Commit 7c03622
Sebastian Bittrich
adds AltLoc NullPointerException test
1 parent f26563d commit 7c03622
2 files changed
Lines changed: 12 additions & 1 deletion
File tree
- biojava-integrationtest/src/test/java/org/biojava/nbio/structure/test/io/cif
- biojava-structure/src/main/java/org/biojava/nbio/structure/io/cif
Lines changed: 12 additions & 0 deletions
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
@@ -21,6 +21,18 @@ | |||
| 21 | 21 | import static org.junit.Assert.*; | |
| 22 | 22 | ||
| 23 | 23 | public class CifFileConsumerImplTest { | |
| 24 | + /** | ||
| 25 | + * java.lang.NullPointerException - failed for /var/bcif/hm/2hmz.bcif | ||
| 26 | + */ | ||
| 27 | + @Test | ||
| 28 | + @Ignore("ignored for now as Bcif file source may change - currently using local files") | ||
| 29 | + public void testAltLocCleanup() throws IOException, StructureException { | ||
| 30 | + StructureIO.getAtomCache().setUseMmCif(true); | ||
| 31 | + StructureIO.getStructure("2hmz"); | ||
| 32 | + Structure cif = loadLocalCif("2hmz"); | ||
| 33 | + Structure bcif = loadLocalBcif("2hmz"); | ||
| 34 | + } | ||
| 35 | + | ||
| 24 | 36 | /** | |
| 25 | 37 | * java.lang.NumberFormatException: multiple points have been thrown. | |
| 26 | 38 | */ | |
Lines changed: 0 additions & 1 deletion
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
@@ -1112,7 +1112,6 @@ public void finish() { | |||
| 1112 | 1112 | SeqRes2AtomAligner.storeUnAlignedSeqRes(structure, seqResChains, params.isHeaderOnly()); | |
| 1113 | 1113 | } | |
| 1114 | 1114 | ||
| 1115 | - // TODO java.lang.NullPointerException - failed for /var/bcif/hm/2hmz.bcif | ||
| 1116 | 1115 | // Now make sure all altlocgroups have all the atoms in all the groups | |
| 1117 | 1116 | StructureTools.cleanUpAltLocs(structure); | |
| 1118 | 1117 | ||
0 commit comments