Freebayes installing problem

PandoraMid · 04-21-2016, 02:59 AM

Hi! I wish to use Freebayes to investigate on my aligned reads about any vcs, snps and similar, so i proceeded to install this program (on ubuntu) with the code

Code:

git clone --recursive git://github.com/ekg/freebayes.git
cd freebayes
make

but this is result

Code:

DETECTED_VERSION = v1.0.2-16-gd466dde
CURRENT_VERSION  = v1.0.2-16-gd466dde
cd ../bamtools && mkdir -p build && cd build && cmake .. && make
/bin/sh: 1: cmake: not found
Makefile:39: set for target instuction "../bamtools/lib/libbamtools.a" failed
make[1]: *** [../bamtools/lib/libbamtools.a] Error 127
make[1]: exit from directory "/home/martina/freebayes/src"
Makefile:2: set for target instuction "all" failed
make: *** [all] Error 2

Do you have any idea for resolve my problem?

Thank you

GenoMax · 04-21-2016, 04:16 AM

You need to install bamtools. Have you done that already?

PandoraMid · 04-21-2016, 04:58 AM

I've already installed bamtools!

GenoMax · 04-21-2016, 05:18 AM

The installer is not able to find the library from bamtools in this relative path (../bamtools/lib/libbamtools.a) from where ever you are running the installation for freebayes.

Richard Finney · 04-21-2016, 05:26 AM

First error is no cmake.

Install cmake first.

Example as root :
apt-get install cmake

GenoMax · 04-21-2016, 05:27 AM

Quote:

Originally Posted by Richard Finney

First error is no cmake.

Install cmake first.

Example as root :
apt-get install cmake

Yikes. Missed that.

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04-21-2016, 04:16 AM	#2
GenoMax Senior Member Location: East Coast USA Join Date: Feb 2008 Posts: 7,143	You need to install bamtools. Have you done that already?

04-21-2016, 04:58 AM	#3
PandoraMid Member Location: Italy Join Date: Nov 2015 Posts: 18	I've already installed bamtools!

04-21-2016, 05:18 AM	#4
GenoMax Senior Member Location: East Coast USA Join Date: Feb 2008 Posts: 7,143	The installer is not able to find the library from bamtools in this relative path (../bamtools/lib/libbamtools.a) from where ever you are running the installation for freebayes.

04-21-2016, 05:26 AM	#5
Richard Finney Senior Member Location: bethesda Join Date: Feb 2009 Posts: 700	First error is no cmake. Install cmake first. Example as root : apt-get install cmake