From cd4410385d3a374760fc3a814cf8e69e9b44e50d Mon Sep 17 00:00:00 2001 From: Gregor Rot Date: Fri, 24 Oct 2025 14:40:52 +0200 Subject: [PATCH 1/2] update --- datasets/GSE126543/splicekit.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/datasets/GSE126543/splicekit.config b/datasets/GSE126543/splicekit.config index 6b0483b..b6ee243 100644 --- a/datasets/GSE126543/splicekit.config +++ b/datasets/GSE126543/splicekit.config @@ -23,7 +23,7 @@ bam_path = "bam" short_names = [] # scanRBP -scanRBP = True +scanRBP = False protein = "TARDBP.K562.00" protein_label = "tdp43" # used in file names and titles From 7f4a3fdc3d4509588acc918a56e0936ca0861056 Mon Sep 17 00:00:00 2001 From: Gregor Rot Date: Fri, 28 Nov 2025 10:40:54 +0100 Subject: [PATCH 2/2] update --- datasets/GSE126543/splicekit.config | 2 +- splicekit/core/features.py | 1 + 2 files changed, 2 insertions(+), 1 deletion(-) diff --git a/datasets/GSE126543/splicekit.config b/datasets/GSE126543/splicekit.config index c820913..d86ed3c 100644 --- a/datasets/GSE126543/splicekit.config +++ b/datasets/GSE126543/splicekit.config @@ -23,7 +23,7 @@ bam_path = "bam" short_names = [] # scanRBP -scanRBP = False +scanRBP = True protein = "TARDBP.K562.00" protein_label = "tdp43" # used in file names and titles diff --git a/splicekit/core/features.py b/splicekit/core/features.py index eccf660..023aa00 100755 --- a/splicekit/core/features.py +++ b/splicekit/core/features.py @@ -194,6 +194,7 @@ def read_exons(): count_all = len(annotation.samples) for sample_id in annotation.samples: f = gzip.open(f"data/sample_exons_data/sample_{sample_id}.tab.gz", "rt") + print(f"reading data/sample_exons_data/sample_{sample_id}.tab.gz") r = f.readline() # header r = f.readline() while r: