Entering edit mode
6.5 years ago
maxwells_daemon
▴
10
Howdy, I am running my Circos .conf file on MacOS, and this is the output I am receiving. Can anyone help me out with understanding why I am having issues with my Circos conf file specifically with regards to the housekeeping.conf file? I also am not sure where the parent block has been defined. Please feel free not to answer this question as I will look at the conf file again.
...
*** CIRCOS ERROR ***
CONFIGURATION FILE ERROR
Configuration parameter [debug] in parent block [_root] has been defined more
than once in the block shown above, and has been interpreted as a list. This
is not allowed. Did you forget to comment out an old value of the parameter?
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
http://groups.google.com/group/circos-data-visualization
Stack trace:
at /usr/local/Cellar/circos/0.67-7/libexec/bin/../lib/Circos/Error.pm line 418.
Circos::Error::fatal_error('configuration', 'multivalue', 'debug', '_root') called at /usr/local/Cellar/circos/0.67-7/libexec/bin/../lib/Circos/Configuration.pm line 441
Circos::Configuration::check_multivalues('HASH(0x7fa0a2dd6c78)', undef) called at /usr/local/Cellar/circos/0.67-7/libexec/bin/../lib/Circos/Configuration.pm line 294
Circos::Configuration::populateconfiguration('debug_group', 'output,summary') called at /usr/local/Cellar/circos/0.67-7/libexec/bin/../lib/Circos.pm line 146
Circos::run('Circos') called at /usr/local/Cellar/circos/0.67-7/libexec/bin/circos line 382
Hello maxwells_daemon,
please use the code button (the one wit 101 010) to format your output. This makes it much more readable.
The problem is stated out in the error message:
Have you checked this? For more debugging you should post your config file as well.
fin swimmer
As already suggested by finswimmer I added code markup to your post for increased readability. You can do this by selecting the text and clicking the 101010 button. When you compose or edit a post that button is in your toolbar, see image below: