Hello Augusto, To begin the troubleshooting process, it would be helpful if you would first do the following:
1) obtain a new copy of the executable using ftp (not a download from a browser) or the latest source code and compile locally Options and instructions located at: http://hgdownload.cse.ucsc.edu -> Source Downloads 2) Confirm that all input files and the chrom.sizes file are based on the same version of the human genome assembly. I know that you mentioned checking the chrom lengths - we are wondering if you used the utility bedClip? If not, running this as a double check would help identify problems with bed entries that fall outside of the expected lengths, which may in turn lead to the discovery that data is from a different version a human genome assembly (it will also make it usable, whether from the same assembly or not, but the results would be mapped to an incorrect genomic reference sequence). 3) Re-run the analysis. If problems persists, please send us your complete command-line, input file (including chrom.sizes) and output using the smallest dataset that you can create that still produces the error. Also include information about your environment (server OS version, etc.) If the input file is large, please provide instructions for how/where to ftp the data from your work site. Then we will duplicate your steps, debug here, and provide feedback. We appreciate your helping in discovering the root cause of the error. All data can be sent directly to me (not the entire mailing list) and I will forward to our team internally for help. Jennifer ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "Augusto Rendon" <[email protected]> wrote: > From: "Augusto Rendon" <[email protected]> > To: [email protected] > Sent: Tuesday, January 19, 2010 3:45:59 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] bedGraph to bigWig > > Hello, > > I am trying to convert some bedGraph files derived from chip-seq > coverage tracks to bigWigs using the linux 64bit version of > bedGraphToBigWig. It works on some files but not all. When it fails > it > says: > > bedGraphToBigWig: bbiWrite.c:496: bbiOutputOneSummaryFurtherReduce: > Assertion `bounds < boundsEnd' failed. > Aborted > > I had made sure that no entry in the bed file exceeds the chromosome > lengths for hg18. > > Any suggestions? > > Many thanks, > > augusto > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
