Skip to content

Commit

Permalink
updating .csv files for integration tests. Also updated plotting form…
Browse files Browse the repository at this point in the history 
…at for defocus scatter
  • Loading branch information
@MJoosten
MJoosten committed Oct 30, 2024
1 parent 263ddb9 commit 8820ec6
Show file tree
Hide file tree
Showing 15 changed files with 3,443 additions and 3,443 deletions.
4 changes: 2 additions & 2 deletions src/roodmus/analysis/plot_ctf.py
View file
Original file line number Diff line number Diff line change
Expand Up @@ -386,7 +386,7 @@ def plot_defocus_scatter(

# plot the results
plt.rcParams["font.size"] = 24
plt.style.use("seaborn-whitegrid")
# plt.style.use("seaborn-whitegrid")
fig, ax = plt.subplots(1, 2, figsize=(16, 8), sharey=True)
sns.scatterplot(
x="defocus_truth",
Expand Down Expand Up @@ -442,7 +442,7 @@ def plot_defocus_scatter(
),
)
sm._A = []
cbar = plt.colorbar(sm)
cbar = plt.colorbar(sm, ax=ax)
cbar.set_label("Micrograph")
fig.tight_layout()
return fig, ax
Expand Down
524 changes: 262 additions & 262 deletions ...fixtures/analysis_test_outputs/alignment_star/plot_picked_pose_distribution/df_picked.csv
View file

Large diffs are not rendered by default.

600 changes: 300 additions & 300 deletions ...n/fixtures/analysis_test_outputs/alignment_star/plot_truth_pose_distribution/df_truth.csv
View file

Large diffs are not rendered by default.

538 changes: 269 additions & 269 deletions tests/integration/fixtures/analysis_test_outputs/ctf_star/defocus_scatter/df_picked.csv
View file

Large diffs are not rendered by default.

600 changes: 300 additions & 300 deletions tests/integration/fixtures/analysis_test_outputs/ctf_star/defocus_scatter/df_truth.csv
View file

Large diffs are not rendered by default.

524 changes: 262 additions & 262 deletions ...s/integration/fixtures/analysis_test_outputs/frames_star/frame_distribution/df_picked.csv
View file

Large diffs are not rendered by default.

600 changes: 300 additions & 300 deletions tests/integration/fixtures/analysis_test_outputs/frames_star/frame_distribution/df_truth.csv
View file

Large diffs are not rendered by default.

538 changes: 269 additions & 269 deletions tests/integration/fixtures/analysis_test_outputs/picking_star/label_picked/df_picked.csv
View file

Large diffs are not rendered by default.

600 changes: 300 additions & 300 deletions tests/integration/fixtures/analysis_test_outputs/picking_star/label_truth/df_truth.csv
View file

Large diffs are not rendered by default.

538 changes: 269 additions & 269 deletions ...egration/fixtures/analysis_test_outputs/picking_star/label_truth_and_picked/df_picked.csv
View file

Large diffs are not rendered by default.

600 changes: 300 additions & 300 deletions ...tegration/fixtures/analysis_test_outputs/picking_star/label_truth_and_picked/df_truth.csv
View file

Large diffs are not rendered by default.

538 changes: 269 additions & 269 deletions ...ion/fixtures/analysis_test_outputs/picking_star/plot_boundary_investigation/df_picked.csv
View file

Large diffs are not rendered by default.

600 changes: 300 additions & 300 deletions ...tion/fixtures/analysis_test_outputs/picking_star/plot_boundary_investigation/df_truth.csv
View file

Large diffs are not rendered by default.

