CCP SyneRBI[bot]

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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 Thielemans

Jun 12

[SyneRBI/SIRF-Exercises] Release v3.7.0 - v3.7.0

v3.7.0 Repository: SyneRBI/SIRF-Exercises · Tag: v3.7.0 · Commit: e610cd7 · Released by:

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[SyneRBI/SIRF-Exercises] Release v3.7.0 - v3.7.0

v3.7.0 Repository: SyneRBI/SIRF-Exercises · Tag: v3.7.0 · Commit: e610cd7 · Released by:

Jun 12

Casper da Costa-Luis

Jun 12

[SyneRBI/SIRF-SuperBuild] Release v3.7.0 - v3.7.0: Merge pull request #897 from SyneRBI/bump_cil_modules

v3.7.0: Merge pull request #897 from SyneRBI/bump_cil_modules Repository: SyneRBI/SIRF-SuperBuild ·

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[SyneRBI/SIRF-SuperBuild] Release v3.7.0 - v3.7.0: Merge pull request #897 from SyneRBI/bump_cil_modules

v3.7.0: Merge pull request #897 from SyneRBI/bump_cil_modules Repository: SyneRBI/SIRF-SuperBuild ·

Jun 12

Evgueni Ovtchinnikov6

Jun 11

[SyneRBI/SIRF] Continue working on moving Challenge data preparation utilities to SIRF. (PR #1266)

Merged #1266 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF] Continue working on moving Challenge data preparation utilities to SIRF. (PR #1266)

Merged #1266 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

Jun 11

Jun 11

[SyneRBI/SIRF-SuperBuild] DO NOT MERGE - Margaret just testing CIL/SIRF tests (PR #905)

You can view, comment on, or merge this pull request online at: https://github.com/SyneRBI/SIRF-

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[SyneRBI/SIRF-SuperBuild] DO NOT MERGE - Margaret just testing CIL/SIRF tests (PR #905)

You can view, comment on, or merge this pull request online at: https://github.com/SyneRBI/SIRF-

Jun 11

Jun 10

[SyneRBI/SIRF-SuperBuild] CCPi regularisation fails test (Issue #832)

Closed #832 as completed via #897. — Reply to this email directly, view it on GitHub, or unsubscribe.

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[SyneRBI/SIRF-SuperBuild] CCPi regularisation fails test (Issue #832)

Closed #832 as completed via #897. — Reply to this email directly, view it on GitHub, or unsubscribe.

Jun 10

Edoardo Pasca56

Jun 10

[SyneRBI/SIRF-SuperBuild] update CIL and CCPi-Regularisation version and reinstate tests (PR #897)

Merged #897 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

unread,

[SyneRBI/SIRF-SuperBuild] update CIL and CCPi-Regularisation version and reinstate tests (PR #897)

Merged #897 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

Jun 10

Kris Thielemans2

Jun 8

[SyneRBI/SIRF] use more STIR container operations (PR #1265)

@KrisThielemans pushed 1 commit. e3d63b0 use more STIR container operations — View it on GitHub or

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[SyneRBI/SIRF] use more STIR container operations (PR #1265)

@KrisThielemans pushed 1 commit. e3d63b0 use more STIR container operations — View it on GitHub or

Jun 8

Jun 7

[SyneRBI/SIRF-Contribs] partitioner code from CIL (Issue #19)

The following function is basically duplicating the Partitioner code from CIL https://github.com/

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[SyneRBI/SIRF-Contribs] partitioner code from CIL (Issue #19)

The following function is basically duplicating the Partitioner code from CIL https://github.com/

Jun 7

Kris Thielemans4

Jun 7

[SyneRBI/SIRF-Contribs] partitioner/BSREM changes: use additive_term and more doc (PR #18)

Merged #18 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF-Contribs] partitioner/BSREM changes: use additive_term and more doc (PR #18)

Merged #18 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

Jun 7

Kris Thielemans

Jun 7

[SyneRBI/SIRF] sirf.STIR.Poisson* objective function value is returned as float (Issue #1264)

