fixup! WIP

Author: arteymix

example.luigi.cfg

@@ -40,7 +40,7 @@ scheduler_extra_args=[]
 OUTPUT_DIR=pipeline-output
 GENOMES=genomes
 REFERENCES=references
-SINGLE_CELL_REFERENCES=single-cell-references
+REFERENCES_CELL_RANGER=references-cell-ranger
 METADATA=metadata
 DATA=data
 DATAQCDIR=data-qc

rnaseq_pipeline/tasks.py

@@ -440,12 +440,11 @@ def output(self):
                 luigi.LocalTarget(join(destdir, f'{self.experiment_id}_fpkm.{self.scope}'))]
 
 class PrepareSingleCellReference(luigi.Task):
-    taxon = luigi.Parameter()
     reference_id = luigi.Parameter()
 
     def output(self):
         return luigi.LocalTarget(
-            join(str(cfg.OUTPUT_DIR), str(cfg.SINGLE_CELL_REFERENCES), str(self.taxon), str(self.reference_id)))
+            join(str(cfg.OUTPUT_DIR), str(cfg.SINGLE_CELL_REFERENCES), str(self.reference_id)))
 
 @requires(DownloadSample)
 class OrganizeSingleCellSample(luigi.Task):