80 changes: 40 additions & 40 deletions tests/integration/fixtures/analysis_test_outputs/picking_star/plot_overlap/df_overlap.csv
View file
Original file line number Diff line number Diff line change
@@ -1,41 +1,41 @@
,metadata_filename,ugraph_filename,defocus,radius,neighbours_truth,neighbours_picked
0,meta_files/particles.star,000000.mrc,-15309.734340824827,5.0,0.0,23.5
1,meta_files/particles.star,000000.mrc,-15309.734340824827,10.0,0.0,63.5
2,meta_files/particles.star,000000.mrc,-15309.734340824827,15.0,1.0,92.5
3,meta_files/particles.star,000000.mrc,-15309.734340824827,20.0,2.0,112.0
4,meta_files/particles.star,000000.mrc,-15309.734340824827,25.0,2.0,123.5
5,meta_files/particles.star,000000.mrc,-15309.734340824827,30.0,3.0,132.5
6,meta_files/particles.star,000000.mrc,-15309.734340824827,35.0,3.0,138.0
7,meta_files/particles.star,000000.mrc,-15309.734340824827,40.0,4.0,140.5
8,meta_files/particles.star,000000.mrc,-15309.734340824827,45.0,5.0,142.5
9,meta_files/particles.star,000000.mrc,-15309.734340824827,50.0,9.0,144.0
10,meta_files/particles.star,000000.mrc,-15309.734340824827,55.0,11.0,145.0
11,meta_files/particles.star,000000.mrc,-15309.734340824827,60.0,15.0,146.0
12,meta_files/particles.star,000000.mrc,-15309.734340824827,65.0,17.0,146.5
13,meta_files/particles.star,000000.mrc,-15309.734340824827,70.0,19.0,147.0
14,meta_files/particles.star,000000.mrc,-15309.734340824827,75.0,21.0,147.5
15,meta_files/particles.star,000000.mrc,-15309.734340824827,80.0,23.0,147.5
16,meta_files/particles.star,000000.mrc,-15309.734340824827,85.0,27.0,148.0
17,meta_files/particles.star,000000.mrc,-15309.734340824827,90.0,33.0,148.0
18,meta_files/particles.star,000000.mrc,-15309.734340824827,95.0,39.0,150.0
19,meta_files/particles.star,000000.mrc,-15309.734340824827,100.0,44.0,152.0
20,meta_files/particles.star,000000.mrc,-15309.734340824827,105.0,48.0,153.5
21,meta_files/particles.star,000000.mrc,-15309.734340824827,110.0,52.0,157.0
22,meta_files/particles.star,000000.mrc,-15309.734340824827,115.0,56.0,161.0
23,meta_files/particles.star,000000.mrc,-15309.734340824827,120.0,63.0,168.5
24,meta_files/particles.star,000000.mrc,-15309.734340824827,125.0,67.0,174.5
25,meta_files/particles.star,000000.mrc,-15309.734340824827,130.0,74.0,180.0
26,meta_files/particles.star,000000.mrc,-15309.734340824827,135.0,81.0,188.0
27,meta_files/particles.star,000000.mrc,-15309.734340824827,140.0,90.0,198.0
28,meta_files/particles.star,000000.mrc,-15309.734340824827,145.0,97.0,206.0
29,meta_files/particles.star,000000.mrc,-15309.734340824827,150.0,108.0,213.0
30,meta_files/particles.star,000000.mrc,-15309.734340824827,155.0,116.0,223.0
31,meta_files/particles.star,000000.mrc,-15309.734340824827,160.0,127.0,234.0
32,meta_files/particles.star,000000.mrc,-15309.734340824827,165.0,134.0,245.0
33,meta_files/particles.star,000000.mrc,-15309.734340824827,170.0,145.0,255.0
34,meta_files/particles.star,000000.mrc,-15309.734340824827,175.0,152.0,266.5
35,meta_files/particles.star,000000.mrc,-15309.734340824827,180.0,168.0,278.0
36,meta_files/particles.star,000000.mrc,-15309.734340824827,185.0,185.0,293.0
37,meta_files/particles.star,000000.mrc,-15309.734340824827,190.0,204.0,310.5
38,meta_files/particles.star,000000.mrc,-15309.734340824827,195.0,217.0,326.0
39,meta_files/particles.star,000000.mrc,-15309.734340824827,200.0,239.0,342.0
0,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,5.0,0.0,23.5
1,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,10.0,0.0,63.5
2,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,15.0,1.0,92.5
3,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,20.0,2.0,112.0
4,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,25.0,2.0,123.5
5,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,30.0,3.0,132.5
6,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,35.0,3.0,138.0
7,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,40.0,4.0,140.5
8,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,45.0,5.0,142.5
9,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,50.0,9.0,144.0
10,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,55.0,11.0,145.0
11,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,60.0,15.0,146.0
12,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,65.0,17.0,146.5
13,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,70.0,19.0,147.0
14,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,75.0,21.0,147.5
15,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,80.0,23.0,147.5
16,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,85.0,27.0,148.0
17,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,90.0,33.0,148.0
18,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,95.0,39.0,150.0
19,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,100.0,44.0,152.0
20,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,105.0,48.0,153.5
21,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,110.0,52.0,157.0
22,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,115.0,56.0,161.0
23,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,120.0,63.0,168.5
24,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,125.0,67.0,174.5
25,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,130.0,74.0,180.0
26,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,135.0,81.0,188.0
27,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,140.0,90.0,198.0
28,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,145.0,97.0,206.0
29,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,150.0,108.0,213.0
30,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,155.0,116.0,223.0
31,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,160.0,127.0,234.0
32,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,165.0,134.0,245.0
33,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,170.0,145.0,255.0
34,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,175.0,152.0,266.5
35,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,180.0,168.0,278.0
36,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,185.0,185.0,293.0
37,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,190.0,204.0,310.5
38,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,195.0,217.0,326.0
39,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.734340824827,200.0,239.0,342.0
2 changes: 1 addition & 1 deletion ...s/integration/fixtures/analysis_test_outputs/picking_star/plot_precision/df_precision.csv
View file
Original file line number Diff line number Diff line change
@@ -1,2 +1,2 @@
,metadata_filename,ugraph_filename,defocus,num_particles_picked,num_particles_truth,TP,FP,FN,precision,recall,multiplicity
0,/mnt/parakeet_storage4/roodmus/tests/integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.73434082482,269,300,269.0,0.0,0.0,1.0,1.0,1.1633333333333333
0,integration/fixtures/analysis_test_inputs/relion_subset/Extract/job007/particles.star,000000.mrc,-15309.73434082482,269,300,269.0,0.0,0.0,1.0,1.0,1.1633333333333333

0 comments on commit 8820ec6

Please sign in to comment.