simspin - SimSpin v2.10.0

Several bug fixes and additions made since SimSpin v2.7.0 release. A key bug fix includes the cosmological parameters of the simulation are now used correctly to compute stellar ages - rather than using the default Planck values.

| Date | Summary of change | Version | Commit | Author | |---------- |-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |--------- |------------------------------------------ | ----------------- | | 03/03/25 | Bug fix Ensuring that the stellar ages and distance parameters such as the measured luminoisity distance are properly computed using the relevant cosmological parameters. In the past, these were all using Planck cosmology, rather than varying to reflect the cosmological parameters of the input simulation. | 2.10.0 | b5ffdde967a61bc08690702e5d93dab7e025e3f1 | Kate Harborne | | 20/02/25 | Modifying the .check_names function to take in the simulation type being read. Future-proofing for other simulation inputs that may also store Metallicity as an array, but with different units. | 2.9.6 | 09d9b692b06938cbda280dbd40de003c532df26b | Kate Harborne | | 07/11/24 | Bug fix Making sure Kappa and KappaCo use the correct total 3D velocity component and now squaring the velocity and ensuring with a proper test that the resulting value is less than 1 (as it should be!) - always write a test... | 2.9.5 | 234dd2538368555e977a2b873b67c5b2f450c566 | Kate Harborne | | 28/10/24 | Bug fix Making sure Kappa and KappaCo use the correct radial velocity component (cylindrical parameter, not spherical). | 2.9.4 | 0df75af35f8c8ab89f497ddd465aa821d679e9f3 | Kate Harborne | | 30/08/24 | Bug fix Ensuring output dispersion measured can't be less than 0. | 2.9.3 | 16eb8a6e139c63bcb5cbb9107c878af0b6adcaf4 | Kate Harborne | | 27/08/24 | Bug fix Adding an extra logic test for .checknames() so that if only 11 particles were included in the files, the Magneticum catch for single particles doesn't trigger on non-Magneticum files. | 2.9.2 | 38bf34d305ce50d35baf7056e1d306da6e432bba | Kate Harborne | | 21/08/24 | Adding the moments parameter to output observation summary and ensuring this is written to out output FITS file. Also modifying the output h3 and h4 images in moments=2 mode to be 0's rather than NA's to avoid warning messages when writing output to FITS. | 2.9.1 | e69a91e5175a71c3b1d1985dd3e729ac71d430a4 | Kate Harborne | | 25/07/24 | New feature! Added the moments parameter to `builddatacubefunction. You can now specify how many moments to fit the LOSVD. Either moments=2 (i.e. fitting a Gaussian to give v_los and sigma_los) or moments=4 (i.e. fitting a Gauss-Hermite polynomial to give v_los, sigma_los, h3 and h4). Fits moments=4 by default, in line with old behaviour of the code. Also *bug fix* to ensure the input variables towritesimspinFITSare of the correct type and to give meaningful errors if not (resolving issue #109). | 2.9.0 | f7ae49853c9821ac992502eb3e7ce3b10c7986c2 | Kate Harborne | | 19/07/24 | *Bug fix.*.checknames()function fails for TNG outputs if one 1 gas particle is contained in the snapshot due to indexing errors. Added in a catch for this error to prevent unnecessary code failure. | 2.8.8 | b0d53def1f52e12a6da502843a89f49434d88508 | Kate Harborne | | 17/06/24 | Adding measurement of radial gas temperature to the output of thesimanalysisfunction | 2.8.7 | ad32eb746479240c4106296999957d6ff74aecdd | Kate Harborne | | 25/04/24 | *Bug fix.* Providing a meaningful error message from thevoronoi.Rfunction when you cannot bin enough particles to reach the requested voronoi bin N limit. Resolves issue #105. | 2.8.6 | 4e8f0af0ebc0e43cc31729978deb3a554e039f6b | Kate Harborne | | 23/04/24 | *Bug fix.* Fixing a bug inwritesimspinFITS.Rwhere the observed SFR maps were not being written to the FITS file as an index was incorrect - now fixed and checks written to ensure that theOBSSFRandRAWSFRmap extensions are not identical. | 2.8.5 | 21b5d219de05927918c5569c11e79709cea250df | Kate Harborne | | 26/03/24 | *Bug fix.* Updating the read in functions for cosmological models input to prevent the code falling over when attributes are not provided for Datasets that are unnecesary for SimSpin to function. This means HDF5 files extracted directly from the TNG database for galaxy cutouts will now produce outputs successfully, fixing Issue #95. | 2.8.4 | cdb17c1a2aaa1f2b8ea973eaad44fb22a625663b | Kate Harborne | | 13/03/24 | Adding observation-ally mapped mass and SFR images to the output$observedimages- the raw images are not blurred with the PSF, but for comparison with other observed properties, this PSF convolution is necessary. Now mass maps are output on allmethod="velocity"cubes as default and SFR maps on allmethod="gas"or"sf gas". | 2.8.3 | 2e878f77bd7f3415c02591678c1694be1b990b7d | Kate Harborne | | 29/02/24 | *Bug fix.* Updatingmakesimspinfileto account for theTimeat which the input simulation was extracted (for proper assignment of stellar ages relative to the snapshot, not z=0). Fixing issue #98.| 2.8.2 | 0469ff454756e7b6195bf927b7c867fd02f20743 | Kate Harborne | | 10/01/24 | Also updating treatment formassflag= TRUE. No longer will theobservedimagesoutputs change for the flag, the flux map will always be included. However, the kinematic maps observed will be weighted differently (by mass instead of the flux), which is now recorded in theobservationlog and output to FITS with a new header unit denoting mass rather than flux weighting. | 2.8.1 | 352c5601b04767e10d2598358b164f1b203a8d54 | Kate Harborne | | 10/01/24 | Standardising which cubes/images output are voronoi binned. Properties, such as the mass, flux and number of particles, are produced simply as the sum along that line-of-sight and as such should be presented at the pixel resolution of the instrument. As default, summed images are now given in this way, while any spectral/velocity cubes are binned along with any output average maps (kinematics such as velocity, dispersion, h3 and h4, metallicity and age). The same is done for gas maps, with all but the mass, SFR and particle number being given in binned form when the voronoi function is turned on. Also, addedrawimages$mass_image` to the output of spectral mode as this is now "free"" to produce. | 2.8.0 | 5af1ad3a90c7f84a55e6f9cb50492308fd422d7a | Kate Harborne | | 17/11/23 | Bug fix. The mass/flux in voronoi binned pixels were displayed as the sum of all the particles that fell within that bin. Now updated so that this value is averaged across the area of the bin (else outer larger bins appear brighter than inner ones...). Fixing issue #91. | 2.7.1 | e93c763c40ec670da58b37a353586887d0b34143 | Kate Harborne |

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Published by kateharborne over 1 year ago

simspin - SimSpin v2.7.0

Again, just a single change since the last release, but introducing the functionality to voronoi bin mock observations to meet some minimum number of particles per bin. This allows you to reduce the effects of shot noise on the resulting kinematic measurements. A summary of the significant changes are given below:

| Date | Summary of change | Version | Commit | Author | |---------- |-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |--------- |------------------------------------------ | ----------------- | | 25/10/23 | Adding functionality to voronoi bin individual pixels until the contain some minimum number of particles. This is important for reducing the effects of shot noise on the measured kinematics, especially in dispersion supported systems. We add a new function voronoi, which performs the tessellation algorithm as used in the Vorbin python package (Cappellari & Copin, 2003). When requested, this will add a new image to the raw_images output list called voronoi_bins, detailing the bin ids assigned to each pixel in the field-of-view of a given observation. | 2.7.0 | 2df3fc5e7f8aabd64c6aeb517c956ef30ffb50de | Kate Harborne |

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Published by kateharborne over 2 years ago

simspin - SimSpin v2.6.0

Only one significant change made since the last release, as detailed in the table below. Web documentation now describes the behaviour of the code in this new format. Should not introduce breaking changes to existing code, unless using the spectra generated for each particle from the SimSpin files directly.

| Date | Summary of change | Version | Commit | Author | |---------- |-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |--------- |------------------------------------------ | ----------------- | | 03/08/23 | Updating the information stored in the SimSpin files following a suggestion from SimSpin v2.5.0 paper review. Do not need to store the full spectrum for each particle. Just the weights and id's of the spectra within the template set. Reduces the simspin file sizes by factor of 100. Old SimSpin files will still work with the code, but will now issue a warning when using a file older than v2.6.0. Tagging for release. Thank you anonymous reviewer!!! | 2.6.0 | ecb9d38031b40e63216d6200409b24ece8fadb69 | Kate Harborne |

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Published by kateharborne almost 3 years ago

simspin - SimSpin v.2.5.0

v.2.5.0 - This marks the point at which the code has been released in line with the article submission, as can be seen here.

Summary of updates since v.2.4.0 release.

| Date | Summary of change | Version | Commit | Author | |---------- |-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |--------- |------------------------------------------ | ----------------- | | 19/07/23 | Tagging a stable release of the code to align with the submission of the SimSpin v2.5.0 paper to PASA on the 28th June 2023. | 2.5.0 | cc3b2018527995dfaf09130b1afbe4341566e4f7 | Kate Harborne | | 15/06/23 | Updating the noise implementation for build_datacube using the median flux pixel to scale the level of noise such that the S/N does not go extreme towards the peak flux or minimum flux in the image. | 2.4.10 | 3bf98efea656776436fca3384cda1411f8f9e642 | Kate Harborne | | 13/06/23 | Adding the thermal dispersion component to the observed gas maps. | 2.4.9 | d3e0675a80a0036da3e372344e40bf979ad9ffa7 | Kate Harborne | | 09/06/23 | Fixing the SFR maps produced in method = gas or sf gas mode. Previous values returned were mass-weighted mean SFR along the line-of-sight, now adjusted to give the sum of spawned fraction SFR along the LOS. | 2.4.8 | e1a6dd49d0aa74510c27aba5ccfeac8ab8a5e920 | Kate Harborne | | 26/04/23 | Inverse variance cubes have large values that do not save to FITS successfully. Dividing by 1e40 to remove this issue and incorporating this with the units. Also modifying S/N description to give the MINIMUM S/N in the image, not the maximum. | 2.4.7 | fb904cd302cc6b8edda2032bb68fa8cd6b233f8a | Kate Harborne | | 23/04/23 | Fixing the noise implementation in methods spectral and velocity. Adding inverse variance cubes to the output when a S/N value is specified. Incorporating tests to check proper incorporation and behaviour. | 2.4.6 | 8eef4e6dea8f9901b83ced8f2b43cee1438fe034 | Kate Harborne | | 18/04/23 | Updating the methodology for method = "velocity" (details below) and fixing dependencies (resolving the Rfits and ProFit versions clash). Added header information to the SimSpin file made such that the whole file can be recreated using the information in the file rather than having to retain the code used to build the file. | 2.4.5 | cdf5522fb6040b7a5fdcf5ea4a54df7e576f57d5 | Kate Harborne | | | 1. Modified the Gauss-Hermite fitting function to use the mean and standard deviation of the LOSVD as priors on the fit, but reporting the observed velocity and dispersion as those returned by the fit Gauss-Hermite along with h3 and h4. | | | | | | 2. Added measure of the residual between the best fit Gauss-Hermite and the true LOSVD at the velocity scale of the observing telescope. This is now returned to the user as an image in observed_images$residual. | | | | | | 3. Increased the number of velocity channels per velocity cube to extend well beyond (5 times the maximum range - previously just the maximum range) the range of LOS velocities in each simulation. This is done such that we fully sample the LOSVD for the fastest and slowest particles and fit returns a successful value. Velocity channel definition is now consistent with pPXF (i.e. min(diff(log(wavelengthsequence))) * .speedoflight). | | | | | 25/01/23 | Bug fix. Addressing issues #76 and #77. When working with the BC03 templates, the first AgeBin was labeled 0 Gyr. This was causing a problematic log10() age bin when gridding up the templates to match to the stellar ages within the model such that any stars that fell into this bin were associated with spectra of NA's. This was not clear until testing with IllustrisTNG galaxies that have very young stars in the outputs. Now fixed by setting low age bins to non-zero values (i.e. 0 Gyr -> 1e-9 Gyr). Tests and documentation updated for these changes. | 2.4.4 | 956405f2c9528809bbaee759e125bc8526b0060f | Alice Serene & Kate Harborne | | 17/01/23 | Bug fix. Addressing issue #12. When a hydrodynamical simulation HDF5 is input without a RunLabel in the header, the file is processed like an N-body model (often meaning that no stellar particles are read in.) Catches added to stop the code with meaningful error if this is the case. Further interpretation added for named datasets in Hydro default names rather than expected. | 2.4.3 | 44b703304efde31d08fd8e857f986fc93879b3ee | Kate Harborne | | 16/01/23 | New feature! Update to add support for IllustrisTNG. Updates to `makesimspin_file,utilities`, and tests were implemented. | 2.4.2 | 5fb9ad5803f26bc1dad81f9818dff24225f4e1d0 | Alice Serene | | 28/10/22 | Bug fix. Addressing issue #72. Output fluxes are much higher than they should be due to an improper scaling of SSP templates wrt stellar particle mass. | 2.4.1 | ef171e40626edacc350c1e119cc6f807c6335529 | Kate Harborne |

