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Published December 6, 2023 | Version 0.9.00
Software Open

mrirecon/bart: version 0.9.00

  • 1. ROR icon Graz University of Technology
  • 2. ROR icon University of Göttingen
  • 3. University of Texas at Austin
  • 4. ROR icon Heidelberg University

Description

Changes:

  • new tools: nlmeans, tensorflow, nufftbase, calc, psf
  • calc: access some mathematical functions from the command-line
  • nlmean: non-local means filter
  • tensorflow: load and apply Tensorflow graph
  • nufftbase: compute Fourier transform of basis used in nuFFT
  • psf: compute PSF
  • nufft: various new options to control behavior
  • nufft: basis and weights
  • nufft: zero and low memory modes
  • nufft: use -x for image dimensions
  • sim: Bloch-McConnell simulations
  • traj: rotation of Cartesian trajectories
  • traj: RAGA trajectories
  • reconet: MPI support
  • reconet: tensorflow graph support
  • reconet: export graph for visualization
  • pics: mpi and multi-GPU support
  • pics: add shared-img-dims option to pics
  • pics: add option to specify FISTA
  • pics: preconditioning
  • nlinv: add option to specifiy non-Cart image size
  • phantom: BRAIN geometry
  • phantom: 64ch sensitivities
  • phantom: ellipsoid simulation
  • phantom: support for generic geometries
  • mobafit: add basis to mobafit
  • mobafit: add IR and IR LL to mobafit
  • mobafit: magnitude fitting
  • mobafit: scaling and initial values
  • mobafit: minimum and maximum bounds
  • mobafit: GPU support
  • nrmse: add option for scientific notation
  • moba: Export and ksp coils in moba
  • moba: Various new options
  • estdelay: support for looping
  • version: show tensorflow and MPI support
  • signal: Spin-Echo signal model
  • scripts/shell: kspace_precond.sh: Script to compute k-space preconditioner
  • scripts/python: bart_tf.py: Export tensorflow graphs for use with BART
  • scripts/python: bart.py: Print stdout and stderr output from bart call
  • scripts/python: splines_from_svg.py: extract spline control points from SVG files
  • library/geom: Brain geometry
  • library/misc: better backtraces
  • library/num: md_ravel_index, md_select_strides, md_zsmin2, md_unravel
  • library/num: library for complex-valued Gaussians
  • library/num: cuda kernels: zdot, zfsq2, zfftmod_3d, zsmin, compress, decompress
  • library/num: cuda batch kernels: xpay, axpy, dot_bat
  • library/num: cuda kernels: (z)add_unfold, (z)mul(c)_unfold, (z)fmac(c)_unfold
  • library/num: md_nlmeans(2), md_nlmeans_distance(2)
  • library/num: library for MPI sync, broadcast, reductions
  • library/num: double precision bessel function
  • library/num: special functions: sinc, sincf, jinc
  • library/num: library for virtual pointers
  • library/num: time-ordered matrix exponentials: mat_to_exp
  • library/num: functions for adjoint sensitivity analysis
  • library/num: functions for quadratures: trapezoidal, simpson
  • library/num: configure fftw wisdom/measure via environment variable
  • library/simu: Bloch McConnell simulations
  • library/simu: Spin Echo signal model
  • library/linops: linop: flip
  • library/nlops: nlops: zphsr and zabs
  • library/nn: nlops: ardioid, siglog, igaussian
  • library/network: tensorflow networks
  • library/noncart: nufft inverse gridding on GPU
  • library/noncart: RAGA trajectories
  • library/iter: weighted least-squares prox function
  • library/iter: batched conjgrad
  • library/iter: multiple regularizations for primal-dual
  • general: webasm support
  • general: BART_ prefix to environment variables
  • general: generic loop interface to bart
  • general: basic MPI support
  • general: OpenMPI and GPU for gridding
  • general: zero-overhead mode for nuFFT
  • general: performance improvements
  • general: many GPU improvements, unified GPU initialization
  • built: FORTRAN and PNG options
  • built: LTO integration test
  • built: OMP=0 CUDA=1 compilation
  • built: more unit and integration tests
  • many other bug fixes and improvements

Files

mrirecon/bart-v0.9.00.zip

Files (1.6 MB)

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Additional details

Related works

Is supplement to
Software: https://github.com/mrirecon/bart/tree/v0.9.00 (URL)

Funding

NIH Grant U24EB029240 U24EB029240
National Institutes of Health
Mathematics of Experiment CRC 1456
Deutsche Forschungsgemeinschaft