Scipion-em-aretomo

Latest version: v3.9.1

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- fix applyTransform in the convert step
- add interpolated flag

- add aretomo 1.3.4, remove support for versions < 1.1.0
- fix alignment matrix for excluded TS views

- set tilt axis angle to 0 for interpolated aligned TS (fixed issue 36)
- remove updateDim calls
- use Acquisition from TS for new tomo objs

- get rid of xf file conversion, use aln directly
- add aretomo 1.3.0
- update citation

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