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Published by kateharborne almost 3 years ago

simspin - SimSpin v2.4.0

Stable release of SimSpin for use with the web application developed by ADACS. This version includes the following new features/updates from v2.2.0, incorporating all changes from 13/06/22 - 03/10/22:

| Date | Summary of change | Version | Commit | |---------- |-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |--------- |------------------------------------------ | | 30/09/22 | Tagging a release for the SimSpin web app. This update has no code developments from the previous version. Stable version. | 2.4.0 | 9307ffb7b1775540426966eb2903da119c6d7495 | | 15/09/22 | Minor bugfix. Addressing issue #69 (nee #59 which was not actually fixed in previous attempts!). Removing final long entry ("apertureregion") from OBSTABLE so that entries are never too long to be written to a FITS table. | 2.3.17 | 95c1687a4f7af47ef458d1faf191281e0f9f6121 | | 24/08/22 | Minor bugfix. Addressing issue #66. Prior to v2.3.16, gas particle SFRs have been stored in units of g/s rather than Msol/yr. This has been fixed within the make_simspin_file function from v2.3.16 and any SimSpin files < v2.3.16 will now issue a warning when building a gas observation with build_datacube and method = 'gas' and adjust the SFR units. Other updates include: | 2.3.16 | 8e0f382a825791cd2026c72c8eefea9006d75f11 | | | (1) Warnings issued when method requested is not possible with the input SimSpin file (i.e. method = "gas" when the file contains no stellar particles. | | | | | (2) Warnings issued if you request a half-mass radius alignment with an n-body input simulation (as these are now not aligned by default). | | | | | (3) Addition of filter_name to telescope for clarity in the output observation table. | | | | 12/08/22 | Minor bugfix. Addressing issue #64. Galaxy simulations will not be aligned if the input is from an 'nbody' simulation. This avoids the flip/flop effect in between snapshot time steps. Other changes include the default for signal-to-noise to be set to NA for ease in the SimSpin app. If no value is specified, no noise will be added to the observation. This is now updated also in the documentation. | 2.3.15 | 74b569992f3db0b1d0b5a46c06e64d510479e94b | | 03/08/22 | Minor bugfix. Addressing issue #60. Ensuring that raw images produced for any stellar mode observations (i.e. method="spectral" or method="velocity") are consistent. New images added to spectral mode outputs (age and metallicity summaries) and all updated to mass weighted quantities. | 2.3.14 | 6ab467718664be1db0fa653b0fb219d073472d43 | | 01/08/22 | Minor bugfix. Addressing Issue #59 (which was not actually fixed in previous attempt!). Making sure long entries (i.e. waveseq, vbinseq or sbinseq) are never too long to be written to a FITS table. Change to range (i.e. min and max) to remove this as an issue. | 2.3.13 | eee7c31c8686a5056ff3419136cb384d40693e50 | | 29/07/22 | Minor bugfix. Addressing Issue #59. Making sure any NA values within the observation list are re-written as "None" in characters before writing to FITS. | 2.3.12 | 91e8e890e3154169b7bb078e80efe979c006667b | | 28/07/22 | Minor bugfix. | 2.3.11 | c7114e4727e7eb2396d9af075c85df17b6c950e2 | | | (1) Update to `writesimspinFITS. Theobservationsummary output bybuilddatacubewas previously never saved to the FITS file output. However, this makes it difficult to reproduce if the only saved output is a FITS file. With this update, the listobservationis now written to a table in EXTNUM = 3 for all FITS files produced. | | | | | (2) Update tomethod = "gas". Particle images will now be output when method isgas, along with both the raw and observed mass, velocity and dispersion maps. This mode was not updated with thespectralandvelocitymodes in v2.3.8 upgrade. This has now been remedied. | | | | | (3) Addition of plotting functions for the gas mode specific images:plotSFRandplotOH. | | | | 27/07/22 | *Minor bugfix.* Update tomakesimspinfileto increase the level of compression for output files. This will have no change on functions down the line. Also, fixed the units forploth4which was writing "km/s" when there are no units for h4. | 2.3.10 | be0c281cb69f7352d3a88f59f7777bbffdc149d6 | | 22/07/22 | **New feature!