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MCX v2024.2 (Interstellar Ion)

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@fangq fangq released this 15 Mar 22:23
· 68 commits to master since this release
v2024.2
eae5b20

Monte Carlo eXtreme (MCX) - CUDA Edition

v2024.2

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What's New

MCX v2024.2 contains both major new features and critical bug fixes.
It is a strongly recommended upgrade for all users.

Specifically, MCX v2024.2 received three important new features:

  • user-defined photon launch angle distribution (#13)
  • simulate multiple sources in a single session (#163)
  • per-voxel mua/mus/g/n format support (#203)

Similar to the user-defined phase-function feature included in
MCX v2023, the first feature allows users to define the zenith angle distribution for
launching a photon, relative to the source-direction vector, also via
a discretized inverse CDF (cumulative distribution function).
In MATLAB/Octave, they can be set as cfg.invcdf or cfg.angleinvcdf,
respectively. We provided ready-to-use demo scripts in
mcxlab/examples/demo_mcxlab_phasefun.m and demo_mcxlab_launchangle.m.

The second feature allow users to specify more then one sources of the
same type when defining srcpos, srcdir, srcparam1 and srcparam2.
Each source can have independent weight controled by the 4th element of srcpos.

Aside from new features, a severe bug was discovered that affects all
pattern and pattern3d simulations that do not use photon-sharing,
please see

#212

Because of this bug, MCX/MCX-CL in older releases has been simulating squared
pattern/pattern3d data instead of the pattern itself. If your simulation
uses these two source types and you do not use photon-sharing (i.e. simulating
multiple patterns together), please upgrade your MCX/MCX-CL and rerun your
simulations. This bug only affect volumetric fluence/flux outputs; it does not
affect diffuse reflectance outputs or binary patterns.

It also includes a bug fix from #195 regarding precision loss when
saving diffuse reflectance.

We want to thank Haohui Zhang for reporting a number of critical issues
(#195 and #212), Liam Keegan for contributing a patch
to extend the slit source (#214). ShijieYan and fanyuyen have also contributed
to the bug fixes and improvements.

