ERROR PARSING YOUR TABLE FILE
 
problem: Row order value (data) is not numeric.
 
Died at /home/martink/work/circos/svn/tools/tableviewer/bin/parse-table line 1752, <FILE> line 14.

debuggroup summary 0.22s welcome to circos v0.68-pre1 7 Apr 2015 on Perl 5.032001
debuggroup summary 0.23s current working directory /var/tmp/tableviewer/myzefnusamp
debuggroup summary 0.23s command CIRCOS_DIR/bin/circos -param random_string=myzefnusamp -conf WORKING_DIR/myzefnusamp/etc/circos.conf
debuggroup summary 0.23s guessing configuration file
debuggroup summary 0.23s found conf file /var/tmp/tableviewer/myzefnusamp/etc/circos.conf

  *** CIRCOS ERROR ***

      cwd: /var/tmp/tableviewer/myzefnusamp

      command: CIRCOS_DIR/bin/circos
      -param random_string=myzefnusamp -conf
      WORKING_DIR/myzefnusamp/etc/circos.conf

  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

  /var/tmp/tableviewer/myzefnusamp/etc

  /var/tmp/tableviewer/myzefnusamp/etc

  /var/tmp/tableviewer/myzefnusamp/etc/etc

  CIRCOS_ROOT/circos-0.68-pre1/bin/etc

  CIRCOS_ROOT/circos-0.68-pre1/bin/../etc

  CIRCOS_ROOT/circos-0.68-pre1/bin/..

  CIRCOS_ROOT/circos-0.68-pre1/bin

  The Config::General module reported the error

  Config::General The file "data/colors.conf" does not exist within ConfigPath:
  /var/tmp/tableviewer/myzefnusamp/etc./var/tmp/tableviewer/myzefnusamp/etc./var/tmp/tableviewer/myzefnusamp/etc/etc.CIRCOS_ROOT/circos-0.68-pre1/bin/etc.CIRCOS_ROOT/circos-0.68-pre1/bin/../etc.CIRCOS_ROOT/circos-0.68-pre1/bin/...CIRCOS_ROOT/circos-0.68-pre1/bin!
  at
  CIRCOS_ROOT/circos-0.68-pre1/bin/../lib/Circos/Configuration.pm
  line 819.

  If you are having trouble debugging this error, first read the best practices
  tutorial for helpful tips that address many common problems

      http://www.circos.ca/documentation/tutorials/reference/best_practices

  The debugging facility is helpful to figure out what's happening under the
  hood

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

  If you're still stumped, get support in the Circos Google Group. Please
  include this error and all your configuration and data files.

      http://groups.google.com/group/circos-data-visualization

  Stack trace:

Hints

If your data file contains order, size and/or color information for rows and/or columns please check off the appropriate options in the upload form. If you forget to check off the options, you'll probably get an error about duplicate column names. If you have set these options, make sure that your data file has the required information.

If the error refers to -ribbon_variable, then you have ratio layout on (see data samples section to read about data format requirements.

Before uploading a data file, check the samples gallery to make sure that your data format is compatible.

• File must be plain text.
• Data values must be non-negative integers. If all are <1, multiply them by a fixed factor.
• Data must be space-separated (one or more tab or space, which will be collapsed).
• No two rows or columns may have the same name.
• Column and row names must begin with a letter (e.g. 'A', 'A0', 'A-0') and can only contain letters, numbers and _. No punctuation! No double underscores.
• Maximum number of rows × columns is 30 × 30. To visualize larger tables email me (name, institution, use case) and I'll provide you with an access code to remove this restriction. Alternatively, you can install Circos and run the tableviewer scripts without limitations.
• If you are using order, size and color rows/columns in combination they must appear in that order.

If you do not adhere to these rules, expect errors.

Need help? Post questions to the Circos Google Group.

You can try again or write to me (attach your file and the error report).