Louis Bergelson
Louis Bergelson
We see a false positive report of `This class became abstract` on an enum. Previously the enum was a simple enum of the form ``` enum Thing { First, Second...
We saw a false positive report of source / binary incompatibility The class in question directly extended the interfaces Feature and Locatable We had a hierarchy like this: ``` interface...
When adding additional overloads that have the same number of parameters to an existing method, it causes a potential source compatibility issue due to the type inference of `null`. ex:...
I noticed an issue where it claims something isn't source compatible when it actually is. ``` public int getValue() {...} public int getValue(Object... objects){ ... } ``` This change is...
* This returns a List of IDs instead of a single String. * Fixes https://github.com/samtools/htsjdk/issues/1506 @BoscoSuent this was quick so I added it, it should fix your issue.
Some exciting news! The Methods team at Broad recently applied for, and were subsequently awarded a [grant](https://chanzuckerberg.com/eoss/proposals/htsjdk-enhancing-the-java-toolkit-for-emerging-sequencing-technologies/) as part of the [Chan Zuckerberg Initiative’s Essential Open Source Software Program](https://chanzuckerberg.com/rfa/essential-open-source-software-for-science/) to...
Users who are using FUSE to access remote file systems are having trouble with the bam index memory mapping. I've been told that exposing the ability to specify the PRIVATE...
### Description rebased copy of https://github.com/samtools/htsjdk/pull/1079
I noticed that it looks like `SeekablePathStream().read()` could potentially erroneously return a 0 when the underlying `SeekableByteStream` implementation doesn't guarantee that either a byte is read or -1 is returned...
`IOUtil.getPath("some file")` explodes: ``` Caused by: java.net.URISyntaxException: Illegal character in path at index 4: some file at java.net.URI$Parser.fail(URI.java:2848) at java.net.URI$Parser.checkChars(URI.java:3021) at java.net.URI$Parser.parseHierarchical(URI.java:3105) at java.net.URI$Parser.parse(URI.java:3063) at java.net.URI.(URI.java:588) at java.net.URI.create(URI.java:850) ... 25...