gatk-3.8/public/java
Eric Banks ed50814ccb Finally found a case where user errors were being masked behind other errors and could debug. It turns out that the checkForMaskedUserErrors() method needs to run recursively over all levels (calling exception.getCause()) to check for the original cause. 2012-11-21 15:57:05 -05:00
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config Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
src Finally found a case where user errors were being masked behind other errors and could debug. It turns out that the checkForMaskedUserErrors() method needs to run recursively over all levels (calling exception.getCause()) to check for the original cause. 2012-11-21 15:57:05 -05:00
test The user can now set the maximum allowable cycle on the command-line with --maximum_cycle_value. This value is (now) enforced in the Cycle covariate and a User Error is thrown if the maximum value is passed (with a helpful error message). Added unit tests to cover this new functionality. 2012-11-20 22:41:57 -05:00