE.C Compiling Grid_SolveRadiativeCooling.C Compiling Grid_SolveRateAndCoolEquations.C Compiling Grid_SolveRateEquations.C Compiling Grid_SortParticlesByNumber.C Compiling Grid_SortParticlesByType.C Compiling Grid_SphericalInfallGetProfile.C Compiling Grid_SphericalInfallInitializeGrid.C Compiling Grid_StarParticleHandler.C Compiling Grid_StratifiedMediumExplosionInitialize.C Compiling Grid_SupernovaRestartInitialize.C Compiling Grid_SubtractAccretedMassFromSphere.C Compiling Grid_TestGravityCheckResults.C Compiling Grid_TestGravityInitializeGrid.C Compiling Grid_TestGravityMotionInitializeGrid.C Compiling Grid_TestGravitySphereCheckResults.C Compiling Grid_TestGravitySphereInitializeGrid.C Compiling Grid_TestOrbitInitializeGrid.C Compiling Grid_TestStarParticleInitializeGrid.C Compiling Grid_TracerParticleCreateParticles.C Compiling Grid_TracerParticleOutputData.C Compiling Grid_TracerParticleSetVelocity.C Compiling Grid_TransferSubgridParticles.C Compiling Grid_TransferSubgridStars.C Compiling Grid_TurbulenceSimulationInitialize.C Compiling Grid_UpdateParticlePosition.C Compiling Grid_UpdateParticleVelocity.C Compiling Grid_UpdateStarParticles.C Compiling Grid_WriteCubeInterpolate.C Compiling Grid_WriteCube.C Compiling Grid_WriteGridInterpolate.C Compiling Grid_WriteGrid.C Compiling Grid_WriteGridX.C Compiling Grid_WriteHierarchyInformationHDF5.C Compiling Grid_WriteMemoryMap.C Compiling Grid_WriteNewMovieData.C Compiling Grid_WriteNewMovieDataSeparateParticles.C Compiling Grid_WriteStuff.C Compiling Grid_WriteTaskMap.C Compiling Grid_ZeldovichPancakeInitializeGrid.C Compiling Grid_ZeroSolutionUnderSubgrid.C Compiling Grid_ZeusSolver.C Compiling Grid_xEulerSweep.C Compiling Grid_yEulerSweep.C Compiling Grid_zEulerSweep.C Compiling Group_ReadAllData.C Compiling Group_ReadDataHierarchy.C Compiling Group_WriteAllData.C Compiling Group_WriteDataHierarchy.C Compiling h5utilities.C Compiling HilbertCurve3D.C Compiling Hierarchy_DeleteHierarchyEntry.C Compiling HydroShockTubesInitialize.C Compiling ibm_fft64.F Compiling ibm_st1_fft64.F Compiling I_ColumnFormat.C Compiling IdentifyNewSubgridsBySignature.C Compiling ImplosionInitialize.C Compiling InexactNewton.C Compiling InexactNewton_constructor.C Compiling InexactNewton_destructor.C Compiling InexactNewton_InexactNewtonForce.C Compiling InexactNewton_LinesearchStepSize.C Compiling InexactNewton_Solve.C Compiling InitializeCloudyCooling.C Compiling InitializeEquilibriumCoolData.C Compiling InitializeGadgetEquilibriumCoolData.C Compiling InitializeLocal.C Compiling InitializeLymanWernerTable.C Compiling InitializeHM12Photorates.C Compiling InitializeMovieFile.C Compiling InitializeNew.C Compiling InitializePythonInterface.C Compiling InitializeRadiationFieldData.C Compiling InitializeRadiativeTransferSpectrumTable.C Compiling InitializeRateData.C Compiling InitialLoadBalanceRootGrids.C Compiling init_random_seed.F Compiling interp1d.F Compiling interp2d.F Compiling interp3d.F Compiling interpolate.F Compiling InterpretCommandLine.C Compiling inteuler.F Compiling intlgrg.F Compiling int_lin3d.F Compiling intrmp.F Compiling int_spline.F Compiling intpos.F Compiling intprim.F Compiling intvar.F Compiling Isdigit.C Compiling KHInitialize.C Compiling LevelHierarchy_AddLevel.C Compiling lgrg.F