diff --git a/pytest.ini b/pytest.ini
index 7095195..ce8fcda 100644
--- a/pytest.ini
+++ b/pytest.ini
@@ -1,9 +1,8 @@
 [pytest]
 addopts =
-    --ignore-glob=_*
     --ignore-glob=gendocs.py
     --import-mode=importlib
-pythonpath = .
+pythonpath = scripts
 python_files = *.py
 python_functions = test_*
 norecursedirs = examples files_for_examples modules plugins
diff --git a/Draw_Protein_Dimensions.py b/scripts/Draw_Protein_Dimensions.py
similarity index 100%
rename from Draw_Protein_Dimensions.py
rename to scripts/Draw_Protein_Dimensions.py
diff --git a/aaindex.py b/scripts/aaindex.py
similarity index 100%
rename from aaindex.py
rename to scripts/aaindex.py
diff --git a/anglebetweenhelices.py b/scripts/anglebetweenhelices.py
similarity index 100%
rename from anglebetweenhelices.py
rename to scripts/anglebetweenhelices.py
diff --git a/annotate_v.py b/scripts/annotate_v.py
similarity index 100%
rename from annotate_v.py
rename to scripts/annotate_v.py
diff --git a/b2transparency.py b/scripts/b2transparency.py
similarity index 100%
rename from b2transparency.py
rename to scripts/b2transparency.py
diff --git a/bbPlane.py b/scripts/bbPlane.py
similarity index 100%
rename from bbPlane.py
rename to scripts/bbPlane.py
diff --git a/ccp4_contact.py b/scripts/ccp4_contact.py
similarity index 100%
rename from ccp4_contact.py
rename to scripts/ccp4_contact.py
diff --git a/ccp4_ncont.py b/scripts/ccp4_ncont.py
similarity index 100%
rename from ccp4_ncont.py
rename to scripts/ccp4_ncont.py
diff --git a/ccp4_pisa.py b/scripts/ccp4_pisa.py
similarity index 100%
rename from ccp4_pisa.py
rename to scripts/ccp4_pisa.py
diff --git a/center_of_mass.py b/scripts/center_of_mass.py
similarity index 100%
rename from center_of_mass.py
rename to scripts/center_of_mass.py
diff --git a/centroid.py b/scripts/centroid.py
similarity index 100%
rename from centroid.py
rename to scripts/centroid.py
diff --git a/cgo_arrow.py b/scripts/cgo_arrow.py
similarity index 100%
rename from cgo_arrow.py
rename to scripts/cgo_arrow.py
diff --git a/color_by_conservation.py b/scripts/color_by_conservation.py
similarity index 100%
rename from color_by_conservation.py
rename to scripts/color_by_conservation.py
diff --git a/colorblindfriendly.py b/scripts/colorblindfriendly.py
similarity index 100%
rename from colorblindfriendly.py
rename to scripts/colorblindfriendly.py
diff --git a/colorbydisplacement.py b/scripts/colorbydisplacement.py
similarity index 100%
rename from colorbydisplacement.py
rename to scripts/colorbydisplacement.py
diff --git a/colorbyrmsd.py b/scripts/colorbyrmsd.py
similarity index 100%
rename from colorbyrmsd.py
rename to scripts/colorbyrmsd.py
diff --git a/cubes.py b/scripts/cubes.py
similarity index 100%
rename from cubes.py
rename to scripts/cubes.py
diff --git a/cyspka.py b/scripts/cyspka.py
similarity index 100%
rename from cyspka.py
rename to scripts/cyspka.py
diff --git a/displacementmap.py b/scripts/displacementmap.py
similarity index 100%
rename from displacementmap.py
rename to scripts/displacementmap.py
diff --git a/draw_rotation_axis.py b/scripts/draw_rotation_axis.py
similarity index 100%
rename from draw_rotation_axis.py
rename to scripts/draw_rotation_axis.py
diff --git a/drawgridbox.py b/scripts/drawgridbox.py
similarity index 100%
rename from drawgridbox.py
rename to scripts/drawgridbox.py
diff --git a/dynamic_mesh.py b/scripts/dynamic_mesh.py
similarity index 100%
rename from dynamic_mesh.py
rename to scripts/dynamic_mesh.py
diff --git a/elbow_angle.py b/scripts/elbow_angle.py
similarity index 100%
rename from elbow_angle.py
rename to scripts/elbow_angle.py
diff --git a/ex.py b/scripts/ex.py
similarity index 100%
