docs update

docs/user/ptychography/lamni.md

@@ -75,7 +75,6 @@ or with the shutter left open: `lamni.xrayeye_update_frame(keep_shutter_open=Tru
 
 The sample fine alignment can be obtained using ptychography. For this a short laminogram has to be recorded.
 
-* `lamni.leye_out()` if not done yet. 
 * `lamni.tomo_parameters()` adjust the ptychographic scan parameters for the alignment scan (FOV/step size/counting time) — `tomo_type` and number of projections are ignored, since the alignment scan always runs its own fixed 12 points spread evenly across the full 360 degrees, independent of the main tomogram's settings.
 * `lamni.tomo_alignment_scan()` perform the alignment scan. Requires x-ray-eye alignment to have already been done — it will abort with a message otherwise. Scan numbers, angles and the existing x-ray-eye-fit offset at each angle are written to `~/data/raw/logs/ptychotomoalign_scannum.txt` and also printed at the end.
 * Run `BEC_ptycho_align` (in Matlab, **force ptycho=1**, and **correct scan numbers**) using the printed/logged scan numbers.
@@ -83,12 +82,10 @@ The sample fine alignment can be obtained using ptychography. For this a short l
   `lamni.read_additional_correction('/sls/X12SA/data/e20632/Data10/cxs_software/ptycho/correction_lamni_um_S05389_lamni_fit.txt')`
 * With this alignment a second iteration could be performed. To read the second correction file use `lamni.read_additional_correction_2()`
 
-#### Shifting the FOV
 
-* `lamni.tomo_fovx/y_offset=value` [mm] will shift the field of view. Perform this adjustment from projections collected at **lsamrot 0 degrees**. This shift will rotate. In contrast the manual shift will be a constant shift, identical at all angles.
 
 (user.ptychography.lamni.laminography)=
-### Laminography scan
+### Test projections and Laminography scan
 
 Start the laminography scan by
 
@@ -100,7 +97,7 @@ Start the laminography scan by
 
 During the scan, a live progress report is printed (subtomogram/projection counters and an estimated time of completion). Gaps significantly longer than a normal acquisition cycle (e.g. a beamline-down interruption, or a crash followed by a restart) are detected automatically from the time between consecutive projections and excluded from the time estimate; the total time lost to such gaps is printed once the scan finishes.
 
-Three angular sampling modes are implemented, same as flOMNI, but LamNI always scans the full 360 degrees — laminography's tilted sample geometry does not have the symmetry that lets flOMNI's 180-degree mode work, so there is no angular-range choice to make:
+Three angular sampling modes are implemented:
 
 | tomography mode | parameters and defaults |
 | --- | --- |
@@ -110,13 +107,13 @@ Three angular sampling modes are implemented, same as flOMNI, but LamNI always s
 
 The parameters above can be used to __restart an interrupted acquisition__ manually, or - more conveniently - by running  
 `lamni.tomo_scan_resume()`  
-which reads the last recorded progress and resumes automatically at the exact point (subtomogram/angle, or projection for the golden ratio modes) the scan was interrupted at, without needing to look up the values by hand. When running from the tomo scan queuing system use `lamni.tomo_queue_execute()` instead!
+which reads the last recorded progress and resumes automatically at the exact point (subtomogram/angle, or projection for the golden ratio modes) the scan was interrupted at, without needing to look up the values by hand. When running from the tomo scan queuing system use `lamni.tomo_queue_resume()` instead!
 
 In case of eight equally spaced sub-tomograms, an individual sub-tomogram can be scanned by `lamni.sub_tomo_scan(subtomo_number, start_angle)`. If the start angle is not specified, it is computed depending on `subtomo_number`, ranging from 1 to 8.
 
 #### Queueing multiple scans
 
-Several tomo parameter sets can be queued and run sequentially on the same sample, without having to start each one by hand.
+Several tomo parameter sets can be queued and run sequentially on the same sample, without having to start each one by hand. Easiest is to use the tomo parameters GUI for preparing the scans. But it is also possible on the command line interface.
 
 | command | explanation |
 | --- | --- |