Differences

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--- circos-software [2020/09/18 10:00] – aorth
+++ circos-software [2022/11/28 08:10] (current) – aorth
@@ Line 6: / Line 6: @@
   * Version: 0.69-9
   * Added: July, 2014
-  * Updated: September, 2020
+  * Updated: November, 2022
   * Link: http://circos.ca/
 ===== Usage =====
-See versions of circos which are available:
+See versions which are available:
 <code>$ module avail circos</code>
@@ Line 26: / Line 26: @@
 $ cd circos-0.69-9</code>
-Circos needs some Perl modules, check which we satisfy already with our Perl 5.28.2 package:
+Circos needs some Perl modules, check which we satisfy already with our system Perl:
-<code>$ module load perl/5.28.2
+<code>$ ./bin/circos -modules</code>
-$ cd bin
-$ ./circos -modules</code>
-Create directory for Perl modules and install missing modules with cpanm:
+Create a directory for custom Perl modules and install missing modules with cpanm:
-<code>
+<code>$ sudo mkdir -p /export/apps/circos/0.69-9/lib/perl5
-$ 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/ Clone Config::General Font::TTF::Font
+$ cpanm -l /export/apps/circos/0.69-9 Math::Bezier Math::VecStat SVG Set::IntSpan</code>
-$ sudo yum install gd-devel
-$ cpanm -l /export/apps/circos/0.69-9/ GD GD::Polyline
-$ sudo yum remove gd-devel
-$ cpanm -l /export/apps/circos/0.69-9/ List::MoreUtils Math::Bezier Math::Round Math::VecStat
-$ cpanm -l /export/apps/circos/0.69-9/ Params::Validate Readonly Regexp::Common SVG Set::IntSpanStatistics::Basic Text::Format
-</code>
-I don't install all the missing modules at once because sometimes they have errors and it's easier to track them down when you do less in one go.
 Test again:
-<code>$ PERL5LIB=$PERL5LIB:/export/apps/circos/0.69-9/lib/perl5 ./circos -modules</code>
+<code>$ 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/src/circos-0.69-9
+<code>$ cd /tmp/circos-0.69-9
 $ cp -r * /export/apps/circos/0.69-9</code>