simplest way to install circos on Linux

[Jim Guo]

I had some real headache trying to install circos on Linux. Following the instruction on the Circos website did not work (it was meant for Mac OS). After some google research, I found the simplest way to install circos on Linux.

wget http://circos.ca/distribution/circos-0.69-3.tgz

tar xvfz circos-0.69-3.tgz

#add circos executable directory to default searching path. 

ln -s circos-0.69-3 current

export PATH=~/current/bin:$PATH

. ~/.bashrc

# This is the magic step which allows the correct installation of libgd which is essentail for the sucessful installation of perl GD in next step.

sudo apt-get -y install libgd2-xpm-dev

#It seemed that there might be variation of perl modules pre-loaded depending on platforms. So the following list of modules might not include all the dependence for circos on your system. But once you installed the GD library, the rest are easy.

sudo cpanm Clone Config::General Font::TTF::Font GD GD::Polyline Math::Bezier Math::Round Math::VecStat Params::Validate Readonly Regexp::Common SVG Set::IntSpan Statistics::Basic Text::Format

circos -modules

[Martin Krzywinski]

Thanks for posting this.

Martin Krzywinski

science + art

http://mkweb.bcgsc.ca

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[Sunil Gangurde]

I have installed the circos using sudo apt command .. I think it's easier to install perl modules and others accessories. 

On Wednesday, October 26, 2016 at 5:40:49 AM UTC+5:30, Martin wrote:

Thanks for posting this.

Martin Krzywinski

science + art

http://mkweb.bcgsc.ca

On Wed, Oct 19, 2016 at 6:45 PM, Jim Guo <jimg...@gmail.com> wrote:

I had some real headache trying to install circos on Linux. Following the instruction on the Circos website did not work (it was meant for Mac OS). After some google research, I found the simplest way to install circos on Linux.

wget http://circos.ca/distribution/circos-0.69-3.tgz

tar xvfz circos-0.69-3.tgz

#add circos executable directory to default searching path. 

ln -s circos-0.69-3 current

export PATH=~/current/bin:$PATH

. ~/.bashrc

# This is the magic step which allows the correct installation of libgd which is essentail for the sucessful installation of perl GD in next step.

sudo apt-get -y install libgd2-xpm-dev

#It seemed that there might be variation of perl modules pre-loaded depending on platforms. So the following list of modules might not include all the dependence for circos on your system. But once you installed the GD library, the rest are easy.

sudo cpanm Clone Config::General Font::TTF::Font GD GD::Polyline Math::Bezier Math::Round Math::VecStat Params::Validate Readonly Regexp::Common SVG Set::IntSpan Statistics::Basic Text::Format

circos -modules

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[Martin Krzywinski]

Thanks for this. I've added your recipe to

http://www.circos.ca/documentation/tutorials/configuration/installation/

and

http://www.circos.ca/documentation/tutorials/configuration/perl_and_modules/

Martin Krzywinski

science + art

http://mkweb.bcgsc.ca

On Sun, Apr 16, 2017 at 3:29 AM, Sunil Gangurde <sgang...@gmail.com> wrote:

I have installed the circos using sudo apt command .. I think it's easier to install perl modules and others accessories. 

On Wednesday, October 26, 2016 at 5:40:49 AM UTC+5:30, Martin wrote:

Thanks for posting this.

Martin Krzywinski

science + art

http://mkweb.bcgsc.ca

On Wed, Oct 19, 2016 at 6:45 PM, Jim Guo <jimg...@gmail.com> wrote:

I had some real headache trying to install circos on Linux. Following the instruction on the Circos website did not work (it was meant for Mac OS). After some google research, I found the simplest way to install circos on Linux.

wget http://circos.ca/distribution/circos-0.69-3.tgz

tar xvfz circos-0.69-3.tgz

#add circos executable directory to default searching path. 

ln -s circos-0.69-3 current

export PATH=~/current/bin:$PATH

. ~/.bashrc

# This is the magic step which allows the correct installation of libgd which is essentail for the sucessful installation of perl GD in next step.

sudo apt-get -y install libgd2-xpm-dev

#It seemed that there might be variation of perl modules pre-loaded depending on platforms. So the following list of modules might not include all the dependence for circos on your system. But once you installed the GD library, the rest are easy.

sudo cpanm Clone Config::General Font::TTF::Font GD GD::Polyline Math::Bezier Math::Round Math::VecStat Params::Validate Readonly Regexp::Common SVG Set::IntSpan Statistics::Basic Text::Format

circos -modules

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[yjjjn...@gmail.com]

hi , I've got some wired peoblems. I set up circos well in linux server, but when I run ./bin/circos -conf ./etc/circos.conf .The result is only SVG no PNG output. What can I fix the problem. thanks for advance.

在 2016年10月20日星期四 UTC+8上午9:45:53，Jim Guo写道：