Revert testdata update

PixelgenTechnologies · Aug 23, 2024 · 7683f26 · 7683f26
1 parent e2b4679
commit 7683f26
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Showing 20 changed files with 9,501 additions and 9,507 deletions.
diff --git a/tests/report/assets/reports_only/adapterqc/pbmcs_unstimulated.report.json b/tests/report/assets/reports_only/adapterqc/pbmcs_unstimulated.report.json
@@ -1,8 +1,8 @@
 {
   "tag": "Cutadapt report",
   "schema_version": [0, 3],
-  "cutadapt_version": "4.9",
-  "python_version": "3.11.9",
+  "cutadapt_version": "4.6",
+  "python_version": "3.11.7",
   "command_line_arguments": [
     "-e",
     "0.1",
@@ -36,7 +36,7 @@
       "too_many_expected_errors": null,
       "casava_filtered": null,
       "discard_trimmed": null,
-      "discard_untrimmed": null
+      "discard_untrimmed": 28293
     },
     "output": 171097,
     "reverse_complemented": null,

diff --git a/tests/report/assets/reports_only/adapterqc/uropod_control.report.json b/tests/report/assets/reports_only/adapterqc/uropod_control.report.json
@@ -1,8 +1,8 @@
 {
   "tag": "Cutadapt report",
   "schema_version": [0, 3],
-  "cutadapt_version": "4.9",
-  "python_version": "3.11.9",
+  "cutadapt_version": "4.6",
+  "python_version": "3.11.7",
   "command_line_arguments": [
     "-e",
     "0.1",
@@ -36,7 +36,7 @@
       "too_many_expected_errors": null,
       "casava_filtered": null,
       "discard_trimmed": null,
-      "discard_untrimmed": null
+      "discard_untrimmed": 43714
     },
     "output": 255274,
     "reverse_complemented": null,

