statgen
contig/chr name error
Hello, Developer! During use, I encountered an issue with the following error messages:
Merging temp files ... Error: Invalid contig id (1595801600) Error: Invalid shared data Error: Invalid contig id (1595801600) Error: Invalid shared data Error: I/O failed while merging Error: failed merging temp files
My species has three chromosomes, and although the merging process failed, each chromosome was filled in the results. Can I manually merge the filled chromosome results? My chromosome format is '1, 2, 3'.
What operating system are your running on and how did you install Minimac4? Can you verify that you have enough disk space in /tmp to store the results? Another possibility is that you need to add contig headers (see example below) to the VCF you are imputing.
##contig=<ID=1>
##contig=<ID=2>
##contig=<ID=3>
Thank you for your reply. As per your suggestion, I added ##, and everything is working fine now.