DiamondLightSource/Savu

Tomography Reconstructon Pipeline

Stars: 43
Forks: 42
Open beginner issues: 0
Indexed issues: 105

Dominant language: Python
License: No license data
Last GitHub push: Aug 18, 2022
Latest indexed: Sep 15, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: help wanted
PR merge metrics: No merged PRs in 30d

Beginner friendly Everything

Open All

105 open issues indexed

Problem to install Savu inside a Singularity container Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

DiamondLightSource/Savu#939 · Opened Dec 20, 2023
Issue when using savu_mpijob_local.sh Open

Difficulty 2/5 1-3 hours Newbie friendliness 45/100

DiamondLightSource/Savu#938 · Opened Aug 9, 2023
Incorrect dtype in data_full_ring_GH in tomobar_recon_3D_tools.py Open

Difficulty 1/5 Under an hour Newbie friendliness 68/100

DiamondLightSource/Savu#937 · Opened Aug 7, 2023
version of python and numpy Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

DiamondLightSource/Savu#868 · 2 comments · Opened Nov 19, 2021
Flake8 output on Savu's py37 repo Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

DiamondLightSource/Savu#692 · 1 comment · Opened Dec 9, 2020
Runtime error when running Savu Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

DiamondLightSource/Savu#643 · 12 comments · Opened Feb 13, 2020
raw data isn't linked correctly in output dataset Open

bug low priority

DiamondLightSource/Savu#594 · 1 assignee · Opened Sep 24, 2019
Savu automated data cropping/trimming plugin Open

in progress

DiamondLightSource/Savu#571 · 1 assignee · Opened Jun 27, 2019
Report error if users forgot to set "cor" Open

Difficulty 2/5 1-3 hours Newbie friendliness 45/100

DiamondLightSource/Savu#565 · Opened Apr 18, 2019
Return an error message if using TiffSaver for >=4D dataset Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

DiamondLightSource/Savu#564 · Opened Apr 18, 2019
Incompatible PyMca changes Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

DiamondLightSource/Savu#563 · Opened Apr 12, 2019
Create install/master_install Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

DiamondLightSource/Savu#560 · Opened Mar 29, 2019
you cannot modify GPU configs on machines without a GPU Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

DiamondLightSource/Savu#559 · Opened Mar 8, 2019
HDF5 1.10.5 is out with proper OpenMPI support... Open

in progress

Difficulty 4/5 3-5 days Newbie friendliness 20/100

DiamondLightSource/Savu#558 · 3 comments · Opened Mar 6, 2019
Savu config should not require a plugin to be executable to add it to a process list Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

DiamondLightSource/Savu#557 · Opened Feb 22, 2019
Make it obvious when plugins have missing dependencies Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

DiamondLightSource/Savu#553 · Opened Feb 15, 2019
Complex numbers not handled Open

DiamondLightSource/Savu#526 · 1 assignee · Opened Sep 17, 2018
Fix 'savu' in path issue when using Hdf5TemplateLoader Open

DiamondLightSource/Savu#515 · 1 assignee · Opened Jul 4, 2018
Add method to get subset of axis labels for each run or process frames Open

enhancement

DiamondLightSource/Savu#505 · 1 assignee · Opened May 2, 2018
Look into patterns and subpatterns Open

DiamondLightSource/Savu#496 · 1 assignee · Opened Apr 6, 2018
Rather than choosing to 'keep' raw data after a plugin see if a future plugin requires it Open

DiamondLightSource/Savu#495 · 1 assignee · Opened Apr 5, 2018
Write a plugin template that shows all the parameter options available Open

DiamondLightSource/Savu#494 · 1 assignee · Opened Mar 23, 2018
Delete output data created in tests Open

DiamondLightSource/Savu#484 · 1 assignee · Opened Feb 19, 2018
Miss-matched data and centre of rotation dimensions in reconstruction Open

bug

DiamondLightSource/Savu#482 · 1 assignee · Opened Feb 1, 2018
Remove conda info pipeline in installer? Open