** Update to add plotting functions. A suite of functions with standard colour maps for each image type:plotflux,plotmass,plotvelocity,plotdispersion,ploth3,ploth4,plotage,plotmetallicityandplotparticles. Axis names and colour bars can be modified by the user. All new functions are tested and documented. | 2.3.9 | 2aceb04d6e40196168de13c4bbd450280de46c4d | | 21/07/22 | *Minor bugfix*. With update to v2.3.5, flux conservation was implemented in mode="velocity". During this upgrade, filters were properly implemented meaning that re-run observations will now produce flux maps = 0 where previously they had flux. This occurs when the filter wavelength range does not overlap with the observed telescope wavelength range. | 2.3.8 | e043f8302ea8f5d0ac189a44edf33b6ceb866f50 | | | (1) Errors now issued bytelescopeif you request a filter that will not allow any flux through the telescope wavelength range. | | | | | (2) Default filter has been changed intelescopetofilter = "g"so that there is overlap between the default parameters. | | | | | (3) Errors issued if the requestedhalfmassinmakesimspinfile` is greater than the total mass contained in the input simulation file OR if smaller than the mass of a single particle. | | | | | (4) All images are now written to FITS (not just a selection dependent on the method selected). Default names for files now include a prefix "raw" or "obs" to denote which list the image comes from within the builddatacube output. | | | | 19/07/22 | New feature! Update to build_datacube. Observed images produced with method = 'velocity' now include measured h3 and h4 higher order kinematics. This is done by fitting the LOSVD within the output velocity cube with a Gauss-Hermite polynomial. These images are now included and written to single or split FITS. | 2.3.7 | 2dbca740c29637f8802f1c92ce48ca0b215f5458 | | 18/07/22 | Minor bugfix. Update to make_simspin_file. Modifying how gas particles are smoothed for HorizonAGN simulations - rather than a uniform smoothing across the cell cube, we now assign a smoothing length dependent on the mass/density and smooth with a cubic spline. | 2.3.6 | fcd915985e6ad477538c7f4be3c08428d0fd7fe1 | | 18/07/22 | Minor bugfix. Update to build_datacube. Implementing enforced flux conservation across the telescope wavelength range between input template and output observed spectrum. Fix for both spectral and velocity cubes. Tests added to ensure that outputs in parallel and series are identical. | 2.3.5 | bf4556234127c7352604863b24b4649c9fda5341 | | 12/07/22 | Minor bugfix. Update to build_datacube. Returning a meaningful error if the requested centre position is outside the range of the provided input file. Tests added to ensure behaviour now works as expected. | 2.3.4 | 30a30eb4758a87edbeb7345f1d62d3b256ad5ff2 | | 01/07/22 | Minor bugfix. Adding support for ingestion of HorizonAGN data (i.e. AMR code data support). Updates to make_simspin_file, utilities and tests were implemented. Addresses Issue #42. Also, made observational images consistent with raw images (removing NAs and replacing with 0's). | 2.3.3 | e4ca02bf3ab482a0fd9a1abd6e2442c0e4a41da4 | | 27/06/22 | Minor bugfix. Updating build_datacube to make sure backwards compatibility. If a SimSpin file from versions preceading v2.3.0 are used with the function, it now assumes a header based on the wavelength information. This will also issue a warning to explain and encourage the user to remake their SimSpin file. Errors if custom template is used with no details of LSF or waveres. Addresses Issue #45. | 2.3.2 | cfdfdbf304df0243efd608539d5087e09a223525 | | 20/06/22 | Minor bugfix. Updating telescope class to allow two modes of spatial resolution of the MUSE telescope. This addresses Issue #43. Similarly, we've added the requirement for the MUSE field-of-view to be less than 60" and for MaNGA fov to be from the specific selection of options (12, 17, 22, 27, 32). | 2.3.1 | dbba3af4c926e9c8c9e2a650d22dee2bf0d0f837 | | 13/06/22 | Medium change Update to `builddatacube()andmakesimspinfile()- | 2.3.0 | 62afd85ecd11bfdfb91832d8de49c9abe40eca9f | | | (1) Output SimSpin files now include an additionalheaderelement describing the code version with which the file was made, the properties and name of the template used to derive particle spectra, and the type of input simulation. | | | | | (2) The LSF treatment inbuild_datacube` has been modified to account for the fact that the underlying spectral templates have a LSF themselves, and it is only necessary to convolve these up by the mean-square difference between the teescope LSF and the input template. | | |

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Published by kateharborne over 3 years ago

simspin - SimSpin v2.2.0

This release includes the following additions from v2.1.0. Due to the move of method from one function to another on 24/05/22, a new stable release of the code at v2.2.0 has been presented here.

| Date | Summary of change | Version | Commit | |--------|------------------------------------------------|--------|--------| | 03/02/22 | Update to write_simspin_FITS() and observation() - | 2.1.1 | fe8729b86d9b670ed64ea68a3f3c25433cbcd803 | | | (1) Adding in the SimSpin version number with which the observation has been run against the keyword origin. | | | | | (2) Modifying the output RA and DEC keywords to allow the user to specify the (x,y,z) position of the simulated galaxy within the simulation box and produce a unique RA/DEC value (assuming the observer sits at (0,0,0) in the box!) | | | | 23/02/22 | Update to write_simspin_FITS() and build_datacube() - | 2.1.2 | | | | (1) Adding the ability to split_save to both functions i.e. when the input data includes both the cube and summary images, this mode give the user to option to save all components into seperate files automatically. If "FALSE" (as default), all components will be saved into subsequent HDU's of the output FITS file. | | | | | (2) Modifying the EXTNAME for the HDU associated with the "raw" particle data (now prefixed with "RAW_") and the "observed" collapsed velocity data cubes (now prefixed with "OBS_"). | | | | | (3) Update to the depends version number of R. Now requires R >= 4.0. This is to enable the generation of a container for the web application of SimSpin. | | | | 03/03/22 | Minor bugfix. Specifying branch of ProSpect in the remotes installation. | 2.1.3 | a8b45bafa139304ee5d66d559b9b1cb0f510e365 | | 14/03/22 | Minor bugfix. Specifying all initialised arrays with the correct type (rather than initiallised NAs) to imporve code memory handling and speed. | 2.1.4 | 6a4c46fe9da4d2bafbecd1251ae7b97664cba970 | | 24/03/22 | Minor bugfix. Modifying how particle and spectral data are treated in the back-end of the code to reduce memory load. Also, removed ProSpect depenedency and fixed bug in interp_quick() where interpolation above the expected range was returning a value rather than an index. | 2.1.5 | ba8e95f704fe4d0c0faf38fc198091c28f07cdd8 | | 24/05/22 | Medium change Update to build_datacube() - | 2.2.0 | | | | (1) method of observation is now specified directly in the build_datacube function - rather than within telescope(). This means that a given telescope can be specified once, while the type of cube being built can be modified. This is more logical as an inbuilt telescope type now only needs to be specified by "type". | | | | | (2) output_location has modified behaviour to allow a user to just specify an output PATH (rather than having to auto-save FITS to the same directory as the input SimSpin file). Documentation updated to reflect this change. | | |

