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-- Jason M. Swails > On Apr 21, 2017, at 4:23 PM, Baker, Joseph <bakerj.tcnj.edu> wrote: > > Okay, will wait for Jason to weigh in. Thanks, Hai. > > Joe > > > ------ > Joseph Baker, PhD > Assistant Professor > Department of Chemistry > C101 Science Complex > The College of New Jersey > Ewing, NJ 08628 > Phone: (609) 771-3173 > Web: http://bakerj.pages.tcnj.edu/ > > >> On Fri, Apr 21, 2017 at 3:46 PM, Hai Nguyen <nhai.qn.gmail.com> wrote: >> >>> On Fri, Apr 21, 2017 at 3:43 PM, Baker, Joseph <bakerj.tcnj.edu> wrote: >>> Hi Hai, >>> >>> Thanks. So looking in the AmberTools/src directory, I see a number of >>> directories that are updated to today's date actually, so it does seem >> that >>> something must have been extracted? For example, paramfit, parmed, >> cpptraj, >>> etc., are updated to today's date. There are a few that are not, for >>> example sebomd directory, ucpp-1.3 directory, include directory lapack >>> directory, lib directory, and some others. I am not sure if they are all >>> supposed to be Apr21 in there now? >> >>> So perhaps some directories got >>> extracted okay but not others? >> >> yeah >> >> Hai >> >>> >>> Joe >>> >>> >>> ------ >>> Joseph Baker, PhD >>> Assistant Professor >>> Department of Chemistry >>> C101 Science Complex >>> The College of New Jersey >>> Ewing, NJ 08628 >>> Phone: (609) 771-3173 >>> Web: http://bakerj.pages.tcnj.edu/ >>> >>> >>>> On Fri, Apr 21, 2017 at 3:39 PM, Hai Nguyen <nhai.qn.gmail.com> wrote: >>>> >>>>> On Fri, Apr 21, 2017 at 3:36 PM, Baker, Joseph <bakerj.tcnj.edu> wrote: >>>>> Perhaps that warning at the end of my original email about __exit__ >> does >>>>> not matter, and I can just run ./configure now manually without any >>>> trouble? >>>> >>>> I don't think so. The error meant that the tarfile was not >>>> successfully extracted. >>>> >>>> Let's wait for Jason (who wrote that script) to give feedback. >>>> >>>> Meanwhile, may be playing with the tarfile downloaded from amber >> website? >>>> >>>> thanks. >>>> Hai >>>> >>>>> >>>>> >>>>> ------ >>>>> Joseph Baker, PhD >>>>> Assistant Professor >>>>> Department of Chemistry >>>>> C101 Science Complex >>>>> The College of New Jersey >>>>> Ewing, NJ 08628 >>>>> Phone: (609) 771-3173 >>>>> Web: http://bakerj.pages.tcnj.edu/ >>>>> >>>>> >>>>> On Fri, Apr 21, 2017 at 3:30 PM, Baker, Joseph <bakerj.tcnj.edu> >> wrote: >>>>> >>>>>> Hi Hai, >>>>>> >>>>>> I just tried that and get the following output >>>>>> >>>>>> [root.neon amber16]# miniconda/bin/python update_amber --upgrade >>>>>> No major upgrade available. >>>>>> [root.neon amber16]# >>>>>> >>>>>> >>>>>> ------ >>>>>> Joseph Baker, PhD >>>>>> Assistant Professor >>>>>> Department of Chemistry >>>>>> C101 Science Complex >>>>>> The College of New Jersey >>>>>> Ewing, NJ 08628 >>>>>> Phone: (609) 771-3173 >>>>>> Web: http://bakerj.pages.tcnj.edu/ >>>>>> >>>>>> >>>>>>> On Fri, Apr 21, 2017 at 3:27 PM, Nhai <nhai.qn.gmail.com> wrote: >>>>>>> >>>>>>> >>>>>>> >>>>>>>> On Apr 21, 2017, at 3:23 PM, Baker, Joseph <bakerj.tcnj.edu> >> wrote: >>>>>>>> >>>>>>>> $AMBERHOME/miniconda/bin >>>>>>> >>>>>>> Uhm, python 2.6 does not have context manger for tarfile. Can you >> use >>>>>>> miniconda python >>>>>>> >>>>>>> $AMBERHOME/miniconda/bin/python update_amber --upgrade >>>>>>> >>>>>>> (Or use amber.python which is alias of miniconda python). >>>>>>> >>>>>>> Hai >>>>>>> _______________________________________________ >>>>>>> AMBER mailing list >>>>>>> AMBER.ambermd.org >>>>>>> http://lists.ambermd.org/mailman/listinfo/amber >>>>>>> >>>>>> _______________________________________________ >>>>>> AMBER mailing list >>>>>> AMBER.ambermd.org >>>>>> http://lists.ambermd.org/mailman/listinfo/amber >>>>>> >>>>> _______________________________________________ >>>>> AMBER mailing list >>>>> AMBER.ambermd.org >>>>> http://lists.ambermd.org/mailman/listinfo/amber >>>> >>>> _______________________________________________ >>>> AMBER mailing list >>>> AMBER.ambermd.org >>>> http://lists.ambermd.org/mailman/listinfo/amber >>>> >>> _______________________________________________ >>> AMBER mailing list >>> AMBER.ambermd.org >>> http://lists.ambermd.org/mailman/listinfo/amber >> >> _______________________________________________ >> AMBER mailing list >> AMBER.ambermd.org >> http://lists.ambermd.org/mailman/listinfo/amber >> > _______________________________________________ > AMBER mailing list > AMBER.ambermd.org > http://lists.ambermd.org/mailman/listinfo/amber _______________________________________________ AMBER mailing list AMBER.ambermd.org http://lists.ambermd.org/mailman/listinfo/amberReceived on Fri Apr 21 2017 - 14:00:03 PDT