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version 0.4.04

Changes:
	- new tools: index poly wshfl zexp
	- index: generate indices
	- poly: generate polynomial patterns (Siddharth Iyer)
	- wshfl: wave-shuffling (Siddharth Iyer)
	- zexp: replace zexpj with zexp for complex exponentials
	- pics: support for temporal basis
	- pics: overlapping blocks option for LLR (Jon Tamir)
	- pics: make basis pursuit possible for noncartesian data
	- pics: non-negative constraint (Jon Tamir)
	- nlinv: introduce option for sms
	- ecalib: fix bug in phase rotation
	- ecalib: add debug_level argument
	- estdelay: RING method (Sebastian Rosenzweig)
	- traj: Half circle golden-ratio sampling (Sebastian Rosenzweig)
	- traj: Option for asymmetric trajectories (Sebastian Rosenzweig)
	- bench: add option to select benchmarks using bitmask
	- phantom: add geometric object phantom (Sebastian Rosenzweig)
	- phantom: fix inconsistency between img-phantom and k-phantom for rectangles (Sebastian Rosenzweig)
	- copy: enhance copy command to do simple copies
	- toimg: windowing and option to re-scale images to full dynamic range (Jon Tamir)
	- generic: many new integration and unit tests
	- generic: improved WSL support (Soumick Chatterjee)
	- generic: add mkl support (Jon Tamir)
	- generic: bart as a library (Damien Nguyen)
	- generic: CMake improvements (Damien Nguyen)
	- generic: Save FFTW wisdom when TOOLBOX path is set (Siddharth Iyer)
	- generic: fixes for memory leaks
	- library: optimized strided copy on GPU (Simon Yeung)
	- library: parallelization to fftmod
	- library: nufft: efficient use with temporal basis
	- library: nufft: fix issue with over-sized trajectories
	- library: add runga-kutta ode solver
	- library: iter/italgos: alternating minimization (Christian Holme)
	- library: irgnm: add minimum for alpha as parameter (Christian Holme)
	- library: step size support in chambolle-pock
	- library: add tenmul operator
	- library: add md_zexp
	- library: add zexp nonlinear operator
	- library: add linop_null and linop_plus
	- library: add md_zsum: (Complex) sum along specified dimensions (Sebastian Rosenzweig)
	- library: fix bug in septrafo (broke cdf97 wavelets)
	- many other bug fixes and improvements

version 0.4.03

Changes:
	- nlinv: add ENLIVE support (Christian Holme)
	- nlinv: add (hidden) option to specify coil weighting parameters (Christian Holme)
	- nlinv: option for different pattern for each coil (Christian Holme)
	- nlinv: sensitivity output also when using GPU (Christian Holme)
	- nlinv: add timing output (Christian Holme)
	- nlinv: add option for debug level (Christian Holme)
	- nlinv: add option to provide initialization (Christian Holme)
	- nlinv: make IRGNM reduction factor configurable (Christian Holme)
	- nufft: add nufft according to conventional definition
	- ecalib: add option to turn off phase rotation (Jonathan Tamir)
	- homodyne: add option for uncentered ffts (Jonathan Tamir)
	- bench: add benchmarks for fft, fftmod, md_fft
	- library: admm: add parameter selection by residual balancing (Jonathan Tamir)
	- library: add function to detect nontrivial strides
	- library: fix bug for gpu-mode of cdiag operator
	- library: irgnm: add callback (Christian Holme)
	- general: add script for memory-economic use of espirit
	- build: updates and fixes for CMake
	- build: build fixes on Mac OS X
	- many other bug fixes and improvements

version 0.4.02

Changes:
	- new tools: std var vec wavepsf whiten
	- std: compute standard deviation (Jonathan Tamir)
	- var: compute variance (Jonathan Tamir)
	- vec: create vectors from the command line
	- wavepsf: create PSF for wave acquisition (Siddharth Iyer)
	- whiten: compute/apply whitening matrix (Jonathan Tamir)
	- pics: basis pursuit formulation (Jonathan Tamir)
	- nlinv: support for simultaneous multi-slice (Sebastian Rosenzweig)
	- nlinv: various enhancements and fixes (Christian Holme)
	- pics: support for simultaneous multi-slice (Sebastian Rosenzweig)
	- traj: radial simultaneous multi-slice trajectories (Sebastian Rosenzweig)
	- fft: uncentered option (Jonathan Tamir)
	- nufft: use Toepliz-mode by default
	- nufft: add GPU option
	- python 3 version for bartview (Siddharth Iyer)
	- fix compilation for Cygwin on Windows (Johannes Töger)
	- include relevant parts of LAPACKE in BART
	- library: add NIHT algorithm (Sofia Dimoudi)
	- library: add Chambolle-Pock primal dual algorithm for F(Ax) + G(x) (Jonathan Tamir)
	- library: add md_zss function for sum-of-squares (Jonathan Tamir)
	- library: improved parallelization (Michael Anderson)
	- library: joint l1-wavelet regularization
	- library: rename wavelet3 to wavelet
	- library: Hamming and Hann windows (Jonathan Tamir)
	- library: png write functions (Christian Holme)
	- library: initial interface for nonlinear operators
	- many other bug fixes and improvements

