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Image writing adds a '.h5' extension. However the python `fully_sampled.py` example uses `output.h5` as the default name, resulting in a file called `output.h5.h5`.
[This is a corrected issue, a pre…
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We cannot run multiple recons on the same data at the same time. (This can easily happen when using the SIRF-Exercises, when you try multiple notebooks). We get an error that HDF5 has locked the file
…
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```python
im=sirf.STIR.ImageData.read_from_file("myfile.hv")
TypeError: unbound method read_from_file() must be called with ImageData instance as first argument (got str instance instead)
```
It…
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It is transposed for some reason. Running `/SIRF-Exercises/notebooks/PET/reconstruct_measured_data.ipynb`, we get
```python
randoms = lm2sino.estimate_randoms()
randoms_array=randoms.as_array()[0,:…
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```
VER=2.2.0
```
1. Submodules (within SIRF)
- [x] tag data
+ `git submodule update` # **should not complain**
+ `cd data && git tag -a v$VER -m "version $VER" && git push --tags && c…
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SIRF-exercises registration demo does
```python
resampler = Reg.NiftyResample()
resampler.set_reference_image(ref)
resampler.set_floating_image(flo)
resampler.add_transformation(tm)
resampler.se…
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The synergistic demos use brainweb, which starts by using `pip install numba`. That now fails:
```
running bdist_wheel
/usr/bin/python /tmp/pip-install-sW2ewi/llvmlite/ffi/build.py
File "/t…
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As Ubuntu 20.04 LTS has been released it seems a good idea to move to the this new OS.
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Just tried with 2.2.0-rc.1 VM.
The registration demo works, but it seems a bit strange. Initial display of images is
![image](https://user-images.githubusercontent.com/6362141/83737100-7c372180-a6…
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In demo `hkem_reconstruction.py`, `KOSMAPOSLReconstructor.set_up()` fails with error message
```
ERROR: Error opening file
```
apparently thrown by `stir::IterativeReconstruction::post_processi…