Compiling ListIO.C Compiling LoadBalanceHilbertCurve.C Compiling LoadBalanceHilbertCurveRootGrids.C Compiling LoadBalanceSimulatedAnnealing.C Compiling MagneticFieldResetter.C Compiling mbh_maker.C Compiling mcooling.F Compiling MakeFieldConservative.C Compiling MemoryAllocationRoutines.C Compiling MemoryPoolRoutines.C Compiling MersenneTwister.C Compiling mg_calc_defect.F Compiling mg_prolong2.F Compiling mg_prolong.F Compiling mg_relax.F Compiling mg_restrict.F Compiling mkl_st1.F90 Compiling Mpich_V1_Dims_create.c Compiling multi_cool.F Compiling MultigridSolver.C Compiling mused.C Compiling NestedCosmologySimulationInitialize.C Compiling ngpinterp.F Compiling ngp_deposit.F Compiling ngp_deposit_c.c Compiling NohInitialize.C Compiling nr_1d.F90 Compiling nr_2d.F90 Compiling nr_3d.F90 Compiling nr_st1.F90 Compiling NullProblem.C Compiling OneZoneFreefallTestInitialize.C Compiling OutputAsParticleData.C Compiling OutputCoolingTimeOnly.C Compiling OutputDustTemperatureOnly.C Compiling OutputFromEvolveLevel.C Compiling OutputLevelInformation.C Compiling OutputPotentialFieldOnly.C Compiling OutputSmoothedDarkMatterOnly.C Compiling P_ColumnFormat.C Compiling ParticleMergeRoutines.C Compiling ParticleSplitter.C Compiling performance.C Compiling pgas2d_dual.F Compiling pgas2d.F Compiling PoissonSolverTestInitialize.C Compiling pop3_color_maker.F Compiling pop3_color_maker_c.c Compiling pop3_maker.F Compiling pop3_properties.F Compiling power_of_2.F Compiling prefort2.F Compiling PrepareDensityField.C Compiling PrepareGravitatingMassField.C Compiling PrepareIsolatedGreensFunction.C Compiling PressurelessCollapseInitialize.C Compiling ProblemType.C Compiling ProblemType_RotatingCylinder.C Compiling ProblemType_CollapsingCoolingCloud.C Compiling ProblemType_ExplodingCloud.C Compiling ProblemType_MagneticReconnection.C Compiling ProblemType_AgoraRestart.C Compiling ProcMap.C Compiling project.F Compiling projectbool.F Compiling ProjectToPlane.C Compiling ProjectToPlane2.C Compiling projplane.F Compiling prolong.F Compiling prolong_tsc.F Compiling ProtostellarCollapseInitialize.C Compiling ProtoSubgrid_AcceptableGrid.C Compiling ProtoSubgrid_CleanUp.C Compiling ProtoSubgrid_ComputeSecondDerivative.C Compiling ProtoSubgrid_ComputeSignature.C Compiling ProtoSubgrid_constructor.C Compiling ProtoSubgrid_CopyFlaggedZonesFromGrid.C Compiling ProtoSubgrid_CopyToNewSubgrid.C Compiling ProtoSubgrid_FindGridsByZeroSignature.C Compiling ProtoSubgrid_LargeAxisRatioCheck.C Compiling ProtoSubgrid_ReturnNthLongestDimension.C Compiling ProtoSubgrid_ShrinkToMinimumSize.C Compiling PutSinkRestartInitialize.C Compiling QuickSortAndDrag.C Compiling RadHydroConstTestInitialize.C Compiling RadHydroGreyMarshakWaveInitialize.C Compiling RadHydroPulseTestInitialize.C Compiling RadHydroRadShockInitialize.C Compiling RadHydroStreamTestInitialize.C Compiling RadiationGetUnits.C Compiling RadiatingShockInitialize.C Compiling RadiationFieldCalculateRates.C Compiling RadiationFieldLymanWernerTable.C Compiling RadiationFieldUpdate.C Compiling ReadAllData.C Compiling ReadAttr.C Compiling ReadEvolveRefineFile.C Compiling read_bt.C Compiling read_bv.C Compiling ReadDataHierarchy.C Compiling ReadFile.C Compiling ReadGridFile.C Compiling ReadIntFile.C Compiling ReadMetalCoolingRates.C