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Release 1.19
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daviesrob committed Dec 12, 2023
2 parents 554bb90 + d3e2c29 commit d4f9b74
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406 changes: 239 additions & 167 deletions NEWS → NEWS.md

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10 changes: 5 additions & 5 deletions README
Expand Up @@ -9,7 +9,7 @@ Building samtools
The typical simple case of building Samtools using the HTSlib bundled within
this Samtools release tarball is done as follows:

cd .../samtools-1.18 # Within the unpacked release directory
cd .../samtools-1.19 # Within the unpacked release directory
./configure
make

Expand All @@ -21,7 +21,7 @@ install samtools etc properly into a directory of your choosing. Building for
installation using the HTSlib bundled within this Samtools release tarball,
and building the various HTSlib utilities such as bgzip is done as follows:

cd .../samtools-1.18 # Within the unpacked release directory
cd .../samtools-1.19 # Within the unpacked release directory
./configure --prefix=/path/to/location
make all all-htslib
make install install-htslib
Expand All @@ -48,7 +48,7 @@ There are two advantages to this:
To build with plug-ins, you need to use the --enable-plugins configure option
as follows:

cd .../samtools-1.18 # Within the unpacked release directory
cd .../samtools-1.19 # Within the unpacked release directory
./configure --enable-plugins --prefix=/path/to/location
make all all-htslib
make install install-htslib
Expand All @@ -66,8 +66,8 @@ Setting --with-plugin-path is useful if you want to run directly from
the source distribution instead of installing the package. In that case
you can use:

cd .../samtools-1.18 # Within the unpacked release directory
./configure --enable-plugins --with-plugin-path=$PWD/htslib-1.18
cd .../samtools-1.19 # Within the unpacked release directory
./configure --enable-plugins --with-plugin-path=$PWD/htslib-1.19
make all all-htslib

It is possible to override the built-in search path using the HTS_PATH
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