version 0.4.01

Changes:
	- new tools: casorati mandelbrot wavelet estshift estdelay ccapply
	- cc tool: new option to output compression matrix
	- traj tool: new option for gradient-error corrected radial trajectories
	- pics tool: fix for the use of weights for non-Cartesian trajectories
	- pics tool: fix for the use of weights with higher (temporal) dimensions (Jon Tamir)
	- pics tool: allow the use of higher dimensions in sensitivity maps (Jon Tamir)
	- nlinv tool: various fixes (Christian Holme)
	- threshold tool: fix for hard thresholding (Jon Tamir)
	- cmake: integration testing (Damien Nguyen)
	- cmake: CUDA support (Damien Nguyen)
	- fixes for a couple of memory leaks (Damien Nguyen, Christian Holme)
	- faster system tests, more unit tests and system tests
	- library: improved precision of wavelet filters
	- library: new functions for tensor multiplication (md_ztenmul, ...)
	- library: function to compute sensitivities with Biot-Savart law
	- library: functions for polynoms
	- library: improved and extended functions for splines
	- many other bug fixes and improvements

version 0.4.00

Changes:
	- new tools: copy, squeeze, flatten, delta, zexpj, invert
	- show tool: option to use custom number formatting
	- poisson: option to specify random seed in poisson (David Smith)
	- threshold: hard threshold option
	- join: append mode
	- nufft: nudft option
	- nufft: randshift for nufft
	- pics: batch mode
	- pics: FT as sparsity transform
	- nrmse: auto_scale option
	- fmac tool: if only two args are specified then squash-and-sum <input1>
	- remove rsense tool
	- support for cmake (Hans Johnson)
	- rename vars.(sh|m) to startup.(sh|m)
	- more efficient Matlab interface (Tim Loderhose)
	- write BART version and command line into created files
	- change fftw to use 64-bit interface
	- phase out old wavelet2 code
	- library: phase cycling for nufft
	- library: support weights in toeplitz mode
	- library: fmac operator
	- library: cabs: complex magnitude
	- library: md_compare
	- library: thomas algorithm
	- library: inital spline code
	- many other bug fixes and enhancements

bart (0.3.00-1) unstable; urgency=medium

  * Initial release. (Closes: #806762)

 -- Martin Uecker <martin.uecker@med.uni-goettingen.de>  Tue, 09 Feb 2016 23:42:36 +0100

version 0.3.01

Changes:
	- automatic build testing for Linux and MacOS X
	- automatic tests for some tools
	- a unit testing framework for functions
	- python wrapper: bart.py
	- fix problem with matlab wrapper
	- change default path for fftw on Mac OS X
	- new tools: carg, wavg
		- carg: complex argumemt
		- wavg: weighted average
	- library: tools for chebyshev approximation
	- library: improvements for type safety
	- many other bug fixes and enhancements

version 0.3.00

Changes:
	- all tools are integrated into the bart command
		(e.g. call "bart pics ...")
	- new tools: mip, lrmatrix, estdims, filter, estvar
		- mip: maximum-intensity projection
		- estdims: estimate dimension ffrom non-Cartesian trajectories
		- lrmatrix: (multi-scale) low-rank decomposition and matrix completion
		- filter: median filter
		- estvar: estimate noise variance from calibration matrix
	- removed deprecated tools: sense, relnorm
	- pics: multi-scale low rank regularization
	- pics: new options (scale factor, warm-start)
	- threshold: added divergence-free wavelet, locally low-rank, and wavelet thresholding
	- phantom: 3d image-domain + k-space
	- homodyne: various improvements and new options
	- new command-line completion script for bash shell
	- remove dependency on GSL
	- library: improved processing of command-line options
	- library: least-absolute deviation using reweighting (lad.c/h)
	- library: relax cuda fft constraints
 	- library: multind/vecops functions for comparisons
	- library: add {less,greater} than or equal to prox functions
	- many other bug fixes and enhancements

Debian-med package 0.2.09

version 0.2.09

Changes:
	- support multiple penalties in pics tool
	- fix problems with odd matrix sizes
	- fix performance regression (fftmod, gram_matrix)
	- added tools: show, rmnse, sub, fakeksp, version
      	- example script for GRASP reconstruction
	- experimental wave reconstruction
	- toimg: write sequence of 2D images
      	- make cfl file format reader forwards compatible
      	- a sampling pattern can be specified with rsense
	- autogenenerated .gitignore
	- exuberant ctags script
	- library: finite difference operator
      	- library: experimental simplex code
      	- library: generalized calibration matrix construction
	- other minor bug fixes and enhancements

Changes:

- nufft tool: support for additional (e.g. time) dimensions
- combination of 'sense' and 'nusense' tools into a single
  'pics' (parallel-imaging compressed-sensing) tool
- pics tool: support for additional (e.g. time) dimensions
- pics tool: multi-dimensional wavelet or TV penalties
- supports for Microsoft Windows with Cygwin
- a python-based image viewer (by Frank Ong)
- a wavelet tool (cdf97)
- an image export tool for PNG and proto-dicom
- support for odd sizes in the 'fftmod' function
- support for odd sizes in ESPIRiT calibration
- maximum-variance phase normalization of ESPIRiT maps
- computation of radial golden-angle trajectories
- workaround for a bug in GCC 4.6.3 (affects Ubuntu LTS 12.04)
- other minor bug fixes and enhancements

Changes:

	- document installation on Windows
	- don't set gcc 4.7 as default compiler for MacOS X
	- add missing make target for SAKE
	- option for static linking to Makefile
	- library for lowrank regularization
	- new option for a very basic lowrank regularization in sense
	- new 'batch_svthresh' function
	- block processing functions (num/blockproc.[ch])
	- divergence-free wavelet library
	- add help and error handling to bart.m
	- 'svd' and 'calmat' tools
	- rename 'resize' and 'svd' functions
	- add 'md_calloc' function
	- fft: add assert for null plan
	- linop interface for wavelets3 (waveop.[ch])
	- fix wavelet3 benchmarks
	- remove support for CULA
	- other minor enhancments and bug fixes

0.2.06