Commits · v2.0.0rc1 · Reuter, Jan Andre / SLIX

09 Nov, 2020 8 commits
- Increment version number · 854caee1
  Jan André Reuter authored Nov 09, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  854caee1
- Reverted some of the previous changes due to errors. Updated some of the tests... · de4a758c
  Jan André Reuter authored Nov 09, 2020
```
Reverted some of the previous changes due to errors. Updated some of the tests so that CPU versions can pass as well.
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  de4a758c
- Merge branch 'gpu-optimization' of github.com:3d-pli/SLIX into gpu-optimization · eb8259be
  Jan André Reuter authored Nov 09, 2020
  
  eb8259be
- Fixed typo in test_toolbox.py · fdd7f351
  Jan André Reuter authored Nov 09, 2020
```
Double check in toolbox.py if GPU is present to prevent crash if user does use use_gpu=True even though no GPU is present
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  fdd7f351
- Update test-package.yml · 9406166e
  Reuter, Jan Andre authored Nov 09, 2020
  
  9406166e
- Try to fix failture of tests on systems without a GPU · f9147abb
  Jan André Reuter authored Nov 09, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  f9147abb
- Update to Jupyter Notebook. · 0319d2d8
  Jan André Reuter authored Nov 09, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  0319d2d8
- Added last benchmark results · 5c955d23
  Jan André Reuter authored Nov 09, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  5c955d23
06 Nov, 2020 6 commits

Reuter, Jan Andre authored Nov 06, 2020

Added new requirements to requirements.txt.
benchmark.py can now be run without downloading any data first. It will automatically use the GPU if possible. An argparse might be a viable option if this tool will be shipped in v2.0 release.
Signed-off-by: Jan Andre Reuter <j.reuter@fz-juelich.de>

cf89aca9

Added system recommendations · f82ef1f8
Reuter, Jan Andre authored Nov 06, 2020
```
Signed-off-by: Jan Andre Reuter <j.reuter@fz-juelich.de>
```
f82ef1f8

Added Benchmark. Update to README performance metrics. · b60fbf97

Reuter, Jan Andre authored Nov 06, 2020

Fixed a small bug in toolbox.py which could result in a crash when using the CPU version
Signed-off-by: Jan Andre Reuter <j.reuter@fz-juelich.de>

b60fbf97

Added thin out tests. · b8320a32
Reuter, Jan Andre authored Nov 06, 2020
```
Signed-off-by: Jan Andre Reuter <j.reuter@fz-juelich.de>
```
b8320a32

Exported Numba Jit to own file. Increased version number for next beta release. · 568d1aae

Reuter, Jan Andre authored Nov 06, 2020

Fixed install_requires in setup.cfg to also include Scipy as it's needed for smoothing SLIX measurements
Signed-off-by: Jan Andre Reuter <j.reuter@fz-juelich.de>

568d1aae

Added new preparation.py which includes sampling and thinout methods for read SLIX measurements. · 91d6ccb1
Reuter, Jan Andre authored Nov 06, 2020
```
Signed-off-by: Jan Andre Reuter <j.reuter@fz-juelich.de>
```
91d6ccb1

05 Nov, 2020 3 commits

Fixed a small bug resulting in a new tqdm promt for each file · 1ece3805
Jan André Reuter authored Nov 05, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
1ece3805
Added documentation. Fixed PEP8 formatting. · 1ecfe32e
Jan André Reuter authored Nov 05, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
1ecfe32e

Added a second tqdm dialog showing the progress. · 3629b126

Reuter, Jan Andre authored Nov 05, 2020

The second tqdm dialog is only present in SLIXParameterGenerator because
single line profiles get evaluated way too quickly for tqdm to be
useful. Therefore it will only be implemented there.

