Pierre Gruet pushed to branch master at Debian Med / biojava4-live
Commits: b5af80df by Pierre Gruet at 2021-12-12T21:09:36+01:00 Depending again on libjgrapht0.8-java instead of libjgrapht-java so that the package builds - - - - - b531add7 by Pierre Gruet at 2021-12-12T22:14:46+01:00 Excluding more tests needing the network - - - - - 5e4f9a2c by Pierre Gruet at 2021-12-12T22:52:30+01:00 Upload to unstable - - - - - 3 changed files: - debian/changelog - debian/control - debian/patches/skip_network_related_tests Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,11 @@ +biojava4-live (4.2.12+dfsg-6) unstable; urgency=medium + + * Team upload. + * Depending again on libjgrapht0.8-java instead of libjgrapht-java + * Excluding more tests needing the network + + -- Pierre Gruet <[email protected]> Sun, 12 Dec 2021 22:15:47 +0100 + biojava4-live (4.2.12+dfsg-5) unstable; urgency=medium * Team upload. ===================================== debian/control ===================================== @@ -27,7 +27,7 @@ Build-Depends-Indep: libcommons-dbcp-java, liblog4j2-java, libslf4j-java, libxmlunit-java, - libjgrapht-java, + libjgrapht0.8-java, libjaxb-api-java, libjaxb-java, libnetx-java, @@ -56,7 +56,7 @@ Depends: ${java:Depends}, libguava-java, libslf4j-java, libcommons-math-java, - libjgrapht-java, + libjgrapht0.8-java, libvecmath-java Suggests: java-virtual-machine, libbiojava4-java, ===================================== debian/patches/skip_network_related_tests ===================================== @@ -5,7 +5,7 @@ Last-Updated: 2016-12-09 Forwarded: no --- a/biojava-core/src/test/java/org/biojava/nbio/core/sequence/io/GenbankCookbookTest.java +++ b/biojava-core/src/test/java/org/biojava/nbio/core/sequence/io/GenbankCookbookTest.java -@@ -67,21 +67,6 @@ public class GenbankCookbookTest { +@@ -67,21 +67,6 @@ @Test public void testProcess() throws Throwable { /* @@ -29,7 +29,7 @@ Forwarded: no //Try with the GenbankReaderHelper --- a/biojava-protein-disorder/src/test/java/org/biojava/nbio/ronn/NonstandardProteinCompoundTest.java +++ b/biojava-protein-disorder/src/test/java/org/biojava/nbio/ronn/NonstandardProteinCompoundTest.java -@@ -67,20 +67,6 @@ public class NonstandardProteinCompoundT +@@ -67,20 +67,6 @@ private void testUniprot(String uniprotID) throws CompoundNotFoundException, IOException { @@ -52,7 +52,7 @@ Forwarded: no --- a/biojava-core/src/test/java/org/biojava/nbio/core/sequence/loader/GenbankProxySequenceReaderTest.java +++ b/biojava-core/src/test/java/org/biojava/nbio/core/sequence/loader/GenbankProxySequenceReaderTest.java -@@ -75,90 +75,11 @@ public class GenbankProxySequenceReaderT +@@ -75,90 +75,11 @@ @Test public void testFeatures() throws IOException, InterruptedException, CompoundNotFoundException { @@ -143,3 +143,47 @@ Forwarded: no } } +--- a/biojava-core/src/test/java/org/biojava/nbio/core/search/io/SearchIOTest.java ++++ b/biojava-core/src/test/java/org/biojava/nbio/core/search/io/SearchIOTest.java +@@ -27,6 +27,7 @@ + import org.junit.AfterClass; + import org.junit.Before; + import org.junit.BeforeClass; ++import org.junit.Ignore; + import org.junit.Test; + import static org.junit.Assert.*; + +@@ -78,6 +79,7 @@ + /** + * Constructor test specifying Factory + */ ++ @Ignore("Attemps to use the network") + @Test + public void testConstructorWithoutFactoryGuess() { + String resource = "/org/biojava/nbio/core/search/io/blast/testBlastReport.blastxml"; +@@ -95,6 +97,7 @@ + /** + * Constructor test specifying Factory and using a evalue threshold filter + */ ++ @Ignore("Attemps to use the network") + @Test + public void testConstructorWithEvalueHspFilter() { + // +--- a/biojava-core/src/test/java/org/biojava/nbio/core/search/io/blast/BlastXMLParserTest.java ++++ b/biojava-core/src/test/java/org/biojava/nbio/core/search/io/blast/BlastXMLParserTest.java +@@ -31,6 +31,7 @@ + import org.junit.AfterClass; + import org.junit.Before; + import org.junit.BeforeClass; ++import org.junit.Ignore; + import org.junit.Test; + import static org.junit.Assert.*; + import org.junit.Ignore; +@@ -84,6 +85,7 @@ + /** + * Test of createObjects method, of class BlastXMLParser. + */ ++ @Ignore("Attempts to use the network") + @Test + public void testCreateObjects() throws Exception { + System.out.println("createObjects"); View it on GitLab: https://salsa.debian.org/med-team/biojava4-live/-/compare/6ea5ecb247ea1e7f69d9848466f33049770178f3...5e4f9a2ce270623849dd7648843f2365e06ca6c6 -- View it on GitLab: https://salsa.debian.org/med-team/biojava4-live/-/compare/6ea5ecb247ea1e7f69d9848466f33049770178f3...5e4f9a2ce270623849dd7648843f2365e06ca6c6 You're receiving this email because of your account on salsa.debian.org.
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