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* Merge branch 'master' into colourbay_initial_demojakobsj2019-02-1420-282/+2951
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| * Update README.mdvais-ral2019-01-291-1/+5
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| * Merge pull request #177 from TomasKulhanek/mastervais-ral2019-01-294-44/+7
| |\ | | | | | | Universal build script
| | * Merge branch 'master' into masterTomas Kulhanek2019-01-282-7/+11
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| * | UPDATE: CIL VERSION needs to be set (#173)Tomas Kulhanek2019-01-115-5/+59
| | | | | | | | | | | | | | | | | | | | | | | | * UPDATE: CIL VERSION needs to be set * UPDATE: jenkins build and variants * UPDATE: channels conda-forge and ccpi
| * | Norm2sq does not fail if cannot calculate Lipschitz constantEdoardo Pasca2019-01-081-5/+9
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| * | added L member to FunctionEdoardo Pasca2019-01-081-1/+1
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| | * UPDATEKulhanek2019-01-282-1/+4
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| | | * Update README.mdTomas Kulhanek2019-01-181-1/+1
| | | | | | | | | | | | ADD: build status from jenkins embeddable build status plugin
| | | * Update README.mdTomas Kulhanek2019-01-181-1/+2
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| | | * Update README.mdTomas Kulhanek2019-01-181-0/+1
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| | | * Update conda_build_config.yamlTomas Kulhanek2019-01-181-2/+3
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| | | * Update conda_build_config.yamlTomas Kulhanek2019-01-181-1/+1
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| | | * Update jenkins-build.shTomas Kulhanek2019-01-181-3/+3
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| | | * Update jenkins-build.shTomas Kulhanek2019-01-181-4/+4
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| | * | UPDATE: using universal buildKulhanek2019-01-281-42/+2
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| | * updateKulhanek2019-01-141-1/+0
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| | * update pin-compatibleKulhanek2019-01-141-0/+1
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| | * UPDATE: channels conda-roge and ccpKulhanek2019-01-111-4/+2
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| | * UPDATE: jenkins build and variantsKulhanek2019-01-113-0/+49
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| | * UPDATE: CIL VERSION needs to be setTomas Kulhanek2019-01-033-5/+12
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| * changed titleEdoardo Pasca2018-11-271-1/+1
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| * fix import errorEdoardo Pasca2018-11-161-3/+3
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| * Spdhg (#166)Edoardo Pasca2018-11-153-8/+350
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * replaces in with explicit test closes #139 * add read of single slice or subset * get_image_keys * reader reads single slice * adds get_acquisition_data_slice and get_acquisition_data_subset it is possible to read in only a subset of the dataset. * added multifile_nexus.py * cleaned example * fix normaliser and reader * wip * wip for reader * added support for non standard?? nexus files updated example with normalisation. * fix camelcase * Added initial unittest for reader bugfix for python 2.7 * fixes for python 2.7 * remove duplicate test requirement * minimal unittest for get_acquisition_data_subset * added SPDHG * work in progress
| * Nexus read slice (#144)Edoardo Pasca2018-11-107-71/+762
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * replaces in with explicit test closes #139 * add read of single slice or subset * get_image_keys * reader reads single slice * adds get_acquisition_data_slice and get_acquisition_data_subset it is possible to read in only a subset of the dataset. * added multifile_nexus.py * cleaned example * fix normaliser and reader * wip * wip for reader * added support for non standard?? nexus files updated example with normalisation. * fix camelcase * Added initial unittest for reader bugfix for python 2.7 * fixes for python 2.7 * remove duplicate test requirement * minimal unittest for get_acquisition_data_subset
| * increased version number (#163)Edoardo Pasca2018-11-072-2/+2
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| * Test norm (#162)Edoardo Pasca2018-11-076-538/+673
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * enable win build with unittest. skip cvx * unittest on funcs * fixed Norm1 and function * test chaining * a few fixes for unittest * investigating Norm2 * restored Norm2 TODO: rewrite it and test * removed comment
