CONFIGURATION FILE ERROR

[niveadita razdan]

I am new to Circos and am trying to run the provided examples but am getting the following error

 CONFIGURATION FILE ERROR

  Error parsing the configuration file. You used an <<include FILE>> directive,
  but the FILE could not be found. This FILE is interpreted relative to the
  configuration file in which the <<include>> directive is used. Circos lookd
  for the file in these directories

 Stack trace:
 at /usr/share/perl5/Circos/Error.pm line 354.
    Circos::Error::fatal_error('configuration', 'cannot_find_include', '/home/nivedita/Circos/circos/sessions/2/1/etc\x{a}/etc/circos\x{a}/ho...', 'Config::General The file "etc/colors.conf" does not exist wit...') called at /usr/share/perl5/Circos/Configuration.pm line 719
    Circos::Configuration::loadconfiguration('/home/nivedita/Circos/circos/sessions/2/1/etc/circos.conf') called at /usr/share/perl5/Circos.pm line 197
    Circos::run('Circos') called at /usr/bin/circos line 300

The command I am using is

 circos etc/circos.conf

I am working with Linux

I would really acknowledge your help.

[YING SU]

Please tell me why there is such a problem and how to resolve！thanks！

[Martin Krzywinski]

The configuration file is specified using the -conf flag.

circos -conf etc/circos.conf

However, Circos will automatically look in a few places for the config file, such as

etc/circos.conf

../etc/circos.conf

If your file is there, you don't need to specify it at the command line.

Martin Krzywinski

science + art

http://mkweb.bcgsc.ca

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