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--- htslib-software [2016/03/24 15:13] – [Information] joguya
+++ htslib-software [2025/03/03 07:02] (current) – aorth
@@ Line 4: / Line 4: @@
 ===== Information =====
-  * Latest Version: 1.3
+  * Latest Version: 1.17
   * Added: March, 2015
-  * Updated: March, 2016
+  * Updated: March, 2025
   * Link: https://github.com/samtools/htslib
 ===== Usage =====
-=== See versions of htslib which are available ===
+See versions which are available:
 <code>$ module avail htslib</code>
-=== Load and run htslib ===
+Load one version into your environment and run it:
-<code>$ module load htslib </code>
+<code>$ module load htslib/1.17
+$ tabix
+$ bgzip</code>
 ===== Installation ======
 Notes from the sysadmin during installation:
-<code>cd /tmp
+<code>$ cd /tmp
-wget https://github.com/samtools/htslib/archive/1.2.1.tar.gz
+$ wget https://github.com/samtools/htslib/releases/download/1.17/htslib-1.17.tar.bz2
-tar -xvf 1.2.1.tar.gz
+$ tar xf htslib-1.17.tar.bz2
-cd htslib-1.2.1/
+$ cd htslib-1.17
-scl enable devtoolset-2 bash
+$ ./configure --enable-plugins --enable-libcurl --prefix=/export/apps/htslib/1.17
-sudo mkdir -p /export/apps/htslib/1.2.1
+$ make
-sudo chown joguya:joguya /export/apps/htslib/1.2.1
+$ sudo mkdir -p /export/apps/htslib/1.17
-autoreconf
+$ sudo chown aorth /export/apps/htslib/1.17
-./configure CC=clang --prefix=/export/apps/htslib/1.2.1
+$ make install
-make
+$ sudo chown -R root:root /export/apps/htslib/1.17</code>
-make install
-sudo chown root:root /export/apps/htslib/1.2.1
+Note: as of 1.17 this is compiled on CentOS Stream 8.
-</code>