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tepid-refine #21

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yuejian1 opened this issue Sep 8, 2021 · 0 comments
Open

tepid-refine #21

yuejian1 opened this issue Sep 8, 2021 · 0 comments

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@yuejian1
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yuejian1 commented Sep 8, 2021

Hello,
I use tepid-refine , but get the error below

(python2) lenovo@lenovo-ThinkStation-P700:~/dtt/TEPID/Scripts$ bash test_tepid_refine_data.sh
SRR14327928
Processing SRR14327928
indexing bam file
checking deletions
Traceback (most recent call last):
File "/hone/lenovo/dtt/miniconda3/envs/python2/bin/tepid-refine", line 4,in import( ' pkg_resources ').run_script('TEPID==0.10', 'tepid-refine')
File " /hone/lenovo/dtt/miniconda3/envs/python2/lib/python2.7/site-packages/pkg_resources/init.py",line 748,
in run_script
self.require(requires)[0].run_script(script_nane, ns)
File " /hone/lenovo/dtt/mniniconda3/envs python2/lib/python2.7/site-packages/pkg_resources/ init.py",line 1524,in run_script
exec(script_code, namespace,namespace)
File "/hone/ lenovo]tt/ntniconda3/envs/python2/Litb/python2.7/site-packages /TEP10-0.10-py2.7.egg/EGG-INFO/scripts/teoid-refine" , line 32,in
File "build/bdist.linux-x86_64/egg/tepid/tepid.py" , line 246,in refine
File "build/bdist.linux-x86_64/egg/tepid/tepid.py", line 190,in process_missed
File "build/bdist.linux-x86_64/egg/tepid/tepid.py",line 43, in find_reads
File "calignmentfile.pyx", line 681,in pysan.calignmentfile .AlignmentFile.fetch (pysan/calignmentfile.c:9089)
File "calignmentfile.pyx",line 598,in pysan.calignmentfile.AlignmentFile._parseRegion (pysan/calignnentfile.c:8170)
ValueError : invalid reference ‘1’

I do not know what's wrong with it, can you help me solve the problem?
thankyou a lot

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