updated copyrights

andrewprzh · andrewprzh · commit 96ab12c4a1f7 · 2025-10-22T15:10:13.000+03:00
diff --git a/isoquant.py b/isoquant.py
@@ -1,7 +1,7 @@
 #!/usr/bin/env python3
 #
 # ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2019-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/10x_profiles.py b/src/10x_profiles.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/__init__.py b/src/__init__.py
@@ -1,6 +1,6 @@
 
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/alignment_info.py b/src/alignment_info.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/alignment_processor.py b/src/alignment_processor.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2024 University of Helsinki
+# Copyright (c) 2024-2025 University of Helsinki
 # # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/assignment_io.py b/src/assignment_io.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/cage_finder.py b/src/cage_finder.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/common.py b/src/common.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/correction_stats.py b/src/correction_stats.py
@@ -1,6 +1,6 @@
 
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/dataset_processor.py b/src/dataset_processor.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2019-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/exon_corrector.py b/src/exon_corrector.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/file_utils.py b/src/file_utils.py
@@ -1,6 +1,6 @@
 
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/gene_info.py b/src/gene_info.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/gene_model.py b/src/gene_model.py
@@ -1,3 +1,10 @@
+
+############################################################################
+# Copyright (c) 2022-2025 University of Helsinki
+# All Rights Reserved
+# See file LICENSE for details.
+############################################################################
+
 import json
 import os
 import pandas as pd
diff --git a/src/graph_based_model_construction.py b/src/graph_based_model_construction.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/gtf2db.py b/src/gtf2db.py
@@ -1,7 +1,7 @@
 #!/usr/bin/env python3
 #
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2019-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/id_policy.py b/src/id_policy.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2024 University of Helsinki
+# Copyright (c) 2024-2025 University of Helsinki
 # # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/illumina_exon_corrector.py b/src/illumina_exon_corrector.py
@@ -1,6 +1,6 @@
 
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/input_data_storage.py b/src/input_data_storage.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2019-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/intron_graph.py b/src/intron_graph.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2021-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/isoform_assignment.py b/src/isoform_assignment.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/junction_comparator.py b/src/junction_comparator.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/long_read_assigner.py b/src/long_read_assigner.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/long_read_counter.py b/src/long_read_counter.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/long_read_profiles.py b/src/long_read_profiles.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/multimap_resolver.py b/src/multimap_resolver.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/plot_output.py b/src/plot_output.py
@@ -1,3 +1,10 @@
+
+############################################################################
+# Copyright (c) 2022-2025 University of Helsinki
+# All Rights Reserved
+# See file LICENSE for details.
+############################################################################
+
 import os
 import matplotlib.pyplot as plt
 import matplotlib.ticker as ticker
diff --git a/src/polya_finder.py b/src/polya_finder.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/polya_verification.py b/src/polya_verification.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/post_process.py b/src/post_process.py
@@ -1,3 +1,10 @@
+
+############################################################################
+# Copyright (c) 2022-2025 University of Helsinki
+# All Rights Reserved
+# See file LICENSE for details.
+############################################################################
+
 import csv
 import os
 import pickle
diff --git a/src/process_dict.py b/src/process_dict.py
@@ -1,3 +1,10 @@
+
+############################################################################
+# Copyright (c) 2022-2025 University of Helsinki
+# All Rights Reserved
+# See file LICENSE for details.
+############################################################################
+
 import json
 import sys
 import os
diff --git a/src/processed_read_manager.py b/src/processed_read_manager.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2019-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/read_assignment_loader.py b/src/read_assignment_loader.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2019-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/read_groups.py b/src/read_groups.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/read_mapper.py b/src/read_mapper.py
@@ -1,7 +1,7 @@
 #!/usr/bin/env python3
 #
 # ############################################################################
-# Copyright (c) 2023-2024 University of Helsinki
+# Copyright (c) 2023-2025 University of Helsinki
 # # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/serialization.py b/src/serialization.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/short_reads.py b/src/short_reads.py
@@ -1,6 +1,6 @@
 
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/short_utils.py b/src/short_utils.py
@@ -1,6 +1,6 @@
 
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # All Rights Reserved
 # See file LICENSE for details.
 ############################################################################
diff --git a/src/stats.py b/src/stats.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/src/transcript_printer.py b/src/transcript_printer.py
@@ -1,5 +1,5 @@
 ############################################################################
-# Copyright (c) 2022-2024 University of Helsinki
+# Copyright (c) 2022-2025 University of Helsinki
 # Copyright (c) 2020-2022 Saint Petersburg State University
 # # All Rights Reserved
 # See file LICENSE for details.
diff --git a/visualize.py b/visualize.py
@@ -1,3 +1,10 @@
+
+############################################################################
+# Copyright (c) 2024-2025 University of Helsinki
+# All Rights Reserved
+# See file LICENSE for details.
+############################################################################
+
 #!/usr/bin/env python3
 
 from src.post_process import OutputConfig, DictionaryBuilder

Original file line number	Diff line number	Diff line change
`@@ -1,7 +1,7 @@`
`1`	`1`	`#!/usr/bin/env python3`
`2`	`2`	`#`
`3`	`3`	`# ############################################################################`
`4`		`-# Copyright (c) 2022-2024 University of Helsinki`
	`4`	`+# Copyright (c) 2022-2025 University of Helsinki`
`5`	`5`	`# Copyright (c) 2019-2022 Saint Petersburg State University`
`6`	`6`	`# # All Rights Reserved`
`7`	`7`	`# See file LICENSE for details.`