The guide is correct with the exception of the inclusion of the line: <!DOCTYPE kickstart SYSTEM "@KICKSTART_DTD@"> in the node files, and a similar line in the graph files. We still need to update this part of the documentation. This is in section 2.1.3.1. -mjk On Jul 7, 2005, at 02:55 p, Glen Otero wrote: > Folks- > > I'll start working on a new BioBrew roll for Rocks-4.0 when I get > back from vacation in two weeks. Hopefully, I'll have a new roll by > mid August. > > Mason--At what point in the steps detailed in the Roll developer's > guide will I need to apply the changes you mentioned to the graph > and nodes xml files? > > Glen > > On Jul 7, 2005, at 10:43 AM, mason j. katz wrote: > > >> There were some Roll API changes from Rocks 3.3.0 to Rocks 4.0.0 >> so I would expect it not to install. The BioBrew developers need >> to spin a new version for Rocks 4.0.0. >> >> The specifics are (this is for Glen): The graph itself has >> changed so the entry point may need to be modified for the new >> graph structure. Also both the nodes and graph xml files have a >> line at the top that says @GRAPH_DTD@ or @KICKSTART_DTD@ this >> entire line needs to be removed for the new XML parser to work. >> We had these in as placeholders and never used them, unfortunately >> the new XML engine breaks with them. Also Glen, we are thinking >> more about a bioroll for Rocks we should talk about the future of >> BioBrew, give me a call sometime. >> >> -mjk >> >> On Jul 6, 2005, at 07:00 p, Alan Ng wrote: >> >> >> >>> Has anyone tried inserting the Biobrew-3.3 roll on Rocks 4.0. >>> Would be a >>> nice stop-gap measure for some bioinformatics clusters we're >>> running if >>> it works >>> >>> "Leadership & Life-long Learning" >>> >>> Alan Ng >>> Assistant Manager, Systems >>> Linux Certified Professional >>> Open Source Systems Sdn Bhd >>> www.aldrix.net Tel: 6 03-8656 0139 Fax: 6 03-8656 0132 >>> >>> ------------------------------------------- >>> >>> "Carpe Diem: Seize the Day!!" >>> >>> >>> >>> Glen Otero wrote: >>> >>> >>> >>> >>>> BioBrew rolls for x86 and x86_64 are available for Rocks-3.3. Rolls >>>> for Rocks-4.0 are not available yet. The rolls contains BLAST, >>>> mpiBLAST, HMMER, EMBOSS, ClustalW, Gromacs, wise, and Phylip >>>> applications, among others. The main website is biobrew.org. >>>> >>>> Glen >>>> >>>> On Jul 1, 2005, at 7:00 AM, Kurata Sung wrote: >>>> >>>> >>>> >>>> >>>>> Hello >>>>> >>>>> I study faculty of Computer Engineer at Kasetsart >>>>> University,Bangkok Thailand. >>>>> I want information with bioinformatics roll on NPACI rock >>>>> because my project do this. >>>>> - What have bioinformatics roll on NPACI rock ?(example : >>>>> biobrew(This is only bioinformatics roll on NPACI rock which I >>>>> can >>>>> find from Internet)) >>>>> >>>>> Thank you very much >>>>> >>>>> _________________________________________________________________ >>>>> Express yourself instantly with MSN Messenger! Download today it's >>>>> FREE! http://messenger.msn.click-url.com/go/onm00200471ave/ >>>>> direct/01/ >>>>> >>>>> _______________________________________________ >>>>> Bioclusters maillist - Bioclusters at bioinformatics.org >>>>> https://bioinformatics.org/mailman/listinfo/bioclusters >>>>> >>>>> >>>>> >>>>> >>>>> >>>> >>>> _______________________________________________ >>>> Bioclusters maillist - Bioclusters at bioinformatics.org >>>> https://bioinformatics.org/mailman/listinfo/bioclusters >>>> >>>> >>>> >>> >>> >>> <alan.vcf> >>> _______________________________________________ >>> Bioclusters maillist - Bioclusters at bioinformatics.org >>> https://bioinformatics.org/mailman/listinfo/bioclusters >>> >>> >>> >> >> _______________________________________________ >> Bioclusters maillist - Bioclusters at bioinformatics.org >> https://bioinformatics.org/mailman/listinfo/bioclusters >> >> >> > > _______________________________________________ > Bioclusters maillist - Bioclusters at bioinformatics.org > https://bioinformatics.org/mailman/listinfo/bioclusters >