Open Varunachander opened 5 years ago
Hi,
I didn't have trouble running somvarius without CNV input, but when I did run it with CNV input, I received the following error in the log output.
Traceback (most recent call last):
File "/opt/conda/bin/SomVarIUS", line 4, in
File "/opt/conda/lib/python2.7/site-packages/SomVarIUS-1.2-py2.7-linux-x86_64.egg/EGG-INFO/scripts/SomVarIUS", line 196, in get_mutations
File "SomVarIUS/SomVarIUS_calling.pyx", line 586, in write_mutations IndexError: list index out of range
Best, Paul
Hi, I encountered an issue using Somvarius:
storing chromosome/dbsnp intersection in memory... Traceback (most recent call last): File "/hgsccl/next-gen/scratch/chander/software/bin/SomVarIUS", line 4, in
import('pkg_resources').run_script('SomVarIUS==1.2', 'SomVarIUS')
File "build/bdist.linux-x86_64/egg/pkg_resources.py", line 517, in run_script
File "build/bdist.linux-x86_64/egg/pkg_resources.py", line 1430, in run_script
File "/hgsccl/next-gen/scratch/chander/software/lib/python2.7/site-packages/SomVarIUS-1.2-py2.7-linux-x86_64.egg/EGG-INFO/scripts/SomVarIUS", line 265, in
File "/hgsccl/next-gen/scratch/chander/software/lib/python2.7/site-packages/SomVarIUS-1.2-py2.7-linux-x86_64.egg/EGG-INFO/scripts/SomVarIUS", line 196, in get_mutations
File "SomVarIUS_calling.pyx", line 597, in write_mutations (SomVarIUS/SomVarIUS_calling.c:11842) File "SomVarIUS_calling.pyx", line 328, in SomVarIUS_calling.filter_regions (SomVarIUS/SomVarIUS_calling.c:7614) IndexError: list index out of range
Any thoughts what is going on? Best, Varuna