csaxs_bec/bec_ipython_client/plugins/flomni/flomni.py

@@ -1664,7 +1664,7 @@ class Flomni(
             f"Number of alignment scans: {len(alignment_scan_numbers)}\n"
             f"Alignment scan numbers: {scan_list_str}\n"
         )
-        print(scliog_content)
+        print(scilog_content)
         bec.messaging.scilog.new().add_text(scilog_content.replace("\n", "<br>")).add_tags("alignmentscan").send()
 
     def sub_tomo_scan(self, subtomo_number, start_angle=None):
@@ -2120,7 +2120,7 @@ class Flomni(
                     f" number {bec.queue.next_scan_number}.\n"
                 )
 
-                scans.flomni_fermat_scan(
+                scan_kwargs = dict(
                     fovx=self.fovx,
                     fovy=self.fovy,
                     step=self.tomo_shellstep,
@@ -2129,9 +2129,13 @@ class Flomni(
                     zshift=sum_offset_z,
                     angle=angle,
                     exp_time=self.tomo_countingtime,
-                    corridor_size=corridor_size,
                 )
 
+                if self.corridor_size > 0:
+                    scan_kwargs["corridor_size"] = self.corridor_size
+
+                scans.flomni_fermat_scan(**scan_kwargs)
+
         self.tomo_reconstruct()
 
 

csaxs_bec/bec_ipython_client/plugins/flomni/x_ray_eye_align.py

@@ -28,7 +28,7 @@ if TYPE_CHECKING:
 
 class XrayEyeAlign:
     # pixel calibration, multiply to get mm
-    test_wo_movements = True
+    test_wo_movements = False
     PIXEL_CALIBRATION = 0.1 / 113  # .2 with binning
 
     def __init__(self, client, flomni: Flomni) -> None:
@@ -257,7 +257,7 @@ class XrayEyeAlign:
         print("After that, run the fit in Matlab and load the new fit flomni.read_alignment_offset()")
 
     def write_output(self):
-        file = os.path.expanduser("~/Data10/specES1/internal/xrayeye_alignmentvalues")
+        file = os.path.expanduser("~/data/raw/logs/xrayeye_alignmentvalues")
         if not os.path.exists(file):
             os.makedirs(os.path.dirname(file), exist_ok=True)