This looses precision, which is important for the objective function value (as there is a large

unread,

[SyneRBI/SIRF] sirf.STIR.Poisson* objective function value is returned as float (Issue #1264)

This looses precision, which is important for the objective function value (as there is a large

Jun 7

Kris Thielemans4

Jun 6

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

Merged #1263 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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

Merged #1263 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

Jun 6

Jun 6

[SyneRBI/SIRF] Update ch2sirf with SIRF master (PR #1262)

we'll revert #1241 anyway. — Reply to this email directly, view it on GitHub, or unsubscribe. You

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[SyneRBI/SIRF] Update ch2sirf with SIRF master (PR #1262)

we'll revert #1241 anyway. — Reply to this email directly, view it on GitHub, or unsubscribe. You

Jun 6

Evgueni Ovtchinnikov50

Jun 6

[SyneRBI/SIRF] Moving SyneRBI-Challenge nema-data utilities to SIRF (PR #1241)

Right, I see this was merged. Please revert the merge. Sorry — Reply to this email directly, view it

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[SyneRBI/SIRF] Moving SyneRBI-Challenge nema-data utilities to SIRF (PR #1241)

Right, I see this was merged. Please revert the merge. Sorry — Reply to this email directly, view it

Jun 6

May 31

[SyneRBI/SIRF] Integer valued sirf.ObjectiveFunction.value (Issue #1170)

@KrisThielemans I am not sure if the precision loss due to the KL offset will have meaningful

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[SyneRBI/SIRF] Integer valued sirf.ObjectiveFunction.value (Issue #1170)

@KrisThielemans I am not sure if the precision loss due to the KL offset will have meaningful

May 31

Kris Thielemans4

May 30

[SyneRBI/SIRF-SuperBuild] attempt to fix ROOT building on GHA (PR #903)

Potentially could re-use this idea when resolving #904 — Reply to this email directly, view it on

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[SyneRBI/SIRF-SuperBuild] attempt to fix ROOT building on GHA (PR #903)

Potentially could re-use this idea when resolving #904 — Reply to this email directly, view it on

May 30

Kris Thielemans2

May 30

[SyneRBI/SIRF] CMake: set CMP0074 to NEW (honour <packagename>_ROOT env variable) (Issue #1260)

Closed #1260 as completed via #1261. — Reply to this email directly, view it on GitHub, or

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[SyneRBI/SIRF] CMake: set CMP0074 to NEW (honour <packagename>_ROOT env variable) (Issue #1260)

Closed #1260 as completed via #1261. — Reply to this email directly, view it on GitHub, or

May 30

Kris Thielemans3

May 30

[SyneRBI/SIRF] [CMAKE] set CMP0074 policy to NEW (honour <packagename>_ROOT) (PR #1261)

Merged #1261 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF] [CMAKE] set CMP0074 policy to NEW (honour <packagename>_ROOT) (PR #1261)

Merged #1261 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

May 30

Kris Thielemans

May 30

[SyneRBI/SIRF-SuperBuild] re-add GHA job that builds ROOT (Issue #904)

#901 installed ROOT from binary download, as opposed to building it, due to problems with the latter

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[SyneRBI/SIRF-SuperBuild] re-add GHA job that builds ROOT (Issue #904)

#901 installed ROOT from binary download, as opposed to building it, due to problems with the latter

May 30

May 30

[SyneRBI/SIRF-SuperBuild] Update CHANGES.md (PR #898)

I'm going to close this now that we have #901 merged, but mention it in a new issue. — Reply to

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[SyneRBI/SIRF-SuperBuild] Update CHANGES.md (PR #898)

I'm going to close this now that we have #901 merged, but mention it in a new issue. — Reply to

May 30

May 30

[SyneRBI/SIRF-SuperBuild] BOOST: build error on GHA (Issue #899)

Closed #899 as completed via #901. — Reply to this email directly, view it on GitHub, or unsubscribe.

