Improve slurm error reporting

Author: bbimber

SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/MergeLoFreqVcfHandler.java

@@ -477,7 +477,7 @@ else if ("I".equals(line[0]))
                     siteIdx++;
                     if (siteIdx % 1000 == 0)
                     {
-                        ctx.getLogger().info("positions written: " + siteIdx);
+                        ctx.getLogger().info("positions written: " + siteIdx + ", current pos: " + site.getRight());
                     }
 
                     for (SequenceOutputFile so : inputFiles)

cluster/src/org/labkey/cluster/pipeline/SlurmExecutionEngine.java

@@ -172,7 +172,7 @@ protected Set<String> updateStatusForAllJobs() throws PipelineJobException
                     }
                     catch (Exception e)
                     {
-                        _log.error("Error parsing line: " + line);
+                        _log.error("Error parsing line: " + line, e);
                         throw e;
                     }
                 }
@@ -268,7 +268,7 @@ else if (headerFound)
                     }
                     catch (Exception e)
                     {
-                        _log.error("Error parsing line: " + line);
+                        _log.error("Error parsing line: " + line, e);
                         throw e;
                     }
                 }
@@ -644,7 +644,7 @@ private Pair<String, String> getStatusFromQueue(ClusterJob job)
                     }
                     catch (Exception e)
                     {
-                        _log.error("Error parsing line: " + line);
+                        _log.error("Error parsing line: " + line, e);
                         throw e;
                     }
                 }