diff --git a/tests/report/assets/reports_only/analysis/pbmcs_unstimulated.meta.json b/tests/report/assets/reports_only/analysis/pbmcs_unstimulated.meta.json
@@ -5,15 +5,13 @@
             "--compute-polarization": true,
             "--compute-colocalization": true,
             "--use-full-bipartite": true,
-            "--polarization-transformation": "log1p",
-            "--polarization-n-permutations": 50,
-            "--polarization-min-marker-count": 5,
-            "--colocalization-transformation": "rate-diff",
+            "--polarization-normalization": "clr",
+            "--polarization-n-permutations": 0,
+            "--colocalization-transformation": "log1p",
             "--colocalization-neighbourhood-size": 1,
             "--colocalization-n-permutations": 10,
             "--colocalization-min-region-count": 0,
-            "--colocalization-min-marker-count": 5,
             "--output": "."
         }
     }
-}
+}
diff --git a/tests/report/assets/reports_only/analysis/uropod_control.meta.json b/tests/report/assets/reports_only/analysis/uropod_control.meta.json
@@ -5,15 +5,13 @@
             "--compute-polarization": true,
             "--compute-colocalization": true,
             "--use-full-bipartite": true,
-            "--polarization-transformation": "log1p",
-            "--polarization-n-permutations": 50,
-            "--polarization-min-marker-count": 5,
-            "--colocalization-transformation": "rate-diff",
+            "--polarization-normalization": "clr",
+            "--polarization-n-permutations": 0,
+            "--colocalization-transformation": "log1p",
             "--colocalization-neighbourhood-size": 1,
             "--colocalization-n-permutations": 10,
             "--colocalization-min-region-count": 0,
-            "--colocalization-min-marker-count": 5,
             "--output": "."
         }
     }
-}
+}
diff --git a/tests/report/assets/reports_only/annotate/pbmcs_unstimulated.report.json b/tests/report/assets/reports_only/annotate/pbmcs_unstimulated.report.json
@@ -1,6 +1,6 @@
 {
     "sample_id": "pbmcs_unstimulated",
-    "components_modularity": 0.9996688156200267,
+    "components_modularity": 0.999668815620027,
     "fraction_molecules_in_largest_component": 0.0006480881399870382,
     "fraction_pixels_in_largest_component": 0.0004888381945576015,
     "input_cell_count": 3052,
@@ -25,7 +25,7 @@
     },
     "read_count_per_cell_stats": {
         "mean": 2.043577981651376,
-        "std": 0.2592989644447358,
+        "std": 0.2592989644447359,
         "min": 2.0,
         "q1": 2.0,
         "q2": 2.0,
@@ -47,7 +47,7 @@
     },
     "b_pixel_count_per_cell_stats": {
         "mean": 1.0026212319790302,
-        "std": 0.05113082359929529,
+        "std": 0.05113082359929531,
         "min": 1.0,
         "q1": 1.0,
         "q2": 1.0,
@@ -69,7 +69,7 @@
     },
     "a_pixel_b_pixel_ratio_per_cell_stats": {
         "mean": 1.0068807339449541,
-        "std": 0.09380465569259072,
+        "std": 0.09380465569259074,
         "min": 0.5,
         "q1": 1.0,
         "q2": 1.0,
@@ -90,8 +90,8 @@
         "iqr": 0.0
     },
     "a_pixel_count_per_b_pixel_per_cell_stats": {
-        "mean": 1.0081913499344692,
-        "std": 0.0901346310843966,
+        "mean": 1.0026212319790302,
+        "std": 0.05113082359929531,
         "min": 1.0,
         "q1": 1.0,
         "q2": 1.0,
@@ -102,7 +102,7 @@
     },
     "b_pixel_count_per_a_pixel_per_cell_stats": {
         "mean": 1.0026212319790302,
-        "std": 0.05113082359929529,
+        "std": 0.05113082359929531,
         "min": 1.0,
         "q1": 1.0,
         "q2": 1.0,
@@ -120,8 +120,7 @@
     "size_filter_fail_cell_count": 0,
     "size_filter_fail_molecule_count": 0,
     "size_filter_fail_read_count": 0,
-    "pixel_count": 6137,
-    "fraction_aggregate_components": 1.0,
+    "pixel_count": 6137.0,
     "fraction_reads_in_aggregates": 1.0,
     "fraction_molecules_in_aggregates": 1.0
-}
+}
diff --git a/tests/report/assets/reports_only/annotate/uropod_control.report.json b/tests/report/assets/reports_only/annotate/uropod_control.report.json
@@ -25,7 +25,7 @@
     },
     "read_count_per_cell_stats": {
         "mean": 2.0481958112541006,
-        "std": 0.29709443314885775,
+        "std": 0.2970944331488577,
         "min": 2.0,
         "q1": 2.0,
         "q2": 2.0,
@@ -47,7 +47,7 @@
     },
     "b_pixel_count_per_cell_stats": {
         "mean": 1.0047943477163765,
-        "std": 0.06907504575713981,
+        "std": 0.06907504575713982,
         "min": 1.0,
         "q1": 1.0,
         "q2": 1.0,
@@ -90,13 +90,13 @@
         "iqr": 0.0
     },
     "a_pixel_count_per_b_pixel_per_cell_stats": {
-        "mean": 1.0082008579359072,
-        "std": 0.09260231381077645,
+        "mean": 1.0046681806712088,
+        "std": 0.0677001125393875,
         "min": 1.0,
         "q1": 1.0,
         "q2": 1.0,
         "q3": 1.0,
-        "max": 3.0,
+        "max": 2.0,
         "count": 3963,
         "iqr": 0.0
     },
@@ -120,8 +120,7 @@
     "size_filter_fail_cell_count": 0,
     "size_filter_fail_molecule_count": 0,
     "size_filter_fail_read_count": 0,
-    "pixel_count": 7978,
-    "fraction_aggregate_components": 1.0,
+    "pixel_count": 7978.0,
     "fraction_reads_in_aggregates": 1.0,
     "fraction_molecules_in_aggregates": 1.0
-}
+}