generate-meta | UnboundLocalError: local variable 'samples_yaml' referenced before assignment

[abmmki]

Hi,

I got following error in generate meta step with mouse Ensembl Grcm38 genome and its gtf file. Log.out file shows that all steps completed (it says "done ..... finished successfully DONE: Genome generation, EXITING) It looks like I have all necessary file generated (not sure though if incomplete)

I just wonder how to fix this error:

[Sun Oct 22 22:23:13 CDT 2017] org.broadinstitute.dropseqrna.annotation.CreateIntervalsFiles SEQUENCE_DICTIONARY=mm38.dict REDUCED_GTF=mm38_reduced.gtf OUTPUT=. PREFIX=mm38 VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json

[Sun Oct 22 22:23:18 2017] Finished job 1. [Sun Oct 22 22:23:18 2017] 5 of 6 steps (83%) done [Sun Oct 22 22:23:18 2017] [Sun Oct 22 22:23:18 2017] localrule all: input: mm38.rRNA.intervals, STAR_INDEX_NO_GTF/SA jobid: 0 [Sun Oct 22 22:23:18 2017] [Sun Oct 22 22:23:18 2017] Finished job 0. [Sun Oct 22 22:23:18 2017] 6 of 6 steps (100%) done Traceback (most recent call last): File "/bin/dropSeqPipe", line 9, in load_entry_point('dropSeqPipe==0.23a0', 'console_scripts', 'dropSeqPipe')() File "/usr/lib/python3.4/site-packages/dropSeqPipe/main.py", line 96, in main if(samples_yaml['GLOBAL']['data_type'] not in ['singleCell', 'bulk']): UnboundLocalError: local variable 'samples_yaml' referenced before assignment

[Hoohm]

The meta_generation works fine. This is just a tab bug that was fixed in the newer version. 0.24 Are you sure you are using 0.24? load_entry_point('dropSeqPipe==0.23a0', 'console_scripts', 'dropSeqPipe')()

[abmmki]

Hi,

Thanks. I am using 23a version. So, v0.24 will solve.

thanks again