Updating htsjdk to 2.19.0 #1297
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* Updating htsjdk from 2.18.2 -> 2.19.0 * Fix SamFormatConverter test * Replacing deprecated TestUtils method
lbergelson
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lbergelson
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Mar 18, 2019
| * @param referenceSequence the reference sequence to use, necessary when reading/writing cram | ||
| * @param createIndex whether or not an index should be written alongside the output file | ||
| */ | ||
| public static void convert(final File input, final File output, final File referenceSequence, final Boolean createIndex) { |
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I extracted the guts of this tool into a public method so it could be tested more sanely.
| @@ -34,63 +36,47 @@ | |||
| import static org.testng.Assert.assertEquals; | |||
| import static org.testng.Assert.assertTrue; | |||
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| public class SamFileConverterTest { | |||
| public class SamFormatConverterTest { | |||
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Renamed the test so it matched the tool name.
| public class | ||
| SamFormatConverter extends CommandLineProgram { | ||
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| private static final String PROGRAM_VERSION = "1.0"; |
yfarjoun
approved these changes
Mar 22, 2019
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