rename from ex.py
rename to scripts/ex.py
diff --git a/findseq.py b/scripts/findseq.py
similarity index 100%
rename from findseq.py
rename to scripts/findseq.py
diff --git a/forster_distance_calculator.py b/scripts/forster_distance_calculator.py
similarity index 100%
rename from forster_distance_calculator.py
rename to scripts/forster_distance_calculator.py
diff --git a/frame_slider.py b/scripts/frame_slider.py
similarity index 100%
rename from frame_slider.py
rename to scripts/frame_slider.py
diff --git a/get_raw_distances.py b/scripts/get_raw_distances.py
similarity index 100%
rename from get_raw_distances.py
rename to scripts/get_raw_distances.py
diff --git a/grepset.py b/scripts/grepset.py
similarity index 100%
rename from grepset.py
rename to scripts/grepset.py
diff --git a/hbplus.py b/scripts/hbplus.py
similarity index 100%
rename from hbplus.py
rename to scripts/hbplus.py
diff --git a/modevectors.py b/scripts/modevectors.py
similarity index 100%
rename from modevectors.py
rename to scripts/modevectors.py
diff --git a/nmr_cnstr.py b/scripts/nmr_cnstr.py
similarity index 100%
rename from nmr_cnstr.py
rename to scripts/nmr_cnstr.py
diff --git a/perp_maker.py b/scripts/perp_maker.py
similarity index 100%
rename from perp_maker.py
rename to scripts/perp_maker.py
diff --git a/plot_noe.py b/scripts/plot_noe.py
similarity index 100%
rename from plot_noe.py
rename to scripts/plot_noe.py
diff --git a/poseview.py b/scripts/poseview.py
similarity index 100%
rename from poseview.py
rename to scripts/poseview.py
diff --git a/propka.py b/scripts/propka.py
similarity index 100%
rename from propka.py
rename to scripts/propka.py
diff --git a/pymol2glmol.py b/scripts/pymol2glmol.py
similarity index 100%
rename from pymol2glmol.py
rename to scripts/pymol2glmol.py
diff --git a/removealt.py b/scripts/removealt.py
similarity index 100%
rename from removealt.py
rename to scripts/removealt.py
diff --git a/renumber.py b/scripts/renumber.py
similarity index 100%
rename from renumber.py
rename to scripts/renumber.py
diff --git a/rotkit.py b/scripts/rotkit.py
similarity index 100%
rename from rotkit.py
rename to scripts/rotkit.py
diff --git a/save_pdb_with_anisou.py b/scripts/save_pdb_with_anisou.py
similarity index 100%
rename from save_pdb_with_anisou.py
rename to scripts/save_pdb_with_anisou.py
diff --git a/save_settings.py b/scripts/save_settings.py
similarity index 100%
rename from save_settings.py
rename to scripts/save_settings.py
diff --git a/select_sites.py b/scripts/select_sites.py
similarity index 100%
rename from select_sites.py
rename to scripts/select_sites.py
diff --git a/show_bumps.py b/scripts/show_bumps.py
similarity index 100%
rename from show_bumps.py
rename to scripts/show_bumps.py
diff --git a/spectrum_states.py b/scripts/spectrum_states.py
similarity index 100%
rename from spectrum_states.py
rename to scripts/spectrum_states.py
diff --git a/spectrumany.py b/scripts/spectrumany.py
similarity index 100%
rename from spectrumany.py
rename to scripts/spectrumany.py
diff --git a/stereo_ray.py b/scripts/stereo_ray.py
similarity index 100%
rename from stereo_ray.py
rename to scripts/stereo_ray.py
diff --git a/tmalign.py b/scripts/tmalign.py
similarity index 100%
rename from tmalign.py
rename to scripts/tmalign.py
diff --git a/transformations.py b/scripts/transformations.py
similarity index 100%
rename from transformations.py
rename to scripts/transformations.py
diff --git a/uniprot_features.py b/scripts/uniprot_features.py
similarity index 100%
rename from uniprot_features.py
rename to scripts/uniprot_features.py
diff --git a/wfmesh.py b/scripts/wfmesh.py
similarity index 100%
rename from wfmesh.py
rename to scripts/wfmesh.py