From 222d10b4e7be763453e2a0a1886cbec99e15e886 Mon Sep 17 00:00:00 2001 From: Chris Norman Date: Mon, 4 Mar 2024 19:05:20 -0500 Subject: [PATCH] Upgrade to samtools 1.19.1 for interop testing. (#1706) * Upgrade to samtools 1.19.1 for interop testing. --- scripts/install-samtools.sh | 6 +++--- src/test/java/htsjdk/utils/SamtoolsTestUtils.java | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-) diff --git a/scripts/install-samtools.sh b/scripts/install-samtools.sh index 84feb30700..ff80c00817 100755 --- a/scripts/install-samtools.sh +++ b/scripts/install-samtools.sh @@ -1,5 +1,5 @@ #!/bin/sh set -ex -wget https://github.com/samtools/samtools/releases/download/1.14/samtools-1.14.tar.bz2 -tar -xjvf samtools-1.14.tar.bz2 -cd samtools-1.14 && ./configure --prefix=/usr && make && sudo make install +wget https://github.com/samtools/samtools/releases/download/1.19.1/samtools-1.19.1.tar.bz2 +tar -xjvf samtools-1.19.1.tar.bz2 +cd samtools-1.19.1 && ./configure --prefix=/usr && make && sudo make install diff --git a/src/test/java/htsjdk/utils/SamtoolsTestUtils.java b/src/test/java/htsjdk/utils/SamtoolsTestUtils.java index f70674d8cd..ee6036b40d 100644 --- a/src/test/java/htsjdk/utils/SamtoolsTestUtils.java +++ b/src/test/java/htsjdk/utils/SamtoolsTestUtils.java @@ -13,7 +13,7 @@ */ public class SamtoolsTestUtils { private static final String SAMTOOLS_BINARY_ENV_VARIABLE = "HTSJDK_SAMTOOLS_BIN"; - public final static String expectedSamtoolsVersion = "1.14"; + public final static String expectedSamtoolsVersion = "1.19.1"; /** * @return true if samtools is available, otherwise false