I've loaded an ancient Neanderthal y-chromosome BAM file and the 1k Homo Sapiens reference sequence, but now I get the following error: could not create index, could not read data from block (error code 3). This seems kinda major - Any ideas
Gabe's guess turned out to be the case - the original file was truncated. I returned to the source and re-downloaded the y-chromosome BAM file - this time it was much larger. GenomeBrowse was able to index and display the sequence - thanks much for the troubleshooting assistance!
Hey Tony,
Neanderthal Y-Chromosome! That sounds pretty neat!
That error is a internal one where the number of bytes we expect in a BAM block are more than the number we are able to read.
My guess is that the file might be truncated or corrupted.
If you would like us to take a look at the file, feel free to email us at genomebrowse@goldenhelix.com.
Questions should be tagged FeatureRequest for asking about a non-existing feature or proposing a new idea, GeneralInquiry for general questions about GenomeBrowse or directions on how to do something, or RanIntoProblem if you want to report an issue or had difficulty getting to an expected result.
Asked: 2013-03-22 09:32:14 -0600
Seen: 645 times
Last updated: Mar 28 '13
Thanks for the response, Gabe - you have mail! BTW, the sequencing was done by the Max Planck lab in Leipzig, Germany using a newly-developed single strand protocol.
Tony Popish ( 2013-03-25 09:29:30 -0600 )edit