Hello, We have a new work-around, please see this message posted last Friday: https://lists.soe.ucsc.edu/pipermail/genome/2009-June/019232.html
We hope that this helps until something more permanent can be developed, Jennifer Jackson UCSC Genome Bioinformatics Group [email protected] wrote: > Hi Kayla, > > I was able to convert some wig files into the bigWig format and display > the tracks in the UCSC genome browser. However, during the conversion from > wig to bigWig format, I noticed that "wigToBigWig" consumes a lot of > memory. For example, to convert a ~10 Gb wig file, it maxed out our server > with 32 Gb memory and used >10 Gb of swap space as well. This make the > conversion runs quite slowly (~10 hr). Do you have any suggestions as to > how to make this process more memory efficient? > > Thanks! > > -Wei > > > > > > Kayla Smith <[email protected]> > 05/20/2009 04:56 PM > > To > [email protected] > cc > [email protected] > Subject > Re: [Genome] wigToBigWig and bedToBigBed > > > > > > > > Hello Wei, > > Thank you for your interest in our new bigBed and bigWig formats. While > we have not formally released these utilities, we have made them available > here: > > This first cut of the executables is here: > http://genome-test.cse.ucsc.edu/admin/exe/linux.x86_64/ > with README files such as the following: > > http://genome-test.cse.ucsc.edu/admin/exe/linux.x86_64/bigBedWigs.txt > > Please let us know if you experience any difficulties. > > Kayla Smith > UCSC Genome Bioinformatics Group > > > ----- [email protected] wrote: > > >> Hi, >> >> I am interested in the new bigwig and bigbed formats. Could you please >> >> point me to the download site of wigToBigWig and bedToBigBed? Thanks a >> >> lot! >> >> -Wei Tao, PhD. >> Bioinformatics >> Agencourt Bioscience >> The server made the following annotations >> >> >> > --------------------------------------------------------------------------------- > >> This message contains information that may be privileged or >> confidential and is the property of Beckman Coulter, Inc. It is >> intended only for the person to whom it is addressed. If you are not >> the intended recipient, you are not authorized to read, print, retain, >> copy, disseminate, distribute or use this message or any part thereof. >> If you receive this message in error, please notify the sender >> immediately and delete all copies of this message. >> >> >> > --------------------------------------------------------------------------------- > >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome >> > > > The server made the following annotations > > --------------------------------------------------------------------------------- > > This message contains information that may be privileged or confidential and > is the property of Beckman Coulter, Inc. It is intended only for the person > to whom it is addressed. If you are not the intended recipient, you are not > authorized to read, print, retain, copy, disseminate, distribute or use this > message or any part thereof. If you receive this message in error, please > notify the sender immediately and delete all copies of this message. > > --------------------------------------------------------------------------------- > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
