Always stuck at "Plotting SV View"

virajbdeshpande / AmpliconArchitect

AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and elucidates the architecture of the amplicon. In the current version, AA takes as input next generation sequencing reads (paired-end Illumina reads) mapped to the hg19/GRCh37 reference sequence and one or more regions of interest. Please "watch" this repository for improvements in runtime, accuracy and annotations for GRCh38 human reference genome coming up soon.

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Always stuck at "Plotting SV View" #104

Open notchw opened 2 years ago

notchw commented 2 years ago

Dear author:

I am running AA many times, but the execution always stuck at "Plotting SV View" Besides, the summary.txt shown that " #Amplicons = 8 " But my results always cannot save image when the " Intervals more then one chromosome" (No matter how many times I redo it) S__24952836 Can you help me to solve this problem? Thanks!

papenfuss commented 2 years ago

We seem to be encountering the same issue, so any suggestions to fix this would be welcome.

jluebeck commented 2 years ago

@papenfuss, there is a more active discussion about this issue here: https://github.com/jluebeck/PrepareAA/issues/17#issue-956365839. Please feel free to email me any log files and commands used to run AA and I will take a look.

Thanks, Jens