Compiling ReadMetalCoolingRatios.C Compiling ReadParameterFile.C Compiling ReadRadiationData.C Compiling ReadStarParticleData.C Compiling ReadUnits.C Compiling RebuildHierarchy.C Compiling RecalibrateAccretingMass.C Compiling RecalibrateMBHFeedbackThermalRadius.C Compiling ReduceFragmentation.C Compiling Reduce_Times.C Compiling remap.F Compiling ReportMemoryUsage.C Compiling ReturnWallTime.C Compiling RHIonizationClumpInitialize.C Compiling RHIonizationSteepInitialize.C Compiling RHIonizationTestInitialize.C Compiling rotate2d.F Compiling rotate3d.F Compiling RotatingCylinderInitialize.C Compiling RotatingDiskInitialize.C Compiling RotatingSphereInitialize.C Compiling s66_st1.F90 Compiling s90_st1.F90 Compiling SearchUtilities.C Compiling SedovBlastInitialize.C Compiling select_fft.F90 Compiling SetBoundaryConditions.C Compiling SetDefaultGlobalValues.C Compiling SetLevelTimeStep.C Compiling SetEvolveRefineRegion.C Compiling sgi_st1_fft64.F90 Compiling ShearingBoxInitialize.C Compiling ShearingBox2DInitialize.C Compiling ShearingBoxStratifiedInitialize.C Compiling ShellSortAndDrag.C Compiling ShockInABoxInitialize.C Compiling ShockPoolInitialize.C Compiling sink_maker.C Compiling smooth_deposit.F Compiling smooth_deposit_c.c Compiling smooth.F Compiling solve_cool.F Compiling solve_rate.F Compiling solve_rate_cool.F Compiling SortCompareFunctions.C Compiling SphericalInfallInitialize.C Compiling StarListRoutines.C Compiling StarParticleAccretion.C Compiling StarParticleAddFeedback.C Compiling StarParticleCountOnly.C Compiling StarParticleDeath.C Compiling StarParticleFinalize.C Compiling StarParticleFindAll.C Compiling StarParticleInitialize.C Compiling StarParticleMergeNew.C Compiling StarParticleMergeMBH.C Compiling StarParticlePopIII_IMFInitialize.C Compiling StarParticleSetRefinementLevel.C Compiling StarParticleSubtractAccretedMass.C Compiling StarRoutines.C Compiling Star_Accrete.C Compiling Star_AccreteAngularMomentum.C Compiling Star_ActivateNewStar.C Compiling Star_ApplyFeedbackTrue.C Compiling Star_AssignAccretedAngularMomentum.C Compiling Star_AssignFinalMassFromIMF.C Compiling Star_CalculateFeedbackParameters.C Compiling Star_CalculateMassAccretion.C Compiling Star_CalculateMassLoss.C Compiling Star_ComputePhotonRates.C Compiling Star_DeleteCopyInGridGlobal.C Compiling Star_DeleteParticle.C Compiling Star_DisableParticle.C Compiling Star_FindFeedbackSphere.C Compiling Star_HitEndpoint.C Compiling Star_IsARadiationSource.C Compiling Star_MirrorToParticle.C Compiling Star_MultiplyAccretionRate.C Compiling Star_RemoveMassFromStarAfterFeedback.C Compiling Star_SetFeedbackFlag.C Compiling Star_SphereContained.C Compiling Star_SubtractAccretedMassFromCell.C Compiling star_feedback_pn_snia.F Compiling star_maker1.F Compiling star_maker2.F Compiling star_maker3mom.F Compiling star_maker3.F Compiling star_maker4.F Compiling star_maker5.F Compiling star_maker7.F Compiling star_maker8.C Compiling star_maker9.C Compiling star_maker10.F Compiling star_maker_h2reg.F Compiling star_maker_ssn.F Compiling StratifiedMediumExplosionInitialize.C Compiling SupernovaRestartInitialize.C Compiling SysMkdir.C Compiling TestGravityCheckResults.C Compiling TestGravityInitialize.C Compiling TestGravityMotion.C Compiling TestGravitySphereCheckResults.C