Mailman 3 February 2015 - yt-users

Porting .ply files to Blender with colors?
by Jill P. Naiman Aug. 15, 2022

Aug. 15, 2022

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

3 2

Stars on volume rendering
by Elizabeth Harper-Clark Dec. 11, 2021

Dec. 11, 2021

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

8 14

Variance in phase/profiles
by david collins April 11, 2020

April 11, 2020

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.

6 8

Profile plot of a 2d projection FRB object
by Ben Thompson June 3, 2015

June 3, 2015

Hello everyone. I was wondering if anyone has had experience with producing a profile plot from a 2d projection object (FRB object). Essentially, what I am trying to do is plot the stellar surface density of a galaxy as a function of radius. This is achieved by doing the following from a disk YT object called cylinder (in which the origional simulation object is called shot) center = cylinder.get_field_parameter("center") normal = cylinder.get_field_parameter("normal") image_width = (100,"kpc") three_image_width = YTArray((image_width[0], image_width[0], image_width[0]),image_width[1]) left = center - image_width right = center + image_width region = shot.region(center, left, right) proj = yt.ProjectionPlot(cylinder.ds,"z",[("deposit","stars_density")],center=center,width=image_width,data_source=region,axes_unit="kpc") the error arrises here prof = yt.create_profile(proj,bin_fields="cylindrical_r",fields=[("deposit","stars_density")],n_bins=128,weight_field=None ) where I get the error /gpfs/home/........./profiles.pyc in create_profile(data_source, bin_fields, fields, n_bins, extrema, logs, units, weight_field, accumulation, fractional) 1304 else: 1305 raise NotImplementedError -> 1306 bin_fields = data_source._determine_fields(bin_fields) 1307 fields = data_source._determine_fields(fields) 1308 if units is not None: AttributeError: 'FixedResolutionBuffer' object has no attribute '_determine_fields' Any ideas how to get around this error? Also some other things to add as a postscript. Since how the projection works, if I provide weights=None as a keyword argument within the ProjectionPlot object, I get a surface density (g/cm^2). But also a "cylindrical_r" in cm^2 as well. I *think* the way to get around this is to do another projection where weights="ones", get the radius values out of that profile.. and then in matplotlib, useing the surface density array from the former profile, and the radius bin array from the latter... Produce a plot of the surface density as a function of radius from those two arrays (I might check by hand afterwards to see if this does the trick). This seems kinda convoluted so I am wondering if there is an easier way than this. _______________________________________________ yt-users mailing list yt-users(a)lists.spacepope.org http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org

