Merge pull request #1280 from izcram/fix/TaskClassAmbigiousException

attempt to fix TaskClassAmbigiousException in some pipeline runs #1278
BRCAChallenge · Nov 9, 2020 · 35061ab · 35061ab
2 parents 6695664 + 1708365
commit 35061ab
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diff --git a/pipeline/Makefile b/pipeline/Makefile
@@ -10,7 +10,7 @@ OS := $(shell uname -s)
 
 MKFILE_PATH := $(abspath $(lastword $(MAKEFILE_LIST)))
 
-LUIGI_ROOT_TASK = GenerateReleaseArchive
+LUIGI_ROOT_TASK = CompileVCFFiles.GenerateReleaseArchive
 LUIGI_WORKERS = 8
 
 # the path to seqrepo in the container; this is mounted separately from the rest of /files/resources

diff --git a/pipeline/workflow/CompileVCFFiles.py b/pipeline/workflow/CompileVCFFiles.py
@@ -10,6 +10,8 @@
 import luigi
 from luigi.util import requires
 
+luigi.auto_namespace(scope=__name__)
+
 from workflow import bayesdel_processing, esp_processing, gnomad_processing, pipeline_common, pipeline_utils
 from workflow.pipeline_common import DefaultPipelineTask, clinvar_method_dir, lovd_method_dir, \
     functional_assays_method_dir, data_merging_method_dir, priors_method_dir, priors_filter_method_dir, \