Package: igv / 2.6.3+dfsg-3

Metadata

Package Version Patches format
igv 2.6.3+dfsg-3 3.0 (quilt)

Patch series

view the series file
Patch File delta Description
gradle_dependencies.patch | (download)

build_java11.gradle | 19 18 + 1 - 0 !
src/main/java11/module-info.java | 3 1 + 2 - 0 !
2 files changed, 19 insertions(+), 3 deletions(-)

 adapting gradle build files to debian environment
 Paths of Debian libraries are indicated.
handle_old_htsjdk.patch | (download)

src/main/java/org/broad/igv/util/HttpUtils.java | 2 1 + 1 - 0 !
1 file changed, 1 insertion(+), 1 deletion(-)

 deleting a line calling a helper class
 We cannot use helper classes with the current version of htsjdk.
skip_tests_network.patch | (download)

build_java11.gradle | 4 4 + 0 - 0 !
src/test/java/org/broad/igv/feature/AminoAcidManagerTest.java | 8 8 + 0 - 0 !
src/test/java/org/broad/igv/feature/CodonTest.java | 1 1 + 0 - 0 !
src/test/java/org/broad/igv/feature/ExonTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/feature/FeatureDBTest.java | 6 6 + 0 - 0 !
src/test/java/org/broad/igv/feature/genome/GenomeTest.java | 3 3 + 0 - 0 !
src/test/java/org/broad/igv/feature/genome/SequenceWrapperTest.java | 7 6 + 1 - 0 !
src/test/java/org/broad/igv/feature/genome/fasta/FastaBlockCompressedSequenceTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/sam/AlignmentDataManagerTest.java | 1 1 + 0 - 0 !
src/test/java/org/broad/igv/sam/cram/CRAMReaderTest.java | 4 3 + 1 - 0 !
src/test/java/org/broad/igv/sam/cram/IGVReferenceSourceTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/sam/lite/BAMIndexTest.java | 3 3 + 0 - 0 !
src/test/java/org/broad/igv/sam/reader/BAMHttpReaderTest.java | 4 4 + 0 - 0 !
src/test/java/org/broad/igv/tdf/TDFReaderTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/tdf/TDFRegressionTests.java | 4 4 + 0 - 0 !
src/test/java/org/broad/igv/tools/CoverageCounterTest.java | 1 1 + 0 - 0 !
src/test/java/org/broad/igv/tools/IGVToolsTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/tools/converters/ExpressionFormatterTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/tools/motiffinder/MotifFinderSourceTest.java | 4 4 + 0 - 0 !
src/test/java/org/broad/igv/tools/parsers/GCTtoIGVConverterTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/track/TrackLoaderTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/util/HttpUtilsTest.java | 3 3 + 0 - 0 !
src/test/java/org/broad/igv/util/IGVHttpClientUtilsTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/util/ParsingUtilsTest.java | 2 2 + 0 - 0 !
src/test/java/org/broad/igv/util/stream/IGVSeekableBufferedStreamTest.java | 3 3 + 0 - 0 !
25 files changed, 74 insertions(+), 2 deletions(-)

 ignoring build-time tests that require network access