add source to coverage

bjornwallner · Mar 25, 2024 · 71b0896 · 71b0896
1 parent cb01c01
commit 71b0896
Showing 1 changed file with 10 additions and 10 deletions.
diff --git a/run_test.sh b/run_test.sh
@@ -2,20 +2,20 @@
 set -euo pipefail
 
 # Test that cython version behaves the same as nocython
-coverage run -a -m --source=src/ DockQ.DockQ examples/1A2K_r_l_b.model.pdb examples/1A2K_r_l_b.pdb
-coverage run -a  --source=src/ src/DockQ/DockQ.py examples/1A2K_r_l_b.model.pdb examples/1A2K_r_l_b.pdb
-coverage run -a -m --source=src/ DockQ.DockQ examples/1A2K_r_l_b.model.pdb examples/1A2K_r_l_b.pdb --no_align
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/1A2K_r_l_b.model.pdb examples/1A2K_r_l_b.pdb
+coverage run -a --source=src/ src/DockQ/DockQ.py examples/1A2K_r_l_b.model.pdb examples/1A2K_r_l_b.pdb
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/1A2K_r_l_b.model.pdb examples/1A2K_r_l_b.pdb --no_align
 coverage run -a --source=src/ src/DockQ/DockQ.py examples/1A2K_r_l_b.model.pdb examples/1A2K_r_l_b.pdb --no_align
 # Multiple interfaces
-coverage run -a -m  --source=src/ DockQ.DockQ examples/dimer_dimer.model.pdb examples/dimer_dimer.pdb  --short
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/dimer_dimer.model.pdb examples/dimer_dimer.pdb  --short
 # Test on structures with slightly different sequences
-coverage run -a -m --source=src/ DockQ.DockQ examples/model.pdb examples/native.pdb --allowed_mismatches 1
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/model.pdb examples/native.pdb --allowed_mismatches 1
 # Test various mapping strategies
-coverage run -a -m --source=src/ DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB_r_l_b.pdb --short --mapping AB*:BA*
-coverage run -a -m --source=src/ DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB_r_l_b.pdb --short --mapping :ABC
-coverage run -a -m --source=src/ DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB_r_l_b.pdb --short --mapping ABCDEFGH:BADCFEHG
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB_r_l_b.pdb --short --mapping AB*:BA*
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB_r_l_b.pdb --short --mapping :ABC
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB_r_l_b.pdb --short --mapping ABCDEFGH:BADCFEHG
 # Test that cif parsing behaves same as pdb parsing
-coverage run -a -m --source=src/ DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB_r_l_b.pdb --mapping DH:AE
-coverage run -a -m --source=src/ DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB.cif.gz --mapping DH:AE
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB_r_l_b.pdb --mapping DH:AE
+coverage run -a --source='DockQ.DockQ' -m DockQ.DockQ examples/1EXB_r_l_b.model.pdb examples/1EXB.cif.gz --mapping DH:AE
 
 coverage report