8 16

Re: [yt-users] can yt load file non-recursively?
by Britton Smith Feb. 17, 2015

Feb. 17, 2015

Hi Yuxiang, Sorry for the late reply. I dropped the ball on this. Thank you very much for making the sample dataset available. I have download it and will use it when I start working on adding support for loading halos. I am pretty busy with other things at the moment, but will try to get to this as soon as I can. As to your second question, I believe yt creates the ("gas", "density") field by depositing the PartType0 particles onto a mesh using cloud-in-cell deposit. The mesh itself is an octree. Britton On Thu, Jan 29, 2015 at 1:34 AM, Yuxiang Qin < yuxiangq(a)student.unimelb.edu.au> wrote: > Hi Britton, > > I asked the data owner, he said it’s okay to provide a data for you. Here > is the data: > https://www.dropbox.com/s/jc2gou0frajk9dw/ > NOSN_NOZCOOL_L010N0128_subhalos_103.tar?dl=0 > > It’s a OWLS format data (just like the sample data, owls_of_halos from yt > website) with 10Mpc boxsize and 128^3 particles. > > Besides, It would be great if I can involve in the development although I > don’t think I am able to do it at this moment. But I will try :) > > One more question, how does yt construct its mesh field e.g. the gas field > data from the original PartType0 data? I think the former one is a mesh > filed while the later one is particle filed, right? But in the snapshot > data, e.g. the sample data, snapshot_033 from yt website, there are only > PartType0, 1, 4 (gas, dm, star) data. So how does yt generate the gas > field, e.g. (‘gas’,’density’)? > > Cheers, > Yuxiang > > > On 28 Jan 2015, at 01:42, Britton Smith <brittonsmith(a)gmail.com> wrote: > > Hi Yuxiang, > > The issue is that the PartTypeN fields are not simply fields of one value > per halo, but are values for the individual member particles of each halo. > Loading these in is not supported yet, but it could be done. > > Currently, there are two obstacles to implementing this. Firstly, I'm not > entirely sure how to do it. There isn't a framework within yt for fields > corresponding to the particles of a halo. I can see a couple ways this > might be implemented, and I would greatly appreciate feedback from other > devs on these: > > 1. Allow PartTypeN particles to be their own particle type and attempt to > load them in similarly to the rest of the particles. This might be tricky > because they live within the FOF and SUBFIND groups. Perhaps the particle > type could be FOF/PartType0 and SUBFIND/PartType0, etc. Then, use the > information given in the file to create a halo membership field which > returns the ID of the halo each particle belongs to. > > 2. Create some sort of load_particles function that accepts a halo id and > just grabs all particles for that halo and returns a data container. I'm > not sure where this would hang off of, but maybe the OWLS_Subfind dataset > object itself. > > The second obstacle is that at this time we don't have any sample data > that contains these types of particles. Yuxiang, if are able to provide us > with a sample dataset that contains all of the complexity of the one you're > working with but in a much smaller size (no more than a few GB), that would > be a great help. Additionally, if you're interested in spear-heading this > development yourself, we would gladly provide you with assistance and > feedback. > > Other devs, what