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Advanced.java
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Usability improvements to GATKDocs
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2011-08-18 21:39:11 -04:00 |
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Argument.java
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Optimize imports run on the whole project, public and private. I just got too tired of all of the unused imports floating around. Confirmed that the system builds after the changes.
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2011-07-17 20:29:58 -04:00 |
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ArgumentCollection.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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ArgumentDefinition.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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ArgumentDefinitionGroup.java
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Killing off some FindBugs 'Usability' issues
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2012-08-16 13:32:44 -04:00 |
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ArgumentDefinitions.java
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Fix improper detection of command-line arguments with missing values.
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2011-07-25 13:20:00 -04:00 |
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ArgumentException.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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ArgumentIOType.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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ArgumentMatch.java
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Added ability to specify arguments in files via -args/--arg_file
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2011-10-24 15:58:34 -04:00 |
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ArgumentMatchSite.java
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Added ability to specify arguments in files via -args/--arg_file
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2011-10-24 15:58:34 -04:00 |
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ArgumentMatchSource.java
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Added ability to specify arguments in files via -args/--arg_file
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2011-10-24 15:58:34 -04:00 |
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ArgumentMatchSourceType.java
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Added ability to specify arguments in files via -args/--arg_file
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2011-10-24 15:58:34 -04:00 |
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ArgumentMatches.java
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Added ability to specify arguments in files via -args/--arg_file
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2011-10-24 15:58:34 -04:00 |
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ArgumentSource.java
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ArgumentSource no longer comparable. Arguments sorted by GATKDoclet
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2011-08-18 22:20:14 -04:00 |
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ArgumentTypeDescriptor.java
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Killing off some FindBugs 'Realiability' issues
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2012-08-16 14:00:48 -04:00 |
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ClassType.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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CommandLineProgram.java
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GATK Error messages now point to the new website instead of GetSatisfaction.
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2012-07-20 17:27:11 -04:00 |
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CommandLineUtils.java
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Optimize imports run on the whole project, public and private. I just got too tired of all of the unused imports floating around. Confirmed that the system builds after the changes.
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2011-07-17 20:29:58 -04:00 |
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EnumerationArgumentDefault.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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Gather.java
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No more "Q-<pid>@<host>". Generated log file names now use the first output + ".out" (ex. my.vcf.out) or the name of the first QScript plus the order the function was added (ex. MyScript-1.out). The same function added twice with the same outputs will now have the same default logs, meaning the 2nd instance of the function won't be added to the graph twice.
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2012-01-08 12:11:55 -05:00 |
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Gatherer.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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Hidden.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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Input.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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IntervalBinding.java
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Feature request from Tim that could be useful to all: there's now an --interval_padding argument that specifies how many basepairs to add to each of the intervals provided with -L (on both ends). This is particularly useful when trying to run over the exome plus flanks and don't want to have to pre-compute the flanks (just use e.g. --interval_padding 50). Added integration test to cover this feature.
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2012-06-18 21:36:27 -04:00 |
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MissingArgumentValueException.java
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Optimize imports run on the whole project, public and private. I just got too tired of all of the unused imports floating around. Confirmed that the system builds after the changes.
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2011-07-17 20:29:58 -04:00 |
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Output.java
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Minor doc fixes
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2011-08-16 12:55:45 -04:00 |
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ParsingEngine.java
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Merge branch 'master' of ssh://nickel.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/unstable
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2011-10-26 15:44:25 -04:00 |
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ParsingMethod.java
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Killing off some FindBugs 'Realiability' issues
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2012-08-16 14:00:48 -04:00 |
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RodBinding.java
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makeUnbound now package protected
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2011-08-10 22:29:32 -04:00 |
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Tags.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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package-info.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
ded0e11b45