Reimplemented the smoothing algorithm present in previous versions of
SLIX. The base parameters might be wrong in the current state. The
method also needs to be tested for high coverage!
Signed-off-by: Jan Andre Reuter <j.reuter@fz-juelich.de>

3629b126

03 Nov, 2020 1 commit
- Bumped version number · 392859a3
  Jan André Reuter authored Nov 03, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  392859a3
02 Nov, 2020 10 commits
- Updated Jupyter Notebook with easier instructions · 525013d0
  Jan André Reuter authored Nov 02, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  525013d0
- Fixed tests for visualization · 1a1e8b49
  Jan André Reuter authored Nov 02, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  1a1e8b49
- Added line plot command line test · 24947141
  Jan André Reuter authored Nov 02, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  24947141
- Fixed a lot of plotting bugs. Files will now be written and not only shown... · 42b31202
  Jan André Reuter authored Nov 02, 2020
```
Fixed a lot of plotting bugs. Files will now be written and not only shown when the parameter is given
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  42b31202
- Update tests. Fixed some small bugs. · 4afb185e
  Jan André Reuter authored Nov 02, 2020
```
Added image preview with --with_plots.
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  4afb185e
- Finished cmd_full_image tests. Removed typos · 091fab50
  Jan André Reuter authored Nov 02, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  091fab50
- Extended tests for full image argparse · 143e3e71
  Jan André Reuter authored Nov 02, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  143e3e71
- Added first tests for argument parsers in both cmd tools · d31384ad
  Jan André Reuter authored Nov 02, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  d31384ad
- Added evaluation of line profiles to SLIX toolbox with seperate command line program · d57dae2f
  Jan André Reuter authored Nov 02, 2020
```
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  d57dae2f
- Added minimal Python files for program execution in main folder. · 43329789
  Jan André Reuter authored Nov 02, 2020
```
Changed name of cmd.py to reflect execution on full images.
Added previous executable for text line profiles which should be added again.

TODO: Expand tests to command line executables. Coverage is quite lower than before
Signed-off-by: Jan André Reuter <jan.andre.reuter@hotmail.de>
```
  43329789
30 Oct, 2020 10 commits
- Rebuild calling structure for Windows compability · 59c5a0c2
  Jan Andre Reuter authored Oct 30, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  59c5a0c2
- Merge remote-tracking branch 'origin/master' into gpu-optimization · c3c8a3bb
  Jan Andre Reuter authored Oct 30, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  c3c8a3bb
- Added cache to gitignore · e5b7333a
  Jan Andre Reuter authored Oct 30, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  e5b7333a
- Fixed PEP8 (again) · 6541fed8
  Jan Andre Reuter authored Oct 30, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  6541fed8
- PEP8 formatting for toolbox · 19c0e4e3
  Jan Andre Reuter authored Oct 30, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  19c0e4e3
- Updated doc. Finished doc for io · 24496808
  Jan Andre Reuter authored Oct 30, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  24496808
- Added doc to SLIX_CPU and SLIX_GPU · 298c6f0f
  Jan Andre Reuter authored Oct 30, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  298c6f0f
- Add linting step · e24699a3
  Jan Andre Reuter authored Oct 30, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  e24699a3
- Changed test_toolbox.py to pytest parametrize for better visibility if one test fails. · f23525d8
  Jan Andre Reuter authored Oct 30, 2020
```
Fixed bug in test_prominence
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  f23525d8
- Added a few requirements. · 8dd34c5d
  Jan Andre Reuter authored Oct 30, 2020
```
Fixed some positioning bugs in SLIXParameterGenerator.py causing crashes when using the wrong parameters.
Updated docs in toolbox.py
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  8dd34c5d
29 Oct, 2020 2 commits
- Fixed mean peak distance · b0a84359
  Jan Andre Reuter authored Oct 29, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  b0a84359
- Added unit vector tests · fa62cb50
  Jan Andre Reuter authored Oct 29, 2020
```
Signed-off-by: Jan Andre Reuter <jan.andre.reuter@hotmail.de>
```
  fa62cb50