DiamondLightSource/Savu#479 · 1 assignee · Opened Jan 18, 2018
Data stepping very slow Open

ready

DiamondLightSource/Savu#467 · 1 assignee · Opened Dec 12, 2017
Check hdf5 saver in transport classes Open

DiamondLightSource/Savu#454 · 1 assignee · Opened Nov 9, 2017
Investigate h5py file close error when using random_hdf5_loader Open

ready

DiamondLightSource/Savu#430 · 1 assignee · Opened May 19, 2017
Add ITK plugin Open

DiamondLightSource/Savu#428 · 1 assignee · Opened May 18, 2017
Add timing information around data get and set and log warnings Open

DiamondLightSource/Savu#420 · 1 assignee · Opened May 9, 2017
Run savu from /dls/tmp? to avoid eqw when submitting from local folder Open

ready

DiamondLightSource/Savu#419 · 1 assignee · Opened May 9, 2017
Implement get_padded_shape and set_padded_shape in plugin_data class Open

ready

DiamondLightSource/Savu#414 · 1 assignee · Opened May 4, 2017
Implement Kaz's float to int conversion scripts as a plugin Open

ready

DiamondLightSource/Savu#411 · 1 assignee · Opened May 3, 2017
Create command line tool to copy hdf5 tree and 'fake' data Open

DiamondLightSource/Savu#405 · 1 comment · 1 assignee · Opened Apr 28, 2017
Change output folder name when using a dummy input file Open

DiamondLightSource/Savu#403 · 1 assignee · Opened Apr 27, 2017
Allow a separate dark OR flat in the nxtomo_loader Open

DiamondLightSource/Savu#400 · 1 comment · 1 assignee · Opened Apr 27, 2017
Extend random 3d tomo loader to output to a nexus file that can be reloaded by nxtomo_loader Open

DiamondLightSource/Savu#398 · 1 assignee · Opened Apr 26, 2017
Add option to request stats are applied to a previous plugin from within a later plugin Open

ready

DiamondLightSource/Savu#397 · 3 comments · 1 assignee · Opened Apr 26, 2017
Create a stats class to use during a plugin (when data is returning) on request Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

DiamondLightSource/Savu#396 · 1 comment · Opened Apr 26, 2017
Add tests for random loader plugins Open

DiamondLightSource/Savu#395 · 1 assignee · Opened Apr 26, 2017
Investigate reducing the logging content with -q Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

DiamondLightSource/Savu#393 · Opened Apr 6, 2017
Create process list for auto-reconstruction and upload to ISPyB Open

DiamondLightSource/Savu#378 · 1 assignee · Opened Jan 10, 2017
Create a run folder for log files that are moved to temporary location Open

enhancement

DiamondLightSource/Savu#374 · 1 assignee · Opened Jan 10, 2017
Provide time analysis of plugins and run Open

enhancement

DiamondLightSource/Savu#372 · 1 assignee · Opened Jan 10, 2017
Add option to pass array of variable COR values as plugin parameter to reconstruction Open

DiamondLightSource/Savu#371 · 3 comments · 1 assignee · Opened Jan 5, 2017
Segfault from multiframes reconstruction Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

DiamondLightSource/Savu#370 · 2 comments · Opened Jan 4, 2017
Amend Jenkins build to install savu via conda cloud with facilities flag set to dls Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

DiamondLightSource/Savu#367 · Opened Nov 22, 2016
config to give useful stack trace Open

enhancement

DiamondLightSource/Savu#361 · 1 assignee · Opened Oct 28, 2016
Add separate scale value for darks and flats in loader (even for image key data) Open

DiamondLightSource/Savu#360 · 1 assignee · Opened Oct 27, 2016
Add CONTRIBUTING.md Open

DiamondLightSource/Savu#358 · 1 assignee · Opened Oct 24, 2016

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