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This is a Developer Mailing list for CCP SyneRBI (Collaborative Computational Project on Synergistic Reconstruction for Biomedical Imaging).

web: http://www.ccpsynerbi.ac.uk
code: https://github.com/SynerBI/SIRF

The main mailing lists are actually

This group (ccp-petmr-codebot@googlegroups.com) sends daily digests to the DEVEL JISCMail list.

Due to various nuances, it has been set up in such a way that GitHub notifications are sent to ccp.petmr.devel@gmail.com, which in turn forwards to ccp-petmr-codebot@googlegroups.com, which finally sends daily digests to SYNERBI-DEVEL@jiscmail.ac.uk.

If you would like any other integration service (similar to GitHub's notifications) to be posted to JISCMail lists via ccp.petmr.devel@gmail.com - simply email the latter.

--
Casper

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Kris Thielemans6

12/21/25

[SyneRBI/SIRF-Exercises] Use petric2-base docker image for the devcontainer (PR #264)

Merged #264 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF-Exercises] Use petric2-base docker image for the devcontainer (PR #264)

Merged #264 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

12/21/25

Kris Thielemans

12/19/25

[SyneRBI/SIRF-Contribs] partitioner: optionally remove original data (Issue #26)

KrisThielemans created an issue (SyneRBI/SIRF-Contribs#26) The partitionaer double the amount of

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[SyneRBI/SIRF-Contribs] partitioner: optionally remove original data (Issue #26)

KrisThielemans created an issue (SyneRBI/SIRF-Contribs#26) The partitionaer double the amount of

12/19/25

Casper da Costa-Luis5

12/19/25

[SyneRBI/PETRIC-backend] docker improvements (PR #7)

@KrisThielemans commented on this pull request. too much going on here that goes beyond what I know

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[SyneRBI/PETRIC-backend] docker improvements (PR #7)

@KrisThielemans commented on this pull request. too much going on here that goes beyond what I know

12/19/25

Casper da Costa-Luis

12/18/25

[SyneRBI/SIRF-SuperBuild] Release v3.9.0 - v3.9.0

v3.9.0 Repository: SyneRBI/SIRF-SuperBuild · Tag: v3.9.0 · Commit: 60ffabe · Released by: casperdcl

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[SyneRBI/SIRF-SuperBuild] Release v3.9.0 - v3.9.0

v3.9.0 Repository: SyneRBI/SIRF-SuperBuild · Tag: v3.9.0 · Commit: 60ffabe · Released by: casperdcl

12/18/25

Evgueni Ovtchinnikov3

12/16/25

[SyneRBI/SIRF] Creating compatible ImageData from AcquisitionData and voxels grid dimensions x and y (PR #1364)

@evgueni-ovtchinnikov pushed 1 commit. 5b9677c attended to Codacy issue — View it on GitHub or

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[SyneRBI/SIRF] Creating compatible ImageData from AcquisitionData and voxels grid dimensions x and y (PR #1364)

@evgueni-ovtchinnikov pushed 1 commit. 5b9677c attended to Codacy issue — View it on GitHub or

12/16/25

12/11/25

[SyneRBI/SIRF-Exercises] `%matplotlib widget` seems to conflict with current jupyter lab (Issue #267)

paskino created an issue (SyneRBI/SIRF-Exercises#267) Using the magic command %matplotlib widget with

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[SyneRBI/SIRF-Exercises] `%matplotlib widget` seems to conflict with current jupyter lab (Issue #267)

paskino created an issue (SyneRBI/SIRF-Exercises#267) Using the magic command %matplotlib widget with

12/11/25

12/11/25

[SyneRBI/SIRF-Exercises] `WARNING` by `ProjMatrixByBinUsingRayTracing` thrown in some notebooks (Issue #266)

paskino created an issue (SyneRBI/SIRF-Exercises#266) This happens in: https://github.com/SyneRBI/

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[SyneRBI/SIRF-Exercises] `WARNING` by `ProjMatrixByBinUsingRayTracing` thrown in some notebooks (Issue #266)

paskino created an issue (SyneRBI/SIRF-Exercises#266) This happens in: https://github.com/SyneRBI/

12/11/25

Kris Thielemans4

12/9/25

[SyneRBI/SIRF-SuperBuild] Github actions: DEVEL_BUILD=OFF build fails because of numpy version (Issue #979)

evgueni-ovtchinnikov left a comment (SyneRBI/SIRF-SuperBuild#979) Fixing this in SIRF might be

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[SyneRBI/SIRF-SuperBuild] Github actions: DEVEL_BUILD=OFF build fails because of numpy version (Issue #979)

evgueni-ovtchinnikov left a comment (SyneRBI/SIRF-SuperBuild#979) Fixing this in SIRF might be

