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CSB5 / lofreq

LoFreq Star: Sensitive variant calling from sequencing data
http://csb5.github.io/lofreq/
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lofreq_star-2.1.5_linux-x86-64 : ./lofreq: error while loading shared libraries: libhts.so.3 #111

Closed HagenC closed 3 years ago

HagenC commented 3 years ago

According to your blog the installation is simple:

"Installation from Binary Packages Download the binary LoFreq distribution matching your system (e.g. Linux or MacOSX) from the dist folder on Github and unpack it. LoFreq can then simply be called with ./lofreq_star-2.1.0/bin/lofreq (assuming you downloaded version 2.1.0). You can move the folder anywhere you like (just preserve its structure) or copy its contents to a system-wide installation path, e.g. /usr/local

cp -rv ./lofreq_star-2.1.0/* /usr/local/"

However running ./lofreq from gives the following error message: ./lofreq: error while loading shared libraries: libhts.so.3: cannot open shared object file: No such file or directory.

What does that mean and how can I solve it? Thanks.

andreas-wilm commented 3 years ago

Hi there,

I think I forgot to hardlink the release binary against libhts. You will either need to install libhts separately or even easier: install LoFreq via Bioconda (or Brew of you are on a Mac).

Best, Andreas

On Mon, 8 Mar 2021, 04:32 HagenC, notifications@github.com wrote:

According to your blog the installation is simple:

"Installation from Binary Packages Download the binary LoFreq distribution matching your system (e.g. Linux or MacOSX) from the dist folder on Github and unpack it. LoFreq can then simply be called with ./lofreq_star-2.1.0/bin/lofreq (assuming you downloaded version 2.1.0). You can move the folder anywhere you like (just preserve its structure) or copy its contents to a system-wide installation path, e.g. /usr/local

cp -rv ./lofreq_star-2.1.0/* /usr/local/"

However running ./lofreq from gives the following error message: ./lofreq: error while loading shared libraries: libhts.so.3: cannot open shared object file: No such file or directory.

What does that mean and how can I solve it? Thanks.

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HagenC commented 3 years ago

Thanks for the fast reply. Installed using Bioconda.

siyangxia commented 1 year ago

Hi I am wondering if there is any updates regarding this error? I am installing lofreq v2.1.5 on Docker and encountered the same error. I confirmed the htslib location and libhts.so.3 is soft linked to libhts.so.1.15.1. Unfortunately due to environment conflict I cannot install it through bioconda, so I am wondering if you could give me some suggestions on how to fix this error. Thank you!