sounds like the best way to implement this feature? > > Finally, in the future, it would be better to start a new thread for a > different question. I completely missed this question because I thought it > was part of a discussion that others had well in hand. > > Britton > > On Mon, Jan 26, 2015 at 11:33 PM, Yuxiang Qin < > yuxiangq(a)student.unimelb.edu.au> wrote: > >> Hi guys, >> >> Can I continue my question? still about loading in gadget/owls data... >> >> When I try to load subhalo files, it cannot load in FOF/PartTypeN data. >> Neither ds.field_list and ds.derived_field_list shows those PartTypeN >> fields. They only contains ‘SF’, ’NSF’ and ‘Star’ fields. So Is there any >> way that I can load in those PartTypeN fields? >> >> [yqin@gstar001 subhalos_103]$ h5ls subhalo_103.0.hdf5 >> Constants Group >> FOF Group >> Header Group >> Parameters Group >> SUBFIND Group >> Units Group >> [yqin@gstar001 subhalos_103]$ h5ls subhalo_103.0.hdf5/FOF >> CenterOfMass Dataset {1920} >> CenterOfMassVelocity Dataset {1920} >> Mass Dataset {640} >> MassType Dataset {3840} >> NSF Group >> PartType0 Group >> PartType1 Group >> PartType4 Group >> SF Group >> StarFormationRate Dataset {640} >> Stars Group >> [yqin@gstar001 subhalos_103]$ h5ls subhalo_103.0.hdf5/FOF/PartType0 >> AExpMaximumTemperature Dataset {15607} >> Coordinates Dataset {46821} >> Density Dataset {15607} >> ElementAbundance Group >> IronFromSNIa Dataset {15607} >> Length Dataset {530} >> Mass Dataset {15607} >> MaximumTemperature Dataset {15607} >> Metallicity Dataset {15607} >> MetallicityWeightedRedshift Dataset {15607} >> Offset Dataset {530} >> OnEquationOfState Dataset {15607} >> ParticleIDs Dataset {15607} >> SUB_Length Dataset {410} >> SUB_Offset Dataset {410} >> SmoothedMetallicity Dataset {15607} >> SmoothingLength Dataset {15607} >> StarFormationRate Dataset {15607} >> Temperature Dataset {15607} >> Velocity Dataset {46821} >> WindFlag Dataset {15607} >> >> Cheers, >> Yuxiang >> >> On 24 Jan 2015, at 22:38, Yuxiang Qin <yuxiangq(a)student.unimelb.edu.au> >> wrote: >> >> I figure it. Thanks for fix this bug :) >> >> Yuxiang >> >> On 24 Jan 2015, at 17:39, Nathan Goldbaum <nathan12343(a)gmail.com> wrote: >> >> I opened a PR for this: >> >> >> https://bitbucket.org/yt_analysis/yt/pull-request/1424/use-the-correct-file… >> On Fri, Jan 23, 2015 at 10:35 PM Gabriel Altay <gabriel.altay(a)gmail.com> >> wrote: >> >>> We could definitely do that. When I first worked on the OWLS front end >>> I considered only the actual OWLS snapshots which all have at least 8 files >>> in their output. It think it would be a minor change but glancing through >>> the code base, I see that someone has gone to the trouble of organizing the >>> frontend folder. That is awesome!, but I can't immediately see where the >>> file name construction is happening. >>> >>> On Fri, Jan 23, 2015 at 9:47 PM, Yuxiang Qin < >>> yuxiangq(a)student.unimelb.edu.au> wrote: >>> >>>> Hi Nathan, >>>> >>>> That’s exactly what I would suggest :) >>>> >>>> Cheers, >>>> Yuxiang >>>> >>>> >>>> >>>> On 24 Jan 2015, at 14:44, Nathan Goldbaum <nathan12343(a)gmail.com> >>>> wrote: >>>> >>>> Perhaps we should adjust the OWLS frontend to allow for datasets that >>>> fit in a single file? I believe when Gabe originally wrote the frontend he >>>> assumed that the dataset would be split into multiple files. >>>> On Fri, Jan 23, 2015 at 