Compiling TestGravitySphereInitialize.C Compiling TestOrbitInitialize.C Compiling TestStarParticleInitialize.C Compiling TracerParticleCreation.C Compiling TransposeRegionOverlap.C Compiling tscint1d.F Compiling tscint2d.F Compiling tscint3d.F Compiling TurbulenceSimulationInitialize.C Compiling turboinit.F Compiling twoshock.F Compiling UpdateFromFinerGrids.C Compiling UpdateLocalDatabase.C Compiling UpdateParticlePositions.C Compiling utilities.F Compiling uuid.C Compiling uuid/clear.c Compiling uuid/compare.c Compiling uuid/copy.c Compiling uuid/gen_uuid.c Compiling uuid/isnull.c Compiling uuid/pack.c Compiling uuid/parse.c Compiling uuid/unpack.c Compiling uuid/unparse.c Compiling uuid/uuid_time.c Compiling libconfig/grammar.c Compiling libconfig/libconfig.c Compiling libconfig/scanctx.c Compiling libconfig/scanner.c Compiling libconfig/strbuf.c Compiling wall_clock.c Compiling WavePoolInitialize.C Compiling wrapper1d.F90 Compiling wrapper2d.F90 Compiling wrapper3d.F90 Compiling WriteAllDataCubes.C Compiling WriteAllData.C Compiling write_bt.C Compiling write_bv.C Compiling WriteConfigure.C Compiling WriteDataCubes.C Compiling WriteDataHierarchy.C Compiling WriteHDF5HierarchyFile.C Compiling WriteMemoryMap.C Compiling WriteParameterFile.C Compiling WriteRadiationData.C Compiling WriteStarParticleData.C Compiling WriteStreamData.C Compiling WriteStringAttr.C Compiling WriteTaskMap.C Compiling WriteTracerParticleData.C Compiling WriteUnits.C Compiling ZeldovichPancakeInitialize.C Compiling ZeusUtilities.C Compiling ZeusSource.C Compiling Zeus_xTransport.C Compiling Zeus_yTransport.C Compiling Zeus_zTransport.C Compiling Grid_MHD_Diagnose.C Compiling Grid_MHDCTEnergyToggle.C Compiling MHDBlastInitialize.C Compiling Grid_MHDBlastInitializeGrid.C Compiling Grid_MHD_ProjectFace.C Compiling Grid_ClearAvgElectricField.C Compiling ExternalBoundary_SetMagneticBoundary.C Compiling mhd_dt.F Compiling Grid_MHD_UpdateMagneticField.C Compiling Grid_MHDOrszagTangInitGrid.C Compiling Grid_MHD_SetupDims.C Compiling MHDOrszagTangInit.C Compiling MHDCT_ParameterJuggle.C Compiling MHDCTSetupFieldLabels.C Compiling mhd_li.F Compiling mhd_li_ms.F Compiling Grid_CenterMagneticField.C Compiling Grid_ComputeElectricField.C Compiling Grid_MHD_Curl.C Compiling pde1dsolver_mhd.F Compiling pde1dsolver_mhd_ms.F Compiling pde1dsolver_mhd_NewMS.F Compiling riemann_mhd.F Compiling mhd_hlld_isothermal.F Compiling mhd_hlld_adiabatic.F Compiling DebugTools.C Compiling Grid_MHD_CID.C Compiling Grid_MHD_ProlongAllocate.C Compiling mhd_interpolate.F Compiling Grid_MHD_SendOldFineGrids.C Compiling StochasticForcing_CommunicationBroadcastFlags.C Compiling StochasticForcing_CommunicationBroadcastSpectrum.C Compiling StochasticForcing_constructor.C Compiling StochasticForcing_destructor.C Compiling StochasticForcing_Evolve.C Compiling StochasticForcing_Init.C Compiling StochasticForcing_GaussDeviate.C Compiling StochasticForcing_ReadAndWrite.C Compiling ComputeStochasticForcing.C Compiling Grid_FTStochasticForcing.C Compiling DrivenFlowInitialize.C Compiling Grid_DrivenFlowInitializeGrid.C Compiling Grid_Phases.C Compiling CommunicationLoadBalancePhotonGrids.C Compiling CommunicationNonblockingRoutines.C Compiling CommunicationReceiverPhotons.C Compiling CommunicationSyncNumberOfPhotons.C Compiling CommunicationTransferPhotons.C Compiling CreateSourceClusteringTree.C Compiling DeletePhotonPackage.C Compiling DeleteRadiationSource.C Compiling EvolvePhotons.C Compiling FindCrossSection.C Compiling FindRootGrid.C Compiling FindSuperSource.C Compiling FindSuperSourceByPosition.C Compiling FLDCorrectForImpulses.C Compiling Grid_AddH2Dissociation.C Compiling Grid_AddH2DissociationFromSources.C Compiling Grid_AddH2DissociationFromTree.C Compiling Grid_AddRadiationImpulse.C Compiling Grid_AddRadiationPressureAcceleration.C Compiling Grid_AllocateInterpolatedRadiation.C Compiling Grid_CheckSubgridMarker.C Compiling Grid_CommunicationSendPhotonPackages.C Compiling Grid_CommunicationSendSubgridMarker.C Compiling Grid_ComputePhotonTimestep.C Compiling Grid_ComputePhotonTimestepHII.C Compiling Grid_ComputePhotonTimestepTau.C Compiling Grid_ConvertToCellCenteredRadiation.C Compiling Grid_CorrectRadiationIncompleteness.C Compiling Grid_CreateEmissivityLW.C Compiling Grid_DeleteEmissivity.C Compiling Grid_DeletePhotonPackages.C Compiling Grid_DetectIonizationFrontApprox.C Compiling Grid_ElectronFractionEstimate.C Compiling Grid_ExtraFunction.C Compiling Grid_FinalizeRadiationFields.C Compiling Grid_FindPhotonNewGrid.C Compiling Grid_FlagCellsToBeRefinedByOpticalDepth.C Compiling Grid_IdentifyRadiationPressureFields.C Compiling Grid_InitializeRadiativeTransferFields.C Compiling Grid_InitializeSource.C Compiling Grid_InterpolateRadiationFromParent.C Compiling Grid_MergePausedPhotonPackages.C Compiling Grid_RegridPausedPhotonPackage.C Compiling Grid_MoveAllPhotonPackages.C Compiling Grid_PhotonPeriodicBoundary.C Compiling Grid_PhotonTestInitializeGrid.C Compiling Grid_PhotonTestRestartInitializeGrid.C Compiling Grid_PhotonSortLinkedLists.C Compiling Grid_ReassignSuperSources.C Compiling Grid_ReturnSubgridMarker.C Compiling Grid_SetSubgridMarkerFromParent.C Compiling Grid_SetSubgridMarkerFromSibling.C Compiling Grid_SetSubgridMarkerFromSubgrid.C Compiling Grid_SubgridMarkerPostParallel.C Compiling Grid_Shine.C Compiling Grid_TransportPhotonPackages.C Compiling Grid_WalkPhotonPackage.C Compiling LinkedListRoutines.C Compiling PhotonPackageRoutines.C Compiling PhotonTestInitialize.C Compiling PhotonTestRestartInitialize.C Compiling RadiativeTransferCallFLD.C Compiling RadiativeTransferComputeTimestep.C Compiling RadiativeTransferHealpixRoutines.C Compiling RadiativeTransferLoadBalanceRevert.C Compiling RadiativeTransferInitialize.C Compiling RadiativeTransferPrepare.C Compiling RadiativeTransferReadParameters.C Compiling RadiativeTransferWriteParameters.C Compiling RadiativeTransferMoveLocalPhotons.C Compiling ReadPhotonSources.C Compiling ReadRadiativeTransferSpectrumTable.C Compiling ReassignSuperSources.C Compiling RestartPhotons.C Compiling ReturnValuesFromSpectrumTable.C Compiling SetSubgridMarker.C Compiling SplitPhotonPackage.C Compiling StarParticleRadTransfer.C Compiling TemperatureFieldToolsForComptonHeating.C Compiling WritePhotonSources.C Compiling hydro_rk/ModifiedBesselFunctions.C Compiling hydro_rk/AGNDiskInitialize.C Compiling hydro_rk/Collapse1DInitialize.C Compiling hydro_rk/Collapse3DInitialize.C Compiling hydro_rk/ComputeDednerWaveSpeeds.C Compiling hydro_rk/EvolveLevel_RK2.C Compiling