From c271318521756f748879c518e8c34e82a2017f54 Mon Sep 17 00:00:00 2001 From: Milton Pividori Date: Thu, 4 Jan 2024 08:56:44 -0700 Subject: [PATCH] setup_data.py: fix URLs to GTEx --- environment/scripts/setup_data.py | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/environment/scripts/setup_data.py b/environment/scripts/setup_data.py index bc173cda..825a2f30 100644 --- a/environment/scripts/setup_data.py +++ b/environment/scripts/setup_data.py @@ -70,7 +70,7 @@ def get_file_from_zip( def download_gtex_v8_sample_attributes(**kwargs): output_file = conf.GTEX["SAMPLE_ATTRS_FILE"] curl( - "https://storage.googleapis.com/gtex_analysis_v8/annotations/GTEx_Analysis_v8_Annotations_SampleAttributesDS.txt", + "https://storage.googleapis.com/adult-gtex/annotations/v8/metadata-files/GTEx_Analysis_v8_Annotations_SampleAttributesDS.txt", output_file, "3a863b00db00a0a08a5c7900d44ea119", logger=logger, @@ -80,7 +80,7 @@ def download_gtex_v8_sample_attributes(**kwargs): def download_gtex_v8_subjects_phenotypes(**kwargs): output_file = conf.GTEX["SUBJECTS_ATTRS_FILE"] curl( - "https://storage.googleapis.com/gtex_analysis_v8/annotations/GTEx_Analysis_v8_Annotations_SubjectPhenotypesDS.txt", + "https://storage.googleapis.com/adult-gtex/annotations/v8/metadata-files/GTEx_Analysis_v8_Annotations_SubjectPhenotypesDS.txt", output_file, "90297fc31512902f4459c757180fe575", logger=logger, @@ -90,7 +90,7 @@ def download_gtex_v8_subjects_phenotypes(**kwargs): def download_gtex_v8_data(**kwargs): output_file = conf.GTEX["DATA_TPM_GCT_FILE"] curl( - "https://storage.googleapis.com/gtex_analysis_v8/rna_seq_data/GTEx_Analysis_2017-06-05_v8_RNASeQCv1.1.9_gene_tpm.gct.gz", + "https://storage.googleapis.com/adult-gtex/bulk-gex/v8/rna-seq/GTEx_Analysis_2017-06-05_v8_RNASeQCv1.1.9_gene_tpm.gct.gz", output_file, "ff6aade0ef5b55e38af9fef98bad760b", logger=logger,