7:43 PM Yuxiang Qin < >>>> yuxiangq(a)student.unimelb.edu.au> wrote: >>>> >>>>> Hi Matthew, >>>>> >>>>> Thanks! Your method works. Actually, I think it’s because this >>>>> simulation doesn’t have too many particles (Box size is 10Mpc, particle >>>>> number is 128^3), so it doesn’t require too many processes to run the >>>>> simulation, then the number of output files is only one. >>>>> >>>>> Cheers, >>>>> Yuxiang >>>>> >>>>> >>>>> On 24 Jan 2015, at 14:28, Matthew Turk <matthewturk(a)gmail.com> wrote: >>>>> >>>>> Hi Yuxiang, >>>>> >>>>> yt chooses the template for the filenames based on the value in >>>>> NumFiles for vanilla Gadget; it doesn't add a zero if NumFiles == 1. >>>>> Looking over the code, it looks like this behavior is not hte same if it >>>>> thinks it's an EAGLE simulation or an OWLS simulation. >>>>> >>>>> I believe that if you do this: >>>>> >>>>> ds = yt.load( ... >>>>> ds.filename_template = ds.parameter_filename >>>>> >>>>> it will force the behavior you're looking for. But, I don't know why >>>>> for OWLS and EAGLE we don't make the same assumption about file naming >>>>> convention. >>>>> >>>>> -Matt >>>>> >>>>> On Fri, Jan 23, 2015 at 8:38 PM, Yuxiang Qin < >>>>> yuxiangq(a)student.unimelb.edu.au> wrote: >>>>> >>>>>> Hi Guys, >>>>>> >>>>>> I understand those warnings are not big problems and I think I decide >>>>>> to just ignore them at this moment. >>>>>> >>>>>> I still have the problem loading only one file. >>>>>> >>>>>> Here is a example. In directory ’snapshot_103’, I just have one file, >>>>>> snap_103.hdf5 >>>>>> >>>>>> [yqin@gstar001 snapshot_103]$ ls >>>>>> snap_103.hdf5 >>>>>> >>>>>> Then we I try to use this file, yt gives me this: >>>>>> >>>>>> In [2]: fname='../../Smaug/REF_L010N0128/data/snapshot_103/snap_103.hdf5' >>>>>> >>>>>> >>>>>> >>>>>> In [3]: ds=yt.load(fname) >>>>>> >>>>>> yt : [INFO ] 2015-01-24 13:19:41,119 Parameters: current_time >>>>>> = 3.7953673 >>>>>> 7148e+16 s >>>>>> >>>>>> yt : [INFO ] 2015-01-24 13:19:41,119 Parameters: >>>>>> domain_dimensions = [2 2 2] >>>>>> yt : [INFO ] 2015-01-24 13:19:41,119 Parameters: >>>>>> domain_left_edge = [ 0. 0. >>>>>> 0.] >>>>>> >>>>>> yt : [INFO ] 2015-01-24 13:19:41,120 Parameters: >>>>>> domain_right_edge = [ 10. 10 >>>>>> . 10.] >>>>>> >>>>>> yt : [INFO ] 2015-01-24 13:19:41,120 Parameters: >>>>>> cosmological_simulation = 1 >>>>>> yt : [INFO ] 2015-01-24 13:19:41,120 Parameters: >>>>>> current_redshift = 5.0000024 >>>>>> yt : [INFO ] 2015-01-24 13:19:41,121 Parameters: omega_lambda >>>>>> = 0.725 >>>>>> yt : [INFO ] 2015-01-24 13:19:41,121 Parameters: omega_matter >>>>>> = 0.275 >>>>>> yt : [INFO ] 2015-01-24 13:19:41,121 Parameters: hubble_constant >>>>>> = 0.702 >>>>>> >>>>>> In [4]: ds.field_list >>>>>> >>>>>> ERROR OPENING >>>>>> /lustre/projects/p071_swin/Smaug/REF_L010N0128/data/snapshot_103/snap_103.0. >>>>>> hdf5 >>>>>> >>>>>> FILENAME DOES NOT EXIST >>>>>> >>>>>> >>>>>> --------------------------------------------------------------------------- >>>>>> >>>>>> IOError Traceback (most recent >>>>>> call last) >>>>>> <ipython-input-4-c4d73f2b23ef> in <module>() >>>>>> >>>>>> ----> 1 ds.field_list >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> Loading file is fine but using the information has a bug here. I >>>>>> think the problem is yt would automatically add a '.0’ in the filename and >>>>>> try to load from snapshot_103.0.hdf5 to snapshot_103.MAX_NUMBER.hdf5. >>>>>> >>>>>> And Gabriel, when I said making a symbol link. I mean: >>>>>> >>>>>> Firstly, I create a link named snap_103.0.hdf5 to snap_103.hdf5, so >>>>>> that when yt automatically add a ‘.0’ in the filename, it would visit the >>>>>> real file since I create the link. It’s just a trick. I can also rename my >>>>>> file snap_103.hdf5 to snap_103.0.hdf5. >>>>>> >>>>>> [yqin@gstar001 snapshot_103]$ ln -s snap_103.hdf5 snap_103.0.hdf5 >>>>>> [yqin@gstar001 snapshot_103]$ ls >>>>>> snap_103.0.hdf5 snap_103.hdf5 >>>>>> >>>>>> Then when I do this in yt: >>>>>> >>>>>> In [5]: ds.field_list >>>>>> >>>>>> yt : [INFO ] 2015-01-24 13:30:47,423 Allocating for 4.194e+06 >>>>>> particles >>>>>> yt : [INFO ] 2015-01-24 13:30:48,233 Identified 3.000e+05 octs >>>>>> >>>>>> yt : [WARNING ] 2015-01-24 13:30:48,366 Field ('deposit', >>>>>> 'PartType4_smoothed_O_fraction') alre >>>>>> ady exists. To override use force_override=True. >>>>>> >>>>>> yt : [WARNING ] 2015-01-24 13:30:48,367 Field ('deposit', >>>>>> 'PartType4_smoothed_Mg_fraction') alr >>>>>> eady exists. To override use force_override=True. >>>>>> >>>>>> yt : [WARNING ] 2015-01-24 13:30:48,367 Field ('deposit', >>>>>> 'PartType4_smoothed_C_fraction') alre >>>>>> ady exists. To override use force_override=True. >>>>>> >>>>>> yt : [WARNING ] 2015-01-24 13:30:48,962 Field ('gas', 'Fe_mass') >>>>>> already exists. To override us >>>>>> e force_override=True. >>>>>> >>>>>> BLA…BLA…BLA… >>>>>> A LOT OF WARNINGS >>>>>> >>>>>> yt : [INFO ] 2015-01-24 13:30:55,017 Loading field plugins. >>>>>> >>>>>> yt : [INFO ] 2015-01-24 13:30:55,019 Loaded angular_momentum (8 >>>>>> new fields) >>>>>> yt : [INFO ] 2015-01-24 13:30:55,019 Loaded astro (15 new >>>>>> fields) >>>>>> yt : [INFO ] 2015-01-24 13:30:55,020 Loaded cosmology (22 new >>>>>> fields) >>>>>> yt : [WARNING ] 2015-01-24 13:30:55,021 Field ('gas', 'metallicity') >>>>>> already exists. To overrid >>>>>> e use force_override=True. >>>>>> >>>>>> yt : [INFO ] 2015-01-24 13:30:55,021 Loaded fluid (63 new >>>>>> fields) >>>>>> yt : [INFO ] 2015-01-24 13:30:55,023 Loaded fluid_vector (95 new >>>>>> fields) >>>>>> yt : [INFO ] 2015-01-24 13:30:55,024 Loaded geometric (111 new >>>>>> fields) >>>>>> yt : [INFO ] 2015-01-24 13:30:55,024 Loaded local (111 new >>>>>> fields) >>>>>> yt : [INFO ] 2015-01-24 13:30:55,025 Loaded magnetic_field (119 >>>>>> new fields) >>>>>> yt : [INFO ] 2015-01-24 13:30:55,026 Loaded my_plugins (119 new >>>>>> fields) >>>>>> yt : [INFO ] 2015-01-24 13:30:55,027 Loaded species (121 new >>>>>> fields) >>>>>> Out[5]: >>>>>> >>>>>> [('PartType0', 'Coordinates'), >>>>>> >>>>>> ('PartType0', 'Density'), >>>>>> >>>>>> ('PartType0', 'Carbon'), >>>>>> >>>>>> ('PartType0', 'Helium'), >>>>>> >>>>>> ('PartType0', 'Hydrogen'), >>>>>> >>>>>> ('PartType0', 'Iron'), >>>>>> >>>>>> ('PartType0', 'Magnesium'), >>>>>> >>>>>> ('PartType0', 'Neon'), >>>>>> >>>>>> ('PartType0', 'Nitrogen'), >>>>>> >>>>>> ('PartType0', 'Oxygen'), >>>>>> >>>>>> >>>>>> Also yt still reports those warnings, but it actually succeeds >>>>>> reading the file. >>>>>> >>>>>> So my question is can yt load file non-recursively. For example, can >>>>>> I say, ds=yt.load(fname, recursively==False), so that I don’t need to >>>>>> create the symbol links every time. >>>>>> >>>>>> Again, thanks for helping me, guys :) >>>>>> >>>>>> Cheers, >>>>>> Yuxiang >>>>>> >>>>>> On 24 Jan 2015, at 04:40, Gabriel Altay <gabriel.altay(a)gmail.com> >>>>>> wrote: >>>>>> >>>>>> Yuxiang, are you trying to read a single file still? Are you making >>>>>> symlinks between files? Can you explain in more detail? >>>>>> >>>>>> On Thu, Jan 22, 2015 at 9:16 PM, Yuxiang Qin <yuxiang.l.qin(a)gmail.com >>>>>> > wrote: >>>>>> >>>>>>> Hi Desika, >>>>>>> >>>>>>> I tried to reinstall yt by the script but I failed. So I reinstall >>>>>>> it from source (hg clone). It still gives me those Warning… >>>>>>> >>>>>>> >>>>>>> Yuxiang >>>>>>> >>>>>>> On 23 Jan 2015, at 02:56, Desika Narayanan <dnarayan(a)haverford.edu> >>>>>>> wrote: >>>>>>> >>>>>>> Hi Yuxiang, >>>>>>> >>>>>>> Are you running anaconda python? >>>>>>> >>>>>>> One thing I've noticed this morning for the first time is that when >>>>>>> I run yt installed via anaconda on gadget data sets (albeit not owls) I get >>>>>>> similar warnings - i.e.: >>>>>>> >>>>>>> yt : [WARNING ] 2015-01-22 10:44:54,090 Field ('deposit', >>>>>>> 'PartType0_smoothed_Ne_fraction') already exists. To override use >>>>>>> force_override=True. >>>>>>> >>>>>>> whereas I didn't' receive them when running yt installed via the >>>>>>> install script (and using the python that ships with yt). Not a solution, >>>>>>> just another symptom. >>>>>>> >>>>>>> -d >>>>>>> >>>>>>> On Wed, Jan 21, 2015 at 7:06 PM, Yuxiang Qin < >>>>>>> yuxiangq(a)student.unimelb.edu.au> wrote: >>>>>>> >>>>>>>> Hi Andrew, >>>>>>>> >>>>>>>> I had a look of those files and I think I get what you mean. By the >>>>>>>> way, about my second question, ‘cannot load in PartTypeN fields’, I think >>>>>>>> probably it’s because there is no definition of those fields in yt’s source >>>>>>>> code. >>>>>>>> >>>>>>>> Cheers, >>>>>>>> Yuxiang >>>>>>>> >>>>>>>> >>>>>>>> On 22 Jan 2015, at 10:42, Andrew Myers <atmyers2(a)gmail.com> wrote: >>>>>>>> >>>>>>>> Hi Yuxiang, >>>>>>>> >>>>>>>> There is a standard list of fields that yt automatically defines >>>>>>>> whenever you load an OWLS dataset (you can see the list in >>>>>>>> yt/frontends/owls/fields.py). You don't need to explicitly define any new >>>>>>>> fields yourself for this to happen - this all takes place under the hood. I >>>>>>>> think that the code that does this is adding all the fields twice for some >>>>>>>> reason. This is something that needs to get fixed in the OWLS frontend in >>>>>>>> yt's source code, not anything you are doing in your scripts. >>>>>>>> >>>>>>>> -Andrew >>>>>>>> >>>>>>>> On Wed, Jan 21, 2015 at 3:30 PM, Yuxiang Qin < >>>>>>>> yuxiangq(a)student.unimelb.edu.au> wrote: >>>>>>>> >>>>>>>>> Hi, >>>>>>>>> >>>>>>>>> Thanks for your help. >>>>>>>>> >>>>>>>>> Nathan, I am using OWLS, a Gadget format data. >>>>>>>>> >>>>>>>>> Andrew, what do you mean by ‘add a field that has already been >>>>>>>>> defined’? I am not defining a new field. Does it mean there is already a >>>>>>>>> new field in my data? If so, why yt says it’s a new field since it’s >>>>>>>>> already there? I am kind of confused about it. >>>>>>>>> >>>>>>>>> Cheers, >>>>>>>>> Yuxiang >>>>>>>>> >>>>>>>>> >>>>>>>>> On 22 Jan 2015, at 09:43, Nathan Goldbaum <nathan12343(a)gmail.com> >>>>>>>>> wrote: >>>>>>>>> >>>>>>>>> Hi Yuxiang, >>>>>>>>> >>>>>>>>> What simulation code produced these files? Judging by the naming, >>>>>>>>> I'd have to guess some flavor of gadget, but it's not clear based on your >>>>>>>>> e-mail. >>>>>>>>> >>>>>>>>> -Nathan >>>>>>>>> >>>>>>>>> On Tue, Jan 20, 2015 at 4:29 PM, Yuxiang Qin < >>>>>>>>> yuxiangq(a)student.unimelb.edu.au> wrote: >>>>>>>>> >>>>>>>>>> Dear yt-users, >>>>>>>>>> >>>>>>>>>> I have a tiny question about loading files. >>>>>>>>>> >>>>>>>>>> I understand when yt load files, it will load all the files in >>>>>>>>>> the directory. For example: if I do ds=yt.load('snap_103.0.hdf5’), >>>>>>>>>> then ds.field_list , yt would open all the files: >>>>>>>>>> >>>>>>>>>> snap_103.0.hdf5* snap_103.16.hdf5* snap_103.22.hdf5* >>>>>>>>>> snap_103.29.hdf5* snap_103.6.hdf5* >>>>>>>>>> snap_103.10.hdf5* snap_103.17.hdf5* snap_103.23.hdf5* >>>>>>>>>> snap_103.2.hdf5* snap_103.7.hdf5* >>>>>>>>>> snap_103.11.hdf5* snap_103.18.hdf5* snap_103.24.hdf5* >>>>>>>>>> snap_103.30.hdf5* snap_103.8.hdf5* >>>>>>>>>> snap_103.12.hdf5* snap_103.19.hdf5* snap_103.25.hdf5* >>>>>>>>>> snap_103.31.hdf5* snap_103.9.hdf5* >>>>>>>>>> snap_103.13.hdf5* snap_103.1.hdf5* snap_103.26.hdf5* >>>>>>>>>> snap_103.3.hdf5* >>>>>>>>>> snap_103.14.hdf5* snap_103.20.hdf5* snap_103.27.hdf5* >>>>>>>>>> snap_103.4.hdf5* >>>>>>>>>> snap_103.15.hdf5* snap_103.21.hdf5* snap_103.28.hdf5* >>>>>>>>>> snap_103.5.hdf5* >>>>>>>>>> >>>>>>>>>> However, if our data only has one file :snap_103.hdf5*, then if >>>>>>>>>> I do ds=yt.load('snap_103.hdf5’), then ds.field_list, yt would >>>>>>>>>> still try to open all the files from snap_103.0.hdf5, however >>>>>>>>>> there is no snap_103.0.hdf5. It would report error: >>>>>>>>>> >>>>>>>>>> IOError: Unable to open file (Unable to open file: name = >>>>>>>>>> '/lustre/projects/p071_swin/yqin/smaug/ref_eff_l010n0128/data/snapshot_102/snap_102.0.hdf5', >>>>>>>>>> errno = 2, error message = 'no such file or directory', flags = 0, o_flags >>>>>>>>>> = 0) >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> Is there an argument saying I don’t want to do loading >>>>>>>>>> recursively? I can make a link named snap_103.0.hdf5 to >>>>>>>>>> snap_103.hdf5. But it’s kind of inconvenient. >>>>>>>>>> >>>>>>>>>> Cheers, >>>>>>>>>> -- >>>>>>>>>> Yuxiang Qin >>>>>>>>>> PhD Student >>>>>>>>>> School of Physics >>>>>>>>>> The University of Melbourne >>>>>>>>>> VIC, Australia, 3010 >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> _______________________________________________ >>>>>>>>>> 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 >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> _______________________________________________ >>>>>>>> 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 >>>>>> >>>>>> >>>>>> >>>>>> _______________________________________________ >>>>>> 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 >>>> >>>> >>>> >>>> _______________________________________________ >>>> 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 >> >> >> >> _______________________________________________ >> 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

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How to acknowledge and cite yt project in a paper ?
by Reju Sam John Feb. 15, 2015

Feb. 15, 2015

Dear all How to acknowledge and cite yt project in a paper ? Thank you -- Reju Sam John _______________________________________________ yt-users mailing list yt-users(a)lists.spacepope.org http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org

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