| * added build variants (#160)Edoardo Pasca2018-11-022-2/+9
| | | | | | fixed unit test for python2.7
| * Build fix (#159)Edoardo Pasca2018-11-028-47/+173
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | closes #148 closes #156 closes #157 closes #158 * split run_test for algorithms * fix FBPD adds operator as input argument changes naming of variables to explicit * implement proximal for ZeroFun and Norm1 proximal method must be correctly implemented. lead to error #158 * fix unit test and cvx demo
| * Added working demo of colourbay data load and recon. (#132)jakobsj2018-10-223-0/+426
| | | | | | | | | | | | | | | | | | | | | | | | | | | | * Added working demo of colourbay data load and recon. * Added IMAT white-beam demo loading summed fits files * corrections to normalization and log with zeroes in flats * IMAT data multichannel script started * script to reconstruct multi-channel imat data updated * some updates to demo
| * removed default behaviour of Function as Identity (#155)Edoardo Pasca2018-10-181-6/+6
| | | | | | addresses this loophole https://github.com/CCPPETMR/Hackathon-SIRF/issues/12#issuecomment-430944064
| * closes #151 (#152)Edoardo Pasca2018-10-171-8/+8
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| * Memhandle (#136)Edoardo Pasca2018-09-298-133/+1200
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * added inplace algebra correctly * readded object to AcquisitionGeometry and ImageGeometry * Add more memory management * added unary and binary operations to DataContainer * Added unary and binary operations added also unittest * added unittest * added unit tests for binary operators * bugfixes and remove prints * dafault initialisation behaviour not to deep_copy * FISTA to use the efficient memory handling additions * add calls with input out=None Starts to address #134 * add methods with arg out=None * add test for memhandle * major bugfix after removal of create_image_data * fixed FISTA memhandle * some bugfix in FISTA and funcs ops * debug in progress * Fixed several bugs in memory optimised code Added methods allocate_adjoint and allocate_direct to Operator. * test with cvx and adjustments * fixed unittest, need to fix inline algebra * fixed inline algebra definition * initial cvxpy unittest * adds cvx demo as unit test closes #150 check equality of cvx calculated with respect to FISTA and FBDP
| * Add SIRT and Box constraints (#125)jakobsj2018-09-184-0/+270
| | | | | | | | | | | | * Quick prototype of SIRT with nonnegativity added * Add indicator function for boxconstrint in SIRT and FISTA with demo
| * replaces in with explicit test (#141)Edoardo Pasca2018-08-151-2/+3
| | | | | | closes #139
| * add scipy as dependency (#138)Edoardo Pasca2018-08-151-0/+1
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| * added alias to prox and grad (#130)Edoardo Pasca2018-07-311-3/+5
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| * Added copy as alias of clone, use copy in algs (#131)Edoardo Pasca2018-07-312-4/+7
| | | | | | closes #126
* | Updated paths in IMAT whitebeam scriptJakob Jorgensen, WS at HMXIF2019-02-141-4/+4
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* | Change local pathsJakob Jorgensen, WS at HMXIF2018-09-242-7/+8
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* | some updates to demoalgol2018-08-231-6/+7
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* | script to reconstruct multi-channel imat data updatedDaniil Kazantsev2018-08-221-163/+115
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* | IMAT data multichannel script startedDaniil Kazantsev2018-08-141-0/+198
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* | corrections to normalization and log with zeroes in flatsDaniil Kazantsev2018-08-141-7/+17
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* | Added IMAT white-beam demo loading summed fits filesJakob Jorgensen, WS at HMXIF2018-07-311-0/+128
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* | Added working demo of colourbay data load and recon.Jakob Jorgensen, WS at HMXIF2018-07-311-0/+137
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* move padder to plugins (#121)Edoardo Pasca2018-05-152-106/+0
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* Cvx (#118)jakobsj2018-05-083-3/+253
| | | | | | | | * add CVX test script * Add L1 and TV CVX and denoising. TV FBPD bug. * Fix TV2D bug and update cvx demo
* Remove already moved files (#116)jakobsj2018-05-084-666/+0
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* Merge pull request #115 from vais-ral/remove_camelcasejakobsj2018-04-271-8/+8
|\ | | | | removes camelcase
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