12/9/25

12/8/25

[SyneRBI/SIRF-SuperBuild] removal of intel conda channel resulting in error when building docker image (Issue #928)

Closed #928 as completed. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF-SuperBuild] removal of intel conda channel resulting in error when building docker image (Issue #928)

Closed #928 as completed. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

12/8/25

Kris Thielemans3

12/8/25

[SyneRBI/SIRF] numpy 1.* incompatibility for MR (Issue #1363)

casperdcl left a comment (SyneRBI/SIRF#1363) numpy is downgraded by https://github.com/SyneRBI/SIRF-

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[SyneRBI/SIRF] numpy 1.* incompatibility for MR (Issue #1363)

casperdcl left a comment (SyneRBI/SIRF#1363) numpy is downgraded by https://github.com/SyneRBI/SIRF-

12/8/25

Casper da Costa-Luis

12/8/25

[SyneRBI/SIRF-SuperBuild] docker: STIR_DISABLE_HDF5=OFF (Issue #980)

casperdcl created an issue (SyneRBI/SIRF-SuperBuild#980) Would require fixing linker errors — Reply

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[SyneRBI/SIRF-SuperBuild] docker: STIR_DISABLE_HDF5=OFF (Issue #980)

casperdcl created an issue (SyneRBI/SIRF-SuperBuild#980) Would require fixing linker errors — Reply

12/8/25

Casper da Costa-Luis79

12/8/25

[SyneRBI/SIRF-SuperBuild] docker: pin Ubuntu 22.04 (PR #946)

KrisThielemans left a comment (SyneRBI/SIRF-SuperBuild#946) Great! Thanks a lot — Reply to this email

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[SyneRBI/SIRF-SuperBuild] docker: pin Ubuntu 22.04 (PR #946)

KrisThielemans left a comment (SyneRBI/SIRF-SuperBuild#946) Great! Thanks a lot — Reply to this email

12/8/25

Cate-Gascoigne15

12/8/25

[SyneRBI/SIRF-SuperBuild] curl linking problem for ISMRMD with system HDF5 on Ubuntu 22.04 (Issue #935)

Closed #935 as completed via #946. — Reply to this email directly, view it on GitHub, or unsubscribe.

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[SyneRBI/SIRF-SuperBuild] curl linking problem for ISMRMD with system HDF5 on Ubuntu 22.04 (Issue #935)

Closed #935 as completed via #946. — Reply to this email directly, view it on GitHub, or unsubscribe.

12/8/25

Edoardo Pasca39

12/8/25

[SyneRBI/SIRF-SuperBuild] defer installation of some CIL run requirements after build (PR #937)

Closed #937 via #946. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF-SuperBuild] defer installation of some CIL run requirements after build (PR #937)

Closed #937 via #946. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

12/8/25

12/5/25

[SyneRBI/SIRF-Exercises] Documentation is obsolete (Issue #265)

paskino created an issue (SyneRBI/SIRF-Exercises#265) 3 files with obsolete documentation: https://

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[SyneRBI/SIRF-Exercises] Documentation is obsolete (Issue #265)

paskino created an issue (SyneRBI/SIRF-Exercises#265) 3 files with obsolete documentation: https://

12/5/25

12/4/25

[SyneRBI/PETRIC-MaGeZ] update RDP (boundary conditions) such that they implementation is the… (PR #11)

Merged #11 into main. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

unread,

[SyneRBI/PETRIC-MaGeZ] update RDP (boundary conditions) such that they implementation is the… (PR #11)

Merged #11 into main. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

12/4/25

Kris Thielemans7

12/1/25

[SyneRBI/SIRF] backwards incompatibility: algebraic operations with numpy arrays now fail (Issue #1357)

paskino left a comment (SyneRBI/SIRF#1357) I think our unit tests do not test for inplace algebric

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[SyneRBI/SIRF] backwards incompatibility: algebraic operations with numpy arrays now fail (Issue #1357)

paskino left a comment (SyneRBI/SIRF#1357) I think our unit tests do not test for inplace algebric

12/1/25

Kris Thielemans2

12/1/25

[SyneRBI/SIRF-SuperBuild] Docker conda (PR #978)

KrisThielemans left a comment (SyneRBI/SIRF-SuperBuild#978) log doesn't say what's going on,

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[SyneRBI/SIRF-SuperBuild] Docker conda (PR #978)

KrisThielemans left a comment (SyneRBI/SIRF-SuperBuild#978) log doesn't say what's going on,

