From 8b1ec0851d2456a8c3e9f2cd74fe6f76d27db279 Mon Sep 17 00:00:00 2001 From: Manuel Holtgrewe Date: Fri, 22 Jul 2022 12:01:30 +0200 Subject: [PATCH] Fixing unresolved issue with self-test (#51, #56) Related-Issue: #51 Related-Issue: #56 Closes: #56 Projected-Results-Impact: none --- CHANGES.md | 2 ++ .../bihealth/varfish_annotator/utils/DatabaseSelfTest.java | 2 +- 2 files changed, 3 insertions(+), 1 deletion(-) diff --git a/CHANGES.md b/CHANGES.md index 9bc3eed..564d9eb 100644 --- a/CHANGES.md +++ b/CHANGES.md @@ -2,6 +2,8 @@ ## v0.25-SNAPSHOT +- Fixing unresolved issue with self-test (#51, #56) + ## v0.24 - Fixing problem with self-test on gnomAD genomes with chrY (#51) diff --git a/varfish-annotator-cli/src/main/java/com/github/bihealth/varfish_annotator/utils/DatabaseSelfTest.java b/varfish-annotator-cli/src/main/java/com/github/bihealth/varfish_annotator/utils/DatabaseSelfTest.java index a0d7e33..6dd25be 100644 --- a/varfish-annotator-cli/src/main/java/com/github/bihealth/varfish_annotator/utils/DatabaseSelfTest.java +++ b/varfish-annotator-cli/src/main/java/com/github/bihealth/varfish_annotator/utils/DatabaseSelfTest.java @@ -55,7 +55,7 @@ private void selfTestDb( for (String chrom : chromNames) { final String chromName = chrPrefix + chrom; if ("grch37".equalsIgnoreCase(release) - && release.equals(AnnotateVcf.GNOMAD_GENOMES_PREFIX) + && tablePrefix.equals(AnnotateVcf.GNOMAD_GENOMES_PREFIX) && chromName.equals("Y")) { continue; // skip chrY for gnomAD genomes on GRCh37 }