The detailed updates can be found in the below change log

  • 2024-03-13 [abdee14] [bug] fix multi-source replay bug, close #215
  • 2024-03-11 [9250a0d] [doc] make final doc update, bump pmcx to v0.3.2
  • 2024-03-10 [4e7f404] [ci] revert to windows-2019, add help info for #214, add note on nvidia-uvm
  • 2024-03-10 [2750d70] [ci] choco install is failing on Windows, see actions/runner-images#9477
  • 2024-03-10 [7b6e0e0] [optimize] cut hyperboloid gaussian register use from 15 to 3, #127,#214
  • 2024-03-10 [a2279d6] [optimize] reduce gaussian slit register use from 9 to 2, #214
  • 2024-03-08 [4708e10] [doc] Create pull_request_template.md
  • 2024-03-08 [14ca45d] [feat] use 'make register' to report register counts in the Makefile
  • 2024-03-07 [411a007] [feat] add gaussian broadening to slit source (contributed by Liam Keegan, #214)
  • 2024-03-04 [1e6c403] [doc] update instructions on running mcx on hybrid GPU Linux laptops
  • 2024-03-04 [0344d84] [bug] fix cuda core count for Ada and Blackwell
  • 2024-02-27 [558dbab] [pmcx] bump pmcx to 0.2.12 after fixing critical bug #212
  • 2024-02-27 [8e03878] *[bug] critical: fix double-multiplication of pattern launched weight, fix #212
  • 2024-02-23 [61ae0b8] [bug] fix detid value #209
  • 2024-02-23 [90e2419] [bug] fix pmcx dettpsf overwrites input bug
  • 2024-02-21 [744fba2] [bug] update srcparam2 after volume preprocessing close #206
  • 2024-02-18 [dbb23be] [ci] test removing lazhelphtml.pas to avoid error on linux/macos runners
  • 2024-02-18 [4c88de2] [ci] test fix for lazarus 3.0 build error on macos action
  • 2024-02-18 [54f732e] [mcxcloud] support backup servers, support x/y/z slice view and time-gates
  • 2024-02-16 [8a8ff90] [ci] install libomp before downgrade xcode
  • 2024-02-16 [99ca38f] [ci] test libomp error on macos runners
  • 2024-02-13 [cb9b6c2] [doc] update openjdata to neurojson
  • 2024-02-04 [007ecce] [feat] accept 3-element srcparam1/srcparam2 in mcxlab/pmcx
  • 2024-01-23 [20b0aa2] [minor] debug addlog callback error
  • 2024-01-23 [f63f73b] [bug] fix chrome webpage error messages
  • 2024-01-11 [73fe834] [mcxcloud] add the missing flag to show optional json fields
  • 2024-01-01 [0eb1a48] [doc] update changelog
  • 2024-01-01 [4232764] [mcxlab] add speed comparison between different media formats
  • 2024-01-01 [3bca606] [minor] fix typo
  • 2024-01-01 [51003bc] *[format] automatic format all matlab script with miss_hit
  • 2024-01-01 [9951dd8] [minor] update copyright year
  • 2024-01-01 [0f48b8f] [format] update source unit header info
  • 2024-01-01 [6707eaa] [bug] fix detp output bug after adding srcid, #163
  • 2024-01-01 [49b5cef] [ci] update lazarus on windows to avoid build crash
  • 2024-01-01 [9dc832d] *[feat] support --srcid to simulate all, one or separate sources, #163
  • 2023-12-31 [f5b4aaa] [minor] fix file name spelling
  • 2023-12-30 [7e1aec0] *[feat] simulate multiple sources, close #163
  • 2023-12-29 [59f18a7] *[feat] complete per-voxel mua/mus/g/n format support, close #203
  • 2023-12-29 [1e3b031] [feat] initial implementation of mua/mus/g/n all float format
  • 2023-12-29 [1100e36] [bug] fix mcx2json bug when exporting 4D vol, fix #200
  • 2023-12-17 [9831c7e] [debug] print jdata compression message inside matlab
  • 2023-11-27 [28e5101] [pmcx] bump pmcx version to 0.2.7
  • 2023-11-27 [fae5b72] [pmcx] typecast traj.id from float to uint32, fix #199
  • 2023-11-16 [4eec905] [mcxlab] add demo script comparing conv vs direct area src
  • 2023-11-10 [6771752] [ci] fix matlab mex error after mingw64 was removed, matlab-actions/setup-matlab#75
  • 2023-11-08 [f4aec48] [ci] test conda command to install octave on mac
  • 2023-11-08 [c976cbf] [ci] brew refuses to install octave, switch to conda
  • 2023-11-07 [325a522] [release] post v2023 release action
  • 2023-11-07 [a710ab3] allow converting integer cfg.vol to json
  • 2023-10-31 [d6c64e4] [test] fix rng test after make double
  • 2023-10-30 [08361eb] [pmcx] bump pmcx to v0.2.6 with dref fix #195
  • 2023-10-30 [9220578] *[bug] apply #41 like 2xfloat-buffer for dref accumulation, fix #195
  • 2023-10-24 [961d059] pattern json data rstrict to single,set show_opt_in option
  • 2023-10-24 [5f130fc] use 2d pattern by default
  • 2023-10-24 [db608f7] use jq to format json schema; add Source.Pattern in schema
  • 2023-10-14 [4c365f9] update zh-cn translation
  • 2023-10-12 [8d23726] fix windows ci error
  • 2023-10-12 [2904cc3] avoid error when compressing binaries
  • 2023-10-12 [2ebe3de] include language locale files in github CI build
  • 2023-10-12 [5782cff] enable DefaultTranslator for i18n support in mcxstudio
  • 2023-10-11 [833d117] add compiled mo locale file
  • 2023-10-11 [ad298c1] add initial translation for simplified Chinese
  • 2023-10-11 [aa15780] add strings from additional forms
  • 2023-10-10 [14285a0] *prepare for adding i18n support
  • 2023-10-10 [c5496ac] *force invcdf/angleinvcdf even count of float, reapply 53d7ac0, fix #193
  • 2023-10-09 [ca1bf2b] use focal-length to select interpolation or discrete mode, #129
  • 2023-10-08 [be8b8c3] *support user-defined launch angle profile, fix #129
  • 2023-10-03 [2ad9307] update winget package files to the v2023 release
  • 2023-10-03 [26ede84] rename winget package file
  • 2023-10-03 [2e71a51] treat cfg->bc as a null-ending string, #191 #192
  • 2023-10-03 [68db492] make cfg->bc a null terminated string
  • 2023-10-02 [35170f9] Merge pull request #192 from lkeegan/pmcx_bc_overflow_error
  • 2023-10-02 [3c77170] Fix buffer overflow error when bc has 12 characters
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