Package: artemis / 18.1.0+dfsg-3
Metadata
Package | Version | Patches format |
---|---|---|
artemis | 18.1.0+dfsg-3 | 3.0 (quilt) |
Patch series
view the series filePatch | File delta | Description |
---|---|---|
samreader.patch | (download) |
src/main/java/uk/ac/sanger/artemis/components/alignment/BamUtils.java |
22 11 + 11 - 0 ! |
implement new htsjdk api See https://github.com/samtools/htsjdk/issues/767#issuecomment-264864910 |
use lang3.patch | (download) |
src/main/java/uk/ac/sanger/artemis/io/GFF3Encoder.java |
2 1 + 1 - 0 ! |
use lang3 |
using_system_jars_in_pom.patch | (download) |
pom.xml |
6 6 + 0 - 0 ! |
specifying paths on debian system for some dependencies For those dependencies, no maven-repo tree is available, we are therefore giving their path with system scope. |
missing_htsjdk_dependency_in_pom.patch | (download) |
pom.xml |
8 7 + 1 - 0 ! |
adding missing dependency on htsjdk in pom |
no_install_of_provided_jars.patch | (download) |
pom.xml |
70 0 + 70 - 0 ! |
avoid installing embedded jars as we removed them Author relies on jars that are embedded in their source archive. Instead, we use the ones that are packaged in Debian. |
running_build_tests.patch | (download) |
pom.xml |
27 3 + 24 - 0 ! |
changes in pom and in test definitions when they cannot be run In pom.xml, we remove the part relative to Evosuite as, as mentioned in pom, provided build tests are not compatible with Evosuite. We also remove the lines allowing to skip tests or to ignore failures. In the definitions of the tests, we add @Ignore for the ones that require a X11 instance to run. |
debianize_launcher_scripts.patch | (download) |
act |
62 1 + 61 - 0 ! |
simplifying the provided launchers Many options or tricks are useless on a Debian system. The paths are also adapted to the Debian install. |