hydro_rk/GalaxyDiskInitialize.C Compiling hydro_rk/Grid_AddSelfGravity.C Compiling hydro_rk/Grid_AddViscosity.C Compiling hydro_rk/Grid_AGNDiskInitializeGrid.C Compiling hydro_rk/Grid_Collapse1DInitializeGrid.C Compiling hydro_rk/Grid_Collapse3DInitializeGrid.C Compiling hydro_rk/Grid_CopyOldBaryonFieldToBaryonField.C Compiling hydro_rk/Grid_GalaxyDiskInitializeGrid.C Compiling hydro_rk/Grid_Hydro3D.C Compiling hydro_rk/Grid_ReturnHydroRKPointers.C Compiling hydro_rk/Grid_ReturnOldHydroRKPointers.C Compiling hydro_rk/Grid_RungeKutta2_1stStep.C Compiling hydro_rk/Grid_RungeKutta2_2ndStep.C Compiling hydro_rk/Grid_SaveSubgridFluxes.C Compiling hydro_rk/Grid_SetFloor.C Compiling hydro_rk/Grid_SetNumberOfColours.C Compiling hydro_rk/Grid_SourceTerms.C Compiling hydro_rk/Grid_TurbulenceInitializeGrid.C Compiling hydro_rk/Grid_UpdatePrim.C Compiling hydro_rk/Grid_ZeroFluxes.C Compiling hydro_rk/Grid_PrepareVelocityNormalization.C Compiling hydro_rk/Grid_PrepareAlfvenVelocityNormalization.C Compiling hydro_rk/Grid_NormalizeVelocities.C Compiling hydro_rk/Grid_NormalizeMagneticFields.C Compiling hydro_rk/Turbulence_Generator.C Compiling hydro_rk/HLL_PLM.C Compiling hydro_rk/HLL_PPM.C Compiling hydro_rk/HLLC_PLM.C Compiling hydro_rk/HydroLine.C Compiling hydro_rk/HydroSweepX.C Compiling hydro_rk/HydroSweepY.C Compiling hydro_rk/HydroSweepZ.C Compiling hydro_rk/LLF_PLM.C Compiling hydro_rk/LLF_Zero.C Compiling hydro_rk/LLF_Zero_MHD.C Compiling hydro_rk/Rec_PLM.C Compiling hydro_rk/Rec_ConsPLM.C Compiling hydro_rk/Rec_PPM.C Compiling hydro_rk/Riemann_HLL.C Compiling hydro_rk/Riemann_HLLC.C Compiling hydro_rk/Riemann_LLF.C Compiling hydro_rk/TurbulenceInitialize.C Compiling hydro_rk/CollapseMHD3DInitialize.C Compiling hydro_rk/Grid_AddAmbipolarDiffusion.C Compiling hydro_rk/Grid_AddResistivity.C Compiling hydro_rk/Grid_CollapseMHD3DInitializeGrid.C Compiling hydro_rk/Grid_MHD1DTestInitializeGrid.C Compiling hydro_rk/Grid_MHD1DTestWavesInitializeGrid.C Compiling hydro_rk/Grid_MHD2DTestInitializeGrid.C Compiling hydro_rk/Grid_MHD3DTestInitializeGrid.C Compiling hydro_rk/Grid_MHD3D.C Compiling hydro_rk/Grid_MHDRK2_1stStep.C Compiling hydro_rk/Grid_MHDRK2_2ndStep.C Compiling hydro_rk/Grid_MHDSourceTerms.C Compiling hydro_rk/Grid_MHDTurbulenceInitializeGrid.C Compiling hydro_rk/Grid_MHDDecayingRandomFieldInitializeGrid.C Compiling hydro_rk/Grid_ReduceWindBoundary.C Compiling hydro_rk/Grid_SaveMHDSubgridFluxes.C Compiling hydro_rk/Grid_UpdateMHDPrim.C Compiling hydro_rk/Grid_UpdateElectronDensity.C Compiling hydro_rk/HLL_PLM_MHD.C Compiling hydro_rk/LLF_PLM_MHD.C Compiling hydro_rk/HLL_PPM_MHD.C Compiling hydro_rk/HLLD_PLM_MHD.C Compiling hydro_rk/HLLD_Zero_MHD.C Compiling hydro_rk/MHD1DTestInitialize.C Compiling hydro_rk/MHD1DTestWavesInitialize.C Compiling hydro_rk/MHD2DTestInitialize.C Compiling hydro_rk/MHD3DTestInitialize.C Compiling hydro_rk/MHDLine.C Compiling hydro_rk/MHDSweepX.C Compiling hydro_rk/MHDSweepY.C Compiling hydro_rk/MHDSweepZ.C Compiling hydro_rk/MHDTurbulenceInitialize.C Compiling hydro_rk/MHDDecayingRandomFieldInitialize.C Compiling hydro_rk/Riemann_HLL_MHD.C Compiling hydro_rk/Riemann_HLLD_MHD.C Compiling hydro_rk/Riemann_LLF_MHD.C Linking enzo executable. Type cat out.compile in case it fails. make: *** [Makefile:137: enzo.exe] Error 1

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Unit error in enzo surface
by Joseph Tomlinson 04 May '17

04 May '17

Hello all, I am running into an issue extracting the position data from a surface of some enzo data. It gives an error about adding code_unit to cm. A minimal script to generate the error can be seen here http://paste.yt-project.org/show/7136/ I have previously had weird results with argmax returning code_units but labeling them as cm with another dataset, although this does not happen with the public dataset. Thanks, Joe Tomlinson

2 1

Massive Black II Simulation using GADGET by Khandai et al (2014)
by Alankar Dutta 03 May '17

03 May '17

Hello yt-forum, I want to use yt for studying the Massive Black II Simulation of GADGET by Khandai et al (2014) to make X-ray and SZ observations. But whenever I try to load the files I get a bad message of Memory Error. I had talk with Mr. Natahan Goldbaum long before on this matter. Can I solve this after all the new yt updates that has arrived? Alankar Dutta

1 0

How to generate ghost zones?
by Kalina Borkiewicz 03 May '17

03 May '17

I see in the yt 3.3 change log that "ghost zone generation" is a thing, but I can't seem to find anything else about this. I would like to generate ghost zones for FLASH data. I tried retrieve_ghost_zones() but that gives an error, and I can't find any other ghost zone-related functions. Could I get some advice? Thanks, Kalina

2 1

Newbie: SFR for halos
by Nick Gnedin 01 May '17

01 May '17

Folks, Could someone advise me how to compute SFR for halos? I have a dataset for which I computed SFR: d = yt.load('/data/gnedin/REICMP/D/RT/CASE.REF2/rei10_a0.1003/rei10_a0.1003.art') ad = d.all_data() sfr = StarFormationRate(d,data_source=ad) I also know how to add stellar masses to halos: sm = d.add_deposited_particle_field(("STAR","MASS"),"sum") h = yt.load('/data/gnedin/REICMP/D/RT/CASE.REF2/HC/a=0.1/hc.0.h5') hc = HaloCatalog(data_ds=d,halos_ds=h,output_dir="/data/gnedin/REICMP/D/RT/CASE.REF2/HC/a=0.1") hc.add_recipe("calculate_virial_quantities", ["radius", sm], overdensity_field=('artio', 'HVAR_GAS_DENSITY')) hc.create() But how do I add sfr.Msol_yr field from sfr as a deposited particle field for d? Thank you so much, Nick Gnedin

2 1

yt has moved to GitHub
by Matthew Turk 01 May '17

01 May '17

Hi folks, Following up on the discussion from last month, yt has now finished moving to GitHub. We'll be working with pull request authors to transition any remaining pull requests on BitBucket to GitHub, but all of the infrastructure is now in place, including documentation, install scripts, issue tracking and continuous integration. Thanks to Nathan, Kacper, Alex, John, Britton and everyone else who worked on this transition project. https://github.com/yt-project The main repository is here: https://github.com/yt-project/yt I'd also like to thank BitBucket for many wonderful years of hosting, and note that I'm not without a bit of sadness that we've made this move. That being said, I think this is an exciting opportunity for broadening our developer base! -Matt

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