From 93944846fc74a41216f03953b38c13c8bc6fa20e Mon Sep 17 00:00:00 2001 From: Ali Khan Date: Wed, 14 Feb 2024 00:49:17 -0500 Subject: [PATCH] remove interest point calcs (was failing) --- workflow/macros/AutostitchMacro.ijm | 12 ------------ 1 file changed, 12 deletions(-) diff --git a/workflow/macros/AutostitchMacro.ijm b/workflow/macros/AutostitchMacro.ijm index 608f80f..565559e 100644 --- a/workflow/macros/AutostitchMacro.ijm +++ b/workflow/macros/AutostitchMacro.ijm @@ -29,18 +29,6 @@ run("Filter pairwise shifts ...", " max_shift_in_z=0 " + " max_displacement=0"); -run("Calculate pairwise shifts ...", -"browse=" + dataset_xml + -" select="+ dataset_xml + -" process_angle=[All angles] process_channel=[All channels] process_illumination=[All illuminations] process_tile=[All tiles] process_timepoint=[All Timepoints] method=[Interest-Point Registration (with new Interest Points)] show_expert_grouping_options show_expert_algorithm_parameters how_to_treat_timepoints=[treat individually] how_to_treat_channels=group how_to_treat_illuminations=group how_to_treat_angles=[treat individually] how_to_treat_tiles=compare type_of_interest_point_detection=Difference-of-Gaussian label_interest_points=beads subpixel_localization=[3-dimensional quadratic fit] interest_point_specification=[Comparable to Sample & small (beads)]" + - " downsample_xy=" + ds_x + "x " + - " downsample_z=" + ds_z + "x " + - " compute_on=[CPU (Java)] registration_algorithm=[Fast descriptor-based (rotation invariant)] registration_in_between_views=[Only compare overlapping views (according to current transformations)] interest_point_inclusion=[Compare all interest point of overlapping views] interest_points=beads group_channels redundancy=0 significance=10 allowed_error_for_ransac=5 number_of_ransac_iterations=Normal"); - -run("ICP Refinement ...", "select="+dataset_xml+ - " process_angle=[All angles] process_channel=[All channels] process_illumination=[All illuminations] process_tile=[All tiles] process_timepoint=[All Timepoints] icp_refinement_type=[Simple (tile registration)] global_optimization_strategy=[Two-Round: Handle unconnected tiles, remove wrong links RELAXED (5.0x / 7.0px)] downsampling=[Downsampling 4/4/2] interest=[Average Threshold] icp_max_error=[Normal Adjustment (<5px)]"); - - run("Optimize globally and apply shifts ...", "select=" + dataset_xml +