ILRI Research Computing

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====== Circos ======
Circos is a software package for visualizing data and information a circular layout.

===== Information =====

  * Version: 0.69-9
  * Added: July, 2014
  * Updated: November, 2022
  * Link: http://circos.ca/

===== Usage =====

See versions which are available:
<code>$ module avail circos</code>

Load one version into your environment and run it:
<code>$ module load circos/0.69-9
$ circos</code>

===== Installation ======
Notes from the sysadmin during installation:

<code>$ cd /tmp
$ wget http://circos.ca/distribution/circos-0.69-9.tgz
$ tar zxf circos-0.69-9.tgz
$ cd circos-0.69-9</code>

Circos needs some Perl modules, check which we satisfy already with our system Perl:

<code>$ ./bin/circos -modules</code>

Create a directory for custom Perl modules and install missing modules with cpanm:

<code>$ sudo mkdir -p /export/apps/circos/0.69-9/lib/perl5
$ sudo chown -R aorth /export/apps/circos/0.69-9
$ cpanm -l /export/apps/circos/0.69-9 Math::Bezier Math::VecStat SVG Set::IntSpan</code>

Test again:

<code>$ PERL5LIB=$PERL5LIB:/export/apps/circos/0.69-9/lib/perl5 ./bin/circos -modules</code>

When all module requirements are satisfied continue the installation:

<code>$ cd /tmp/circos-0.69-9
$ cp -r * /export/apps/circos/0.69-9</code>

Add install directory to PATH and PERL5LIB and try to run it:

<code>$ export PATH=$PATH:/export/apps/circos/0.69-9/bin
$ export PERL5LIB=$PERL5LIB:/export/apps/circos/0.69-9/lib/perl5
$ circos -modules</code>

Fix permissions:

<code>$ sudo chown -R root:root /export/apps/circos/0.69-9</code>