Question: How to install samtools v.1.2 on Ubuntu 14.0 32 bit?
gravatar for lakhujanivijay
3.7 years ago by
lakhujanivijay4.5k wrote:


Can anybody please tell me how to install samtools v.1.2  on Ubuntu 14.0 32 bit?

I am very new to Linux environment and NGS tools.  I have tried the following but the version is not what I want.


sudo apt-get install samtools


Please help me with the appropriate link to download samtools and the commands to install it.


Many thanks

samtools installation • 8.2k views
ADD COMMENTlink modified 3.7 years ago by Pierre Lindenbaum123k • written 3.7 years ago by lakhujanivijay4.5k

If you are new to the field and you find it a hassle to install everything you need for your work you can use which is a version of ubuntu with a lot of bioinformatics packages added to. However it's always better to learn how to install packages yourself. 

ADD REPLYlink modified 3.7 years ago • written 3.7 years ago by Parham1.4k

Hi Parham,

thanks for the answer, however, for now I need to stick with this version.

Can you help with my initial question?


ADD REPLYlink written 3.7 years ago by lakhujanivijay4.5k

This should help you install the package:

You need to download the package first and follow the above guideline. 

ADD REPLYlink written 3.7 years ago by Parham1.4k

Coming back to my question after ~3 years with this answer

1. Install conda

Go to this link and download the appropriate miniconda installler. The file should look something like this

2. Follow installation steps

Follow the steps mentioned at this link to install conda

3. Activate conda

conda activate

4. Install samtools using conda

conda install -c bioconda samtools

ADD REPLYlink modified 7 months ago • written 7 months ago by lakhujanivijay4.5k
gravatar for Pierre Lindenbaum
3.7 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum123k wrote:
wget  ""  && tar xfj samtools-1.2.tar.bz2  && (cd samtools-1.2 && make)


then put samtools in your path:

export PATH=/full/path/to/samtools-1.2:${PATH}



ADD COMMENTlink written 3.7 years ago by Pierre Lindenbaum123k

or even shorter

wget -O - | tar xj ; ( cd samtools-1.2 ; make )
ADD REPLYlink written 3.7 years ago by piet1.7k
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