cryptic error when gtf annotation is missing
alexg9010 opened this issue · comments
When the gtf-file is not given, or commented, a cryptic error message is given.
test.yaml:
# ## ~~~~~~~~~~~~~~~~~~~~~~~~~LOCATIONS~~~~~~~~~~~~~~~~~~~~~~~~~~ #
# ## This section needs to be adjusted to the planned analysis. #
# ## ------------------------------------------------------------ #
locations:
input-dir: ./
output-dir: ./output
genome-file: ../dm_genome/Drosophila_melanogaster_sm_assembly6_chip.fa
# spikein-file:
# index-dir:
# gff-file:
#
#
[..]
SyntaxError:
Input and output files have to be specified as strings or lists of strings.
File "/gnu/store/1d1y4d7j8p4cnad7q9mswhbvs18falp6-pigx-chipseq-0.0.52/libexec/pigx_chipseq/Snake_ChIPseq.py", line 364, in <module>
File "/gnu/store/1d1y4d7j8p4cnad7q9mswhbvs18falp6-pigx-chipseq-0.0.52/libexec/pigx_chipseq/Rules/Prepare_Annotation.py", line 11, in <module>