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Published by kateharborne about 4 years ago

simspin - SimSpin v2.1.0

Updated feature to SimSpin.

Merged dev-Pointings with Main branch such that new version 2.1.0 includes the following features:

• New pointing feature: Addition of observingstrategy functionality. Can now specify a "pointing" offset to align the centre of the aperture with a location along the galaxy - specified in (x,y) offsets from the galaxy centre. Offsets can be specified in units of kpc or deg. See NEWS.md and ?observingstrategy for further details.

• New ability to specify projected distance to the observed galaxy in units of redshift, physical distance in Mpc or angular scale in units of kpc per arcsecond. New input parameters are named distz, distMpc and distkpcper_arcsec. Input parameter z is still supported, but will issue a warning to update input names for versions >v2.1.0.

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Published by kateharborne over 4 years ago

simspin - SimSpin v2.0.6

Tagging new release (v2.0.6) This release contains a series of updates to improve the clarity of produced data products. These updates are summarised in the table below.

This release also marks the change to an improved workflow: - Any code additions will be developed in a seperate named branch. - SimSpin version numbers will be updated with each new merge and a new release tagged.

| Date | Summary of change | Version | Commit | |---------- |---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |--------- |------------------------------------------ | | 26/08/21 | Adjusting the images output from the build_datacube() function to have clearer labels - images until v2.0.3 have been produced as raw particle images before convolution with a PSF, though this was unclear. To improve, the following changes have been implemented: | 2.0.4 | b6b6089a6295d2a47794be100e04494261e79476 | | | (1) raw_images output as a list of arrays. These images contain the raw binned particle data. Specific images included depends on the method chosen in the telescope() function. | | | | | (2) observed_images output as a list of arrays. These images are produced by collapsing the observed cube to produce kinematic maps. The observed maps from a method="spectral" cube will be NULL, as these would be produced using pPXF. | | | | | Required changes made to write_FITS_file() function to deal with the new list format. | | | | | Tests added include: | | | | | (1) Expecting all output data cubes to have length = 4. | | | | | (2) Expecting all mode="spectral" outputs to have raw_images as a list, length = 3, and observed_images = NULL. | | | | | (3) Expecting all mode="velocity" outputs to have raw_images as a list, length = 6, and observed_images as a list, length = 3. | | | | | (4) When mass_flag=T, there should be an array image in each of the lists that is called mass_image rather than flux_image. | | | | 20/09/21 | ~~Adding in optional Voronoi binning to increase particle counts per pixel. Unfinished at this stage, but introduces no breaking changes. New minor version number will be included once implemented.~~ Moved to new branch 25/11/21 - dev-Voronoi. | 2.0.5 | 2d1dd7f802d67fe9dd286888923f3ac1f9ea5889 | | 11/11/21 | A few updates to build_datacube() - | 2.0.5 | 07e9a099c3fdfb5ae4ddbf587a0bf8b191b86f12 | | | (1) When blurring velocity cubes, objects were being returned with the name spectral_cube despite the v2.0.4 updates. This has now been raised in issue #16 and fixed in latest commit. | | | | | (2) No particles images were generated in spectral mode. This was raised in issue #15 and solved in later commit. Spectral mode will now return an image containing the number of particles per pixel within the raw_images header. | | | | | (3) Adding these raw images as HDU in the spectral FITS file produced. All raw images included so 4 extra HDU. | | | | | Tests added include: | | | | | (1) Check that in mode = velocity and blur = T, returned object includes an array named velocity_cube and not spectral_cube. | | | | | (2) Update the number of expected images in the raw_images header to be 4 rather than 3 (now with added particle number image for spectral mode). | | | | 26/11/21 | Update to write_simspin_FITS() - renaming the keywords in the FITS cubes output (header of HDU = 2) for all output files (i.e.mode = spectral, velocity and gas). Adjusted so that post processing with pPXF is consistent. Thanks @margarita-luna! | 2.0.6 | 8c8302af61058c6772cbda1d64b3cc578cbeac8f |

