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  • problem in using ERANGE

    hello everyone,

    I am working on SOLiD platform and want to use SOLiD data for RNAseq analysis. For that i am trying to utilize bowtie for mapping an ERANGE for RPKM. For bowtie mapping we need expanded genome. i am trying to utilize getsplicefa.py of ERANGE to get splice file. but while doing this is am getting the following error:

    psyco not running
    /share/apps/ERANGE/project/genome/commoncode/getsplicefa.py: version 3.2
    43180
    369006
    could not get chr3:72692980-72695247
    could not get chr3:72695415-72695619
    could not get chr3:72695669-72704339
    could not get chr3:72704428-72707527
    could not get chr3:72707652-72708182
    could not get chr3:72708239-72708321
    could not get chr3:72708406-72711003
    could not get chr3:72711152-72712888
    could not get chr3:72713005-72713089
    contt...

    Any help is appreciable

    Saha

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