Hi, Pauline Thanks for getting back to me. I tried to add the directory of liftOver to my PATH but still got an error message:
>liftOver: /lib64/tls/libc.so.6: version `GLIBC_2.4' not found (required by >liftOver) Our IT just told me that "GLIBC is a library which is an inherent part of the Linux kernel on all the HPCC nodes. It cannot be updated without a massive Linux upgrade of the entire cluster, which would break lots of installed software. That is not practical. Basically, we will need to upgrade by replacing the HPCC with a new system (we are trying to find funding). This code was built/compiled for a newer Linux than the one we have, which is: [r...@blade169 ~]# uname -r 2.6.9-42.0.3.ELsmp" They suggested me to get the source code for liftOver to use the GLIBC we have. Could you help me on this? Thanks a lot! -Jianchao -----Original Message----- From: Pauline Fujita [mailto:[email protected]] Sent: Wednesday, December 08, 2010 5:53 PM To: Yao, Jianchao Cc: [email protected] Subject: Re: [Genome] liftOver - "command not found" Hello Jianchao, The error indicates that bash is not able to locate the liftOver program. You can either add the location of liftOver to your bash PATH environment variable, or you can specify the path when you run it. If you are in the directory where liftOver resides, type: ./liftOver Hopefully this information was helpful and answers your question. If you have further questions or require clarification feel free to contact the mailing list at [email protected]. Regards, Pauline Fujita UCSC Genome Bioinformatics Group http://genome.ucsc.edu On 12/08/10 11:01, Yao, Jianchao wrote: > To Whom It May Concern: > > > > I just downloaded liftOver for linux.x86_64 but after I typed liftOver > in the command line, I got > > Ø -bash: liftOver: command not found > > I tried liftOver for linux.i386 but still got the same error.. > > Can someone advise me on this error? Thanks in advance > > -Jianchao > > > > ************************************ > > Jianchao Yao, Ph.D. > > Woodbury Genome Center > > Cold Spring Harbor Laboratory > > 500 Sunnyside Boulevard > > Woodbury, NY 11797 > > Email: [email protected] <mailto:[email protected]> > > ************************************ > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