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Published by kateharborne over 4 years ago

simspin - SimSpin v2.0.5

In v1.1.3 of SimSpin, “kinematic” data cubes were produced. From these cubes, observables were constructed using tools within the package.

SimSpin v2.0.x has been designed to generate a data product that is directly comparable to the observational equivalent IFS data cubes such that output can be analysed using observational pipelines. This means that observational data and simulation data can be processed in the same manner.

We have also removed some of the barriers for entry. SimSpin can now read particle files natively, making running the Python createSimSpinfile.py obsolete for this version. Simply provide the particle file as output by the simulation to the package for processing.

We have made this a pre-release of SimSpin v2.0.x to allow other users to inspect and suggest changes prior to the full release. We have a series of intended additions to make prior to full release that will require external input.

For examples of code usage, check out Rpubs for a step-by-step v2.0.0 walk-through.

Indended improvements for full v2.0.0 release: - Support for further simulation outputs (current support includes EAGLE, Gadget binary type 1 and Gadget HDF5 outputs). - Implementation of emission lines - Implementation of dust absorption - FITS file outputs with updated header inputs to match different surveys

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Published by kateharborne over 4 years ago

simspin - SimSpin v1.1.3

Adding a final bug fix to v1.1 in order to avoid the issue brought up by comments on commit 0b472e0777f76fde75a81ac60026c0b2182cf958. These changes are covered in the commit f141ebfc02f79c98c0307e4adb17845e4c2d78be.

This is the final stable release of SimSpin v1 in which kinematic data cubes are generated for each galaxy.

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Published by kateharborne over 5 years ago

simspin - SimSpin - v1.1.2

In this release, we have corrected the aperture treatment - all particles that within the full pixel aperture are included in an observation (previously, in the pixel bin at the edge of the image, particles were only considered if within the inner half of the bin, an effect due to considering the centre of the pixel to be the identifier, fixed in commit bcbdd44a8bfe24838c873848609aa8b7e83f754b). We've also updated the align function to work with the angular momentum vector rather than the moment of intertia tensor (commit ab27a69d8bd440f1be97c6d6234456126747bf09). Finally, updating functions in utilities.R so that they are up to date with the most recent version of ProSpect (commit b3cc8ee7f57fc2bce38553404672897e27da22dc).

This release is intended as the last stable version of the mock "kinematic" data cube product. The aim of v2.0.0 (due for release in December 2020) is to implement the production of spectral data cubes.

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Published by kateharborne over 5 years ago

simspin - SimSpin - v1.1.1

Adding in optional parameters to add sky RMS noise to your observational images. This can be done in one of two ways: (1) at the point of generating the observational images in the obskinematics() function, such that this noise is incorporated into the calculations of the kinematic parameters, or (2) at the point of writing the images to a FITS file in the simFITSimage() function.

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Published by kateharborne over 6 years ago

simspin - SimSpin - v1.1.0

Adding options to measure V/σ and λ_R simultaneously as standard. Further allowing the user to measure radii using the circular and elliptical definitions (as in Emsellem et al., 2007 & Cortese et al., 2016).

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Published by kateharborne over 6 years ago

simspin - SimSpin - v1.0.0

SimSpin - v1.0.0

This major version release coincides with the SimSpin code paper submission to Astronomy and Computing and the code to ASCL.

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Published by kateharborne about 7 years ago