Differences
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docs:modular_manual [2022/08/25 07:03] Jon Daniels [Filters and Mirrors] |
docs:modular_manual [2022/10/25 22:47] (current) Jon Daniels [Fine alignment] |
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| **Outline**\\ | **Outline**\\ | ||
| + | * Phase 0 (coarse alignment by eye as described above) | ||
| * Phase 1 (iterative) | * Phase 1 (iterative) | ||
| - | * 1. Co-align SPIM objectives to focus and center beams. | + | * 1.1 Co-align SPIM objectives to focus and center beams. |
| - | * 2. Tilt dichroic mirrors for horizontal | + | * 1.2 Tilt dichroic mirrors for __horizontal__ |
| - | * 3. Tilt imaging mirrors to center epi spots. | + | * 1.3 Tilt imaging mirrors to center epi spots. |
| + | * 1.4 Adjust lateral position of objective. | ||
| + | * 1.5 Go back to 1.1 and repeat until no adjustments needed | ||
| * Phase 2 (may have to be repeated for initial alignment, and again when scanners or cameras are changed or disturbed) | * Phase 2 (may have to be repeated for initial alignment, and again when scanners or cameras are changed or disturbed) | ||
| - | * 4. Focus collimators to center beam waists in FOV. | + | * 2.1 Focus collimators to center beam waists in FOV. |
| - | * 5. Rotate scanners for __uniform__ focus of the sheets. | + | * 2.2 Rotate scanners for __uniform__ focus across |
| - | * 6. Rotate cameras for vertical sheets from epi view. | + | * 2.3 Rotate cameras for vertical sheets from epi view. |
| - | * Phase 3 (performed just once for initial alignment and again for objective | + | * Go back to 1.1 |
| - | * 7. Establish the coverslip location. | + | * Phase 3 (performed just once for initial alignment and again for objective |
| - | * 8. Align the inverted scope with the SPIM objectives. | + | * 3.1 Establish the coverslip location. |
| - | * 9. Cross-calibrate the piezo and light sheet movement. | + | * 3.2 Align the inverted scope with the SPIM objectives. |
| + | * 3.3 Cross-calibrate the piezo and light sheet movement. | ||
| + | * Phase 4 (performed for any new sample) | ||
| + | * 4.1 Check that light sheet and detection plane are coincident; adjust offset in plugin if needed. | ||
| ==== Phase 1 ==== | ==== Phase 1 ==== | ||
