nf-core · keiran-rowell-unsw · Mar 31, 2026 · Mar 31, 2026 · Mar 31, 2026 · Mar 31, 2026
diff --git a/assets/NO_FILE → assets/DUMMY_MSA b/assets/NO_FILE → assets/DUMMY_MSA
diff --git a/assets/NO_FILE_PAE → assets/DUMMY_PAE b/assets/NO_FILE_PAE → assets/DUMMY_PAE
diff --git a/assets/comparison_template.html b/assets/comparison_template.html
diff --git a/assets/report_template.html b/assets/report_template.html
diff --git a/bin/extract_metrics.py b/bin/extract_metrics.py
@@ -25,11 +25,6 @@
 #...
 # ^ overwrought with duplication, but can catch program specific weirdness, and lower barrier to adding new programs in the future.
 
-# TODO: Chain-wise iPTM since the relevant interface might not always be the average of all.
-# Would complete Issue #308
-# Proposed format is pair-interfaces in rows, structure inference number in cols: https://github.com/nf-core/proteinfold/pull/312#issuecomment-2917709432
-# KR - changed to have both sides of the matrix, because it's not symmetrical (see comment in Issue #306)
-
 # Mapping of characters to integers for MSA parsing.
 # 20 is for unknown characters, and 21 is for gaps.
 AA_to_int = {

diff --git a/bin/generate_comparison_report.py b/bin/generate_comparison_report.py