fixes during real tests

focus_sequence_FLI.py

@@ -20,7 +20,7 @@ import subprocess as sp
 
 
 def set_focus(foc_val):
-    cmd = ["fli_control", "-g", str(foc_val)]
+    cmd = ["fli_control", "-g", str(int(foc_val))]
     ret = sp.run(cmd, stdout=sp.PIPE, stderr=sp.PIPE)
     return ret.returncode
 
@@ -32,7 +32,7 @@ def get_image(filename, exp_time):
     #     convert it to 'rootname'
     #
 
-    fname = filename.split("_")
+    fname = str(filename).split("_")
     fname = fname[0]
 
     cmd = [
@@ -137,6 +137,8 @@ if __name__ == "__main__":
         print("START FOCUSSING SEQUENCE ...")
 
     if args.guess:  # rough focus estimation
+        if args.verbose:
+            print("\trough focus estimation ...")
         result = obsutil.focussingSequence(
             [focus_start, focus_stop],
             set_focus,
@@ -156,6 +158,10 @@ if __name__ == "__main__":
         focus_start = result["focus_value"] - r
         focus_stop = result["focus_value"] + r
 
+        if args.verbose:
+            print("\testimate guess focus position in range [{:g},{:g}]".format(focus_start, focus_stop))
+
+
     if np.isfinite(args.focus_step):
         result = obsutil.focussingSequence(
             [focus_start, focus_stop, focus_step],
@@ -178,7 +184,7 @@ if __name__ == "__main__":
     if args.verbose:
         print("\tThe best focus value: {:g}".format(result["focus_value"]))
 
-    if not args.do_no_set:
+    if not args.do_not_set:
         if args.verbose:
             print("\n\tSet focus to the best value ...", end="")
             set_focus(result["focus_value"])

focus_utils.py

@@ -84,7 +84,7 @@ def getFocusSequencePars(**user_kwds):
         "focus_start": None,
         "focus_stop": None,
         "focus_step": None,
-        "root_filename": "focus.fits",
+        "root_filename": "focus.fit",
         "acq_per_value": 1,  # number of acquisitions per focus value
         "exp_time": 10,  # exposure time in seconds
         "set_to_best": True,  # set focus to the best value
@@ -251,7 +251,7 @@ def computeFocus(
     if len(futures):
         print("", file=log_output)
         print(log_ident, file=log_output, end="")
-        print("waiting for the end of calculations ...\t", file=log_output, end="")
+        print("waiting for the end of calculations ...\t", file=log_output, end="", flush=True)
 
         for i in range(len(futures)):
             flux_rad.append(futures[i].result())
@@ -353,7 +353,7 @@ def focussingSequence(
                 ret_val["ret_code"] = -1
                 return ret_val
 
-        N = (focus_range[1] - focus_range[0]) / focus_range[2] + 1
+        N = int((focus_range[1] - focus_range[0]) / focus_range[2] + 1)
 
     if N < 3:
         ret_val["ret_code"] = -1
@@ -379,18 +379,18 @@ def focussingSequence(
     fname = rname.stem
     file_ext = rname.suffix
     if file_ext == "":
-        file_ext = ".fits"
+        file_ext = ".fit"
 
     futures = []
     flux_rad = []
 
     executor = ProcessPoolExecutor(max_workers=max_wks)
 
-    i_foc = 0
+    i_foc = 1
     ret_code = 0
     for foc_val in focus_value:
         print(log_ident, file=log_output, end="")
-        print("set focus value to {:g} ...\t".format(foc_val), file=log_output, end="")
+        print("set focus value to {:g} ...\t".format(foc_val), file=log_output, end="", flush=True)
 
         ret_code = set_focus_func(foc_val)
         if ret_code:
@@ -401,10 +401,10 @@ def focussingSequence(
             print("OK", file=log_output)
 
         filename = "{}_{:04d}{}".format(fname, i_foc, file_ext)
-        full_filename = pt.Path.joinpath(dir, pt.Path(filename))
+        full_filename = str(pt.Path.joinpath(dir, pt.Path(filename)))
 
         print(log_ident, file=log_output, end="")
-        print("get image '{}' ...\t".format(full_filename), file=log_output, end="")
+        print("get image '{}' ...\t".format(full_filename), file=log_output, end="", flush=True)
 
         ret_code = get_image_func(full_filename, seq_kwds["exp_time"])
         if ret_code:
@@ -414,7 +414,8 @@ def focussingSequence(
         else:
             print("OK", file=log_output)
 
-        futures.append(executor.submit(amt.compute_mean_flux_radius, fname, **seq_kwds))
+        futures.append(executor.submit(amt.compute_mean_flux_radius, full_filename, **seq_kwds))
+        i_foc += 1
 
     print("", file=log_output)
     print(log_ident, file=log_output, end="")
@@ -580,9 +581,9 @@ def getFocussingSequenceCmdlinePars(parser):
 
     parser.add_argument(
         "--foc-file",
-        help="Rootname of output focussing images. Default is 'focus.fits'.",
+        help="Rootname of output focussing images. Default is 'focus.fit'.",
         type=str,
-        default="focus.fits",
+        default="focus.fit",
     )
 
     parser.add_argument(
@@ -702,7 +703,7 @@ def parsFocussingSequenceCmdlinePars(parser_args, parser_msg=[]):
         parser_msg.append("Invalid '--foc_file' argument! Use of defaul value!")
 
     kwds["root_filename"] = (
-        parser_args.foc_file if parser_args.foc_file != "" else "focus.fits"
+        parser_args.foc_file if parser_args.foc_file != "" else "focus.fit"
     )
 
     if parser_args.repeat <= 0: