RosettaCommons · rclune · Apr 24, 2026 · Apr 22, 2026 · Apr 22, 2026 · Apr 23, 2026
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/channel-toxin.pdb b/tutorials/protein_binder_design/Part1-Diffusion/channel-toxin.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__0.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__0.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__0.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__0.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__1.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__1.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__1.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__1.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__2.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__2.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__2.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__2.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__3.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__3.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__3.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__3.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__4.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__4.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__4.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__4.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__5.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__5.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__5.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__5.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__6.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__6.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__6.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__6.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__7.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__7.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__7.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__7.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__8.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__8.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__8.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__8.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__9.pdb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__9.pdb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__9.trb b/tutorials/protein_binder_design/Part1-Diffusion/outputs-test/binder__9.trb
diff --git a/tutorials/protein_binder_design/Part1-Diffusion/run_diffusion-binders.sh b/tutorials/protein_binder_design/Part1-Diffusion/run_diffusion-binders.sh
@@ -0,0 +1,12 @@
+#!/bin/bash
+
+script='/home/dlopezma/RFdiffusion/scripts/run_inference.py'
+
+
+python $script \
+inference.output_prefix=outputs-test/binder_ \
+inference.input_pdb=channel-toxin.pdb 'contigmap.contigs=[A1-110/0 B111-220/0 C221-330/0 D331-440/0 30-50/H462-463/20-50]' \
+'ppi.hotspot_res=[A68,A70,B178,B180,C288,C290,D398,D400]' \
+'potentials.guiding_potentials=["type:binder_ROG,min_dist:5,weight:10"]' potentials.guide_scale=10 potentials.guide_decay="quadratic" \
+denoiser.noise_scale_ca=0.5 denoiser.noise_scale_frame=0.5 \
+inference.num_designs=200