SyneRBI/SIRF issues and pull requests

#1297 - GHA ubuntu-latest is/can be Ubuntu 24.04 and will likely fail due to ccache

Issue - State: open - Opened by KrisThielemans about 2 months ago

#1296 - ObjectiveFunction gradient incorrect when passed the same object for input argument and out

Issue - State: open - Opened by samdporter 2 months ago

#1295 - correct CHANGES.md

Pull Request - State: closed - Opened by KrisThielemans 2 months ago

#1291 - Prior value now returned as double

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 5 months ago - 3 comments

#1290 - Prior::get_value() is still `float`

Issue - State: closed - Opened by KrisThielemans 5 months ago - 3 comments

#1289 - STIR.ImageData.move_to_scanner_centre is too simple

Issue - State: open - Opened by KrisThielemans 5 months ago

#1288 - sirf_convert_image_type crashes when given no arguments

Issue - State: open - Opened by KrisThielemans 5 months ago

#1287 - support pathlib objects for filenames in Python

Issue - State: open - Opened by KrisThielemans 5 months ago
Labels: enhancement

#1285 - Zoom image from template method for ImageData

Pull Request - State: open - Opened by samdporter 6 months ago

#1284 - Code overlaps in computing gradients of objective functions removed.

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 6 months ago

#1283 - Parallelization for PET reconstruction of multiple frames leads to error

Issue - State: open - Opened by fdellekart 6 months ago - 4 comments

#1282 - Undefined reference to `stir::RelativeDifferencePrior`.

Issue - State: closed - Opened by evgueni-ovtchinnikov 6 months ago - 2 comments

#1280 - expose mask functions for PET scatter estimation

Pull Request - State: closed - Opened by KrisThielemans 7 months ago - 7 comments
Labels: enhancement

#1279 - do not run CUDA tests if GPU not available

Pull Request - State: closed - Opened by paskino 7 months ago

#1278 - Need to disable CUDA test on GHA (also for the SuperBuild)

Issue - State: closed - Opened by KrisThielemans 7 months ago - 1 comment

#1277 - add STIR's new CudaRelativeDifferencePrior

Pull Request - State: closed - Opened by KrisThielemans 7 months ago - 1 comment
Labels: enhancement

#1276 - Fix pSTIR python tests

Pull Request - State: closed - Opened by KrisThielemans 7 months ago - 1 comment

#1275 - ctest does not run Python tests properly

Issue - State: closed - Opened by KrisThielemans 7 months ago - 2 comments
Labels: bug

#1274 - sirf.STIR.ObjectiveFunction has no numerical operations

Issue - State: open - Opened by KrisThielemans 7 months ago
Labels: enhancement

#1273 - Preparation branch for version 3.8.0

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 7 months ago - 1 comment

#1272 - SIRF 3.8.0 Release Checklist

Issue - State: open - Opened by evgueni-ovtchinnikov 7 months ago - 1 comment

#1271 - STIR min/max-scale-factor in ScatterEstimation exposed.

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 7 months ago
Labels: enhancement, request

#1270 - Expose the STIR min/max-scale-factor in ScatterEstimation.

Issue - State: closed - Opened by evgueni-ovtchinnikov 7 months ago
Labels: request

#1269 - outdated find_package(CUDA)

Issue - State: open - Opened by KrisThielemans 7 months ago

#1268 - CMake] add STIR_REGISTRIES to Reg executables

Pull Request - State: closed - Opened by KrisThielemans 8 months ago

#1267 - GitHub Actions fail on MR tests

Issue - State: closed - Opened by KrisThielemans 8 months ago - 7 comments
Labels: bug

#1266 - Continue working on moving Challenge data preparation utilities to SIRF.

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 8 months ago - 2 comments

#1265 - use more STIR container operations

Pull Request - State: closed - Opened by KrisThielemans 8 months ago
Labels: enhancement

#1264 - sirf.STIR.Poisson* objective function value is returned as float

Issue - State: closed - Opened by KrisThielemans 8 months ago

#1263 - Revert "Moving SyneRBI-Challenge nema-data utilities to SIRF (#1241)"

Pull Request - State: closed - Opened by KrisThielemans 8 months ago - 1 comment

#1262 - Update ch2sirf with SIRF master

Pull Request - State: closed - Opened by paskino 8 months ago - 1 comment

#1261 - [CMAKE] set CMP0074 policy to NEW (honour <packagename>_ROOT)

Pull Request - State: closed - Opened by KrisThielemans 8 months ago

#1260 - CMake: set CMP0074 to NEW (honour <packagename>_ROOT env variable)

Issue - State: closed - Opened by KrisThielemans 8 months ago

#1259 - use STIR's sum(), find_max(), operator+= etc

Issue - State: open - Opened by KrisThielemans 8 months ago - 1 comment

#1258 - V3.7.0 prep

Pull Request - State: closed - Opened by KrisThielemans 9 months ago - 1 comment

#1257 - SIRF 3.7.0 Release Checklist

Issue - State: closed - Opened by evgueni-ovtchinnikov 9 months ago - 5 comments

#1256 - Updated data submodule

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 9 months ago

#1255 - STIR priors are actually penalties (naming problem)

Issue - State: open - Opened by KrisThielemans 9 months ago

#1254 - sapyb to return even if out is not None

Pull Request - State: closed - Opened by paskino 9 months ago

#1253 - Computing Hessian products with image data objects and related stuff

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 9 months ago - 37 comments

#1252 - Recently merged PR #1246 needs some more work (not urgent).

