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Assertion error when processing chrX #6

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YY-SONG0718 opened this issue Mar 23, 2021 · 0 comments
Open

Assertion error when processing chrX #6

YY-SONG0718 opened this issue Mar 23, 2021 · 0 comments

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@YY-SONG0718
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Dear maintainer,

I am experiencing some assertion error when using mergevcf. This error happens when I process chrX. Other chromosomes do not return such error, but since chrX is rather large, I would like to include it in the analysis as much as possible.

  File "/anaconda3/envs/mergevcf/bin/mergevcf", line 11, in <module>
    load_entry_point('mergevcf==1.0.1', 'console_scripts', 'mergevcf')()
  File "build/bdist.linux-x86_64/egg/mergevcf/__init__.py", line 33, in main
  File "build/bdist.linux-x86_64/egg/mergevcf/mergedfile.py", line 117, in merge
  File "build/bdist.linux-x86_64/egg/mergevcf/variantdict.py", line 174, in addrecord
  File "build/bdist.linux-x86_64/egg/mergevcf/vcftobreakpoints.py", line 224, in breakpointsFromRecord
  File "build/bdist.linux-x86_64/egg/mergevcf/vcftobreakpoints.py", line 128, in translocation
  File "build/bdist.linux-x86_64/egg/mergevcf/locations.py", line 10, in __init__
AssertionError

May I ask that if mergvcf supports chrX, and what can I do if I would like to include it in the analysis?

I cloned, built and installed the package from scratch, and I am using Python 2.7.15.

Many thanks in advance.

Kind regards,

Yuyao

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