12/1/25

Kris Thielemans2

11/29/25

[SyneRBI/SIRF-SuperBuild] Use SWIG 4.4 when building it ourselves (PR #977)

Merged #977 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF-SuperBuild] Use SWIG 4.4 when building it ourselves (PR #977)

Merged #977 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

11/29/25

Kris Thielemans3

11/28/25

[SyneRBI/SIRF-SuperBuild] pass DISABLE_CUDA to dependent projects (PR #975)

Merged #975 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

unread,

[SyneRBI/SIRF-SuperBuild] pass DISABLE_CUDA to dependent projects (PR #975)

Merged #975 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

11/28/25

Kris Thielemans4

11/28/25

[SyneRBI/SIRF-SuperBuild] SIRF CMake improvements (PR #976)

Merged #976 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

unread,

[SyneRBI/SIRF-SuperBuild] SIRF CMake improvements (PR #976)

Merged #976 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

11/28/25

Kris Thielemans2

11/28/25

[SyneRBI/SIRF-SuperBuild] HDF5_REQUIRED_VERSION 1.8 causes problems for HDF5 with hdf5-config.cmake (Issue #974)

Closed #974 as completed via aceacb6. — Reply to this email directly, view it on GitHub, or

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[SyneRBI/SIRF-SuperBuild] HDF5_REQUIRED_VERSION 1.8 causes problems for HDF5 with hdf5-config.cmake (Issue #974)

Closed #974 as completed via aceacb6. — Reply to this email directly, view it on GitHub, or

11/28/25

Kris Thielemans2

11/28/25

[SyneRBI/SIRF-SuperBuild] find C and CXX components in HDF5 (Issue #972)

Closed #972 as completed via #973. — Reply to this email directly, view it on GitHub, or unsubscribe.

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[SyneRBI/SIRF-SuperBuild] find C and CXX components in HDF5 (Issue #972)

Closed #972 as completed via #973. — Reply to this email directly, view it on GitHub, or unsubscribe.

11/28/25

Kris Thielemans12

11/28/25

[SyneRBI/SIRF-SuperBuild] find C and CXX COMPONENTS for HDF5 (PR #973)

Merged #973 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF-SuperBuild] find C and CXX COMPONENTS for HDF5 (PR #973)

Merged #973 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

11/28/25

Evgueni Ovtchinnikov15

11/27/25

[SyneRBI/SIRF] Extends SIRF data algebra possible operands to numpy arrays (PR #1358)

@evgueni-ovtchinnikov pushed 1 commit. 0477cc0 simpliied mixed data algebra — View it on GitHub or

unread,

[SyneRBI/SIRF] Extends SIRF data algebra possible operands to numpy arrays (PR #1358)

@evgueni-ovtchinnikov pushed 1 commit. 0477cc0 simpliied mixed data algebra — View it on GitHub or

11/27/25

11/25/25

[SyneRBI/SIRF] README and installation (Issue #1361)

paskino left a comment (SyneRBI/SIRF#1361) I saw your comments. We can agree to disagree but I see

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[SyneRBI/SIRF] README and installation (Issue #1361)

paskino left a comment (SyneRBI/SIRF#1361) I saw your comments. We can agree to disagree but I see

11/25/25

11/25/25

[SyneRBI/SIRF] Update README with SIRF installation instructions (PR #1362)

paskino left a comment (SyneRBI/SIRF#1362) I saw your comments. We can agree to disagree but I see

unread,

[SyneRBI/SIRF] Update README with SIRF installation instructions (PR #1362)

paskino left a comment (SyneRBI/SIRF#1362) I saw your comments. We can agree to disagree but I see

11/25/25

Casper da Costa-Luis10

11/24/25

[SyneRBI/PETRIC-backend] test image (PR #6)

Merged #6 into main. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

unread,

[SyneRBI/PETRIC-backend] test image (PR #6)

Merged #6 into main. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

11/24/25

Kris Thielemans2

11/22/25

[SyneRBI/SIRF-Exercises] Minor doc improvements (PR #263)

Merged #263 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

unread,

[SyneRBI/SIRF-Exercises] Minor doc improvements (PR #263)

Merged #263 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

11/22/25

Kris Thielemans3

11/21/25

[SyneRBI/PETRIC-MaGeZ] replace home-grown RDP (Issue #10)

gschramm left a comment (SyneRBI/PETRIC-MaGeZ#10) @KrisThielemans @paskino I did a short comparison

unread,

[SyneRBI/PETRIC-MaGeZ] replace home-grown RDP (Issue #10)

gschramm left a comment (SyneRBI/PETRIC-MaGeZ#10) @KrisThielemans @paskino I did a short comparison

11/21/25

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