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[SyneRBI/SIRF-SuperBuild] BOOST: build error on GHA (Issue #899)

Closed #899 as completed via #901. — Reply to this email directly, view it on GitHub, or unsubscribe.

May 30

Kris Thielemans19

May 30

[SyneRBI/SIRF-SuperBuild] attempt to use system ROOT (PR #901)

Merged #901 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

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[SyneRBI/SIRF-SuperBuild] attempt to use system ROOT (PR #901)

Merged #901 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

May 30

Kris Thielemans2

May 30

[SyneRBI/SIRF-SuperBuild] SIRF_TAG v3.7.0 (PR #902)

Merged #902 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

unread,

[SyneRBI/SIRF-SuperBuild] SIRF_TAG v3.7.0 (PR #902)

Merged #902 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

May 30

Evgueni Ovtchinnikov5

May 29

[SyneRBI/SIRF] SIRF 3.7.0 Release Checklist (Issue #1257)

I've tagged SIRF-Contribs and SIRF-Exercises. I've created SyneRBI/SIRF-SuperBuild#902. @

unread,

[SyneRBI/SIRF] SIRF 3.7.0 Release Checklist (Issue #1257)

I've tagged SIRF-Contribs and SIRF-Exercises. I've created SyneRBI/SIRF-SuperBuild#902. @

May 29

Evgueni Ovtchinnikov

May 29

[SyneRBI/SIRF] Release v3.7.0 - SIRF Release 3.7.0

SIRF Release 3.7.0 Repository: SyneRBI/SIRF · Tag: v3.7.0 · Commit: 63be16b · Released by: evgueni-

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[SyneRBI/SIRF] Release v3.7.0 - SIRF Release 3.7.0

SIRF Release 3.7.0 Repository: SyneRBI/SIRF · Tag: v3.7.0 · Commit: 63be16b · Released by: evgueni-

May 29

Kris Thielemans

May 29

[SyneRBI/SIRF] use STIR's sum(), find_max(), operator+= etc (Issue #1259)

We currently implement our own max() functions etc. https://github.com/SyneRBI/SIRF/blob/

unread,

[SyneRBI/SIRF] use STIR's sum(), find_max(), operator+= etc (Issue #1259)

We currently implement our own max() functions etc. https://github.com/SyneRBI/SIRF/blob/

May 29

Kris Thielemans5

May 24

[SyneRBI/SIRF] V3.7.0 prep (PR #1258)

Merged #1258 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

unread,

[SyneRBI/SIRF] V3.7.0 prep (PR #1258)

Merged #1258 into master. — Reply to this email directly, view it on GitHub, or unsubscribe. You are

May 24

May 22

[SyneRBI/SIRF] convert a PET sinogram to nifti image (#726)

while this would be useful, it raises a lot of questions, such as how to handle the TOF dimension.

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[SyneRBI/SIRF] convert a PET sinogram to nifti image (#726)

while this would be useful, it raises a lot of questions, such as how to handle the TOF dimension.

May 22

Kris Thielemans3

May 20

[SyneRBI/SIRF-Exercises] DL LM notebook and location of data (Issue #233)

was fixed — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this

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[SyneRBI/SIRF-Exercises] DL LM notebook and location of data (Issue #233)

was fixed — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this

May 20

May 19

[SyneRBI/SIRF-Exercises] PET/DIY_OSEM.py missing line in MLEM solution (Issue #236)

Closed by #237 — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving

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[SyneRBI/SIRF-Exercises] PET/DIY_OSEM.py missing line in MLEM solution (Issue #236)

Closed by #237 — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving

May 19

May 19

[SyneRBI/SIRF-Exercises] Bugfix in MLEM function of DIY_OSEM notebook in PET (PR #237)

Closes #236 — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this

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[SyneRBI/SIRF-Exercises] Bugfix in MLEM function of DIY_OSEM notebook in PET (PR #237)

Closes #236 — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this

May 19

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