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#2 Error: object 'A2C' not found

2.0
open
nobody
None
2016-02-29
2016-02-26
Pascal
No

Hi there,

I am getting 

Error: object 'A2C' not found

when running mismatch_profile.py with default settings. Also tried the paired unstranded sample data set, but got the same error.

Thanks,
Pascal

Discussion

  • Liguo Wang

    Liguo Wang - 2016-02-26

    Please provide more informaiotn such as which lines of code issued this error?

     

  • Pascal

    Pascal - 2016-02-29

    Unfortunately the only error message I get is this one:

    mismatch_profile.py -i Sim1/alignments.bam -l 75 -o Sim1.mismatch -n 1000000; 
Process BAM file ... 

Error: object 'A2C' not found
Execution halted
     

  • Liguo Wang

    Liguo Wang - 2016-02-29

    This error is issues by R when it tries to generate plot while no mismathes have been detected. Our online manual indciates that "Calculate the distributions of the mismatches across reads. Note that the “MD” tag must exist in the BAM file." Please check your BAM file.

    I will also update the code to stop generating plot when actually no mismatches found.

     

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