Issue - State: closed - Opened by evgueni-ovtchinnikov 9 months ago

#1251 - list-mode obj_fun.get_subset_sensitivity(0) returns None

Issue - State: closed - Opened by KrisThielemans 9 months ago - 9 comments
Labels: bug

#1250 - returning time frame information (and other things) from list-mode/acquisition data

Issue - State: open - Opened by KrisThielemans 9 months ago

#1249 - time frame handling in listmode reconstruction

Issue - State: closed - Opened by KrisThielemans 9 months ago - 3 comments

#1248 - cSTIR_PLSPriorGradient has confusing name

Issue - State: closed - Opened by KrisThielemans 9 months ago - 3 comments

#1247 - PET stir.ExamInfo lost in reconstruction

Issue - State: open - Opened by KrisThielemans 9 months ago

#1246 - Added optional argument out in all gradient-computing methods

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 9 months ago - 9 comments
Labels: SIRF/CIL integration

#1245 - RelativeDifferencePrior::get_kappa crashes if set_kappa wasn't used

Issue - State: open - Opened by KrisThielemans 9 months ago
Labels: bug

#1244 - add accumulate_Hessian_times_input to STIR objective function and prior

Issue - State: closed - Opened by KrisThielemans 9 months ago - 11 comments
Labels: enhancement

#1243 - Caching mechanism for `AcquisitionModel` norm

Issue - State: open - Opened by paskino 9 months ago - 5 comments
Labels: enhancement

#1242 - CIL algorithms with SIRF Objective and Priors

Issue - State: closed - Opened by epapoutsellis 10 months ago - 3 comments

#1241 - Moving SyneRBI-Challenge nema-data utilities to SIRF

Pull Request - State: closed - Opened by evgueni-ovtchinnikov 10 months ago - 10 comments

#1240 - Lmrecontest2

Pull Request - State: closed - Opened by KrisThielemans 10 months ago - 1 comment

#1239 - Lmrecontest

Pull Request - State: closed - Opened by KrisThielemans 10 months ago

#1238 - examples scatter_simulation.py fails with STIR 6.0

Issue - State: closed - Opened by KrisThielemans 10 months ago
Labels: bug

#1237 - MR SIRF-exercise fails with "non-empty container" after preprocessing

Issue - State: closed - Opened by KrisThielemans 11 months ago - 13 comments
Labels: bug

#1236 - CMake improvements when coping with old Gadgetron

Pull Request - State: closed - Opened by KrisThielemans 11 months ago

#1235 - remove need for SIRF_PATH and SIRF_INSTALL_PATH env variables

Issue - State: open - Opened by KrisThielemans 11 months ago
Labels: enhancement

#1234 - STIR data container max() is 0 for containers with strictly negative numbers

Issue - State: closed - Opened by KrisThielemans 12 months ago
Labels: bug

#1233 - Implement min() for SIRF DataContainer

Issue - State: closed - Opened by KrisThielemans 12 months ago
Labels: enhancement

#1232 - extra lines in PET example

Pull Request - State: closed - Opened by KrisThielemans about 1 year ago

#1231 - Release 3.6.0 checklist

Issue - State: open - Opened by evgueni-ovtchinnikov about 1 year ago - 1 comment

#1230 - fix STIR HDF5

Pull Request - State: closed - Opened by KrisThielemans about 1 year ago - 1 comment

#1229 - compatibility with STIR 6.0.0

Pull Request - State: closed - Opened by KrisThielemans about 1 year ago

#1228 - updates for STIR 6.0 compatibility

Pull Request - State: closed - Opened by KrisThielemans about 1 year ago

#1227 - Making read-all default for reading MR acquisitions from file.

Pull Request - State: closed - Opened by evgueni-ovtchinnikov about 1 year ago - 7 comments

#1226 - Fixes a bug in NiftiImageData.cpp causing segfault

Pull Request - State: closed - Opened by evgueni-ovtchinnikov about 1 year ago - 2 comments

#1225 - NiftyResampler norm crashes on MR data with multiple repetitions

Issue - State: closed - Opened by paskino about 1 year ago - 4 comments
Labels: bug

#1224 - cannot add energy-window, time-frame information etc to sirf.STIR.AcquisitionData

Issue - State: open - Opened by KrisThielemans about 1 year ago
Labels: enhancement

#1223 - Add set get functions for OSEM reconstructor - ScatterEstimator

Pull Request - State: closed - Opened by rmapree about 1 year ago - 3 comments

#1222 - Sorted out allocate methods (CIL/SIRF compatibility)

Pull Request - State: closed - Opened by evgueni-ovtchinnikov about 1 year ago
Labels: SIRF/CIL integration

#1221 - Mask in Csm calculation leads to signal loss

Issue - State: closed - Opened by ckolbPTB about 1 year ago - 6 comments

#1220 - MR AcquisitionData dimensions can be undefined

Issue - State: closed - Opened by ckolbPTB about 1 year ago

#1219 - Update README.md with binary download information

Pull Request - State: closed - Opened by paskino about 1 year ago

#1218 - Main README missing information on how SIRF can be installed

Issue - State: open - Opened by paskino about 1 year ago - 1 comment

#1217 - stir.AcquisitionData.get_subset() fails on get_output() of ListmodeToSinograms, even with stir.AcquisitionData.set_storage_scheme("memory")

Issue - State: open - Opened by epapoutsellis over 1 year ago - 5 comments
Labels: STIR

GitHub / SyneRBI/SIRF issues and pull requests