ADL: autodock Digest, Vol 124, Issue 15

ravi ravi.shankar.koli at gmail.com
Sat Dec 27 03:59:45 PST 2014


This problem often occurs if we do not copy autogrid and autodock exes from
windows/system 32. Copy these in a seperate folder with your protein and
ligand file and while running autogrid or autodock give this folder as path
name.
On 27 Dec 2014 17:17, "suniba shuaib" <suniba88chemistry at gmail.com> wrote:

> Hello i am having a similar problem. I have windows 8 OS (32 bit)  and my
> autogrid eror is :-
>
> unsuccessful completion
>
> i can't find parameter file pathname ':\C Program'
>  I have followed all tutorials and have done each step carefull. following
> the tutorial with "hsg1" and ind (as mentioned).
> i do not understand what i am missing or is it a general problem with
> windows. Shall i try Linux?
>
> On Fri, Dec 26, 2014 at 1:30 AM, <autodock-request at scripps.edu> wrote:
>
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> > than "Re: Contents of autodock digest..."
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> >
> > Today's Topics:
> >
> >    1. Re:  ??:  Error in autogrid running (Xue Cai)
> >    2.  ??: ??:  Error in autogrid running (zcqcau)
> >
> >
> > ----------------------------------------------------------------------
> >
> > Message: 1
> > Date: Thu, 25 Dec 2014 23:29:55 +0800
> > From: Xue Cai <ceciliacaixue at gmail.com>
> > Subject: Re: ADL: ??:  Error in autogrid running
> > To: autodock at scripps.edu
> > Message-ID: <D3ACA7C5-8F40-44ED-82ED-5A6F1D4C5CCA at gmail.com>
> > Content-Type: text/plain; charset=utf-8
> >
> > ???
> > > On Dec 25, 2014, at 11:27 PM, zcqcau <zcqcau at gmail.com> wrote:
> > >
> > >
> > >   ???????
> > >   ?????????????
> > >
> > >   -------- ???? --------
> > >   ???Re: ADL: Error in autogrid running
> > >   ????Xue Cai
> > >   ????autodock at scripps.edu
> > >   ???
> > >
> > >     ??????????????
> > >     ????????
> > >> On Dec 25, 2014, at 10:50 PM, Chunqing Zhao wrote:
> > >>
> > >> ????????????15851810118
> > >>
> > >> On Thu, Dec 25, 2014 at 9:31 PM, Xue Cai wrote:
> > >>
> > >>> ???
> > >>>
> > >>> ?????
> > >>> ????????cscc???????????
> > >>> ?????????
> > >>> ?????????????
> > >>>
> > >>> ??
> > >>> ?????????
> > >>>
> > >>>> On Dec 25, 2014, at 7:39 PM, Chunqing Zhao wrote:
> > >>>>
> > >>>> ???????????????
> > >>>> ????
> > >>>> ??????
> > >>>>
> > >>>> On Thu, Dec 25, 2014 at 5:33 PM, Xue Cai
> > >>> wrote:
> > >>>>
> > >>>>> Hi?
> > >>>>> This is the error that I encountered when running AutoGrid.
> > >>>>> My system is MAC OS X.
> > >>>>> It says:
> > >>>>>
> > >>>>> Traceback (most recent call last):
> > >>>>> File "/Library/MGLTools/1.5.6/MGLToolsPckgs/ViewerFramework/VF.py",
> > >>> line
> > >>>>> 898, in tryto
> > >>>>> result = command( *args, **kw )
> > >>>>> File
> > >>>>>
> > >>>
> > >
> >
> "/Library/MGLTools/1.5.6/MGLToolsPckgs/AutoDockTools/autostartCommands.py"
> > >     ,
> > >>>>> line 964, in doit
> > >>>>> ps = subprocess.Popen(args)
> > >>>>> File "/Library/MGLTools/1.5.6/lib/python2.5/subprocess.py", line
> 594,
> > >>> in
> > >>>>> __init__
> > >>>>> errread, errwrite)
> > >>>>> File "/Library/MGLTools/1.5.6/lib/python2.5/subprocess.py", line
> > >     1097,
> > >>>>> in _execute_child
> > >>>>> raise child_exception
> > >>>>> OSError: [Errno 2] No such file or directory
> > >>>>>
> > >>>>>
> > >>>>> what should I do?
> > >>>>> Thanks!
> > >>>>> Merry Christmas!
> > >>>>>
> > >>>>> Xue Cai
> > >>>>> ________________________________________________
> > >>>>> --- ADL: AutoDock List ---
> http://autodock.scripps.edu/mailing_list
> > >>> ---
> > >>>>
> > >>>>
> > >>>>
> > >>>>
> > >>>> --
> > >>>>
> > >>>> Chunqing Zhao /???
> > >>>>
> > >>>> Nanjing Agricultural University
> > >>>>
> > >>>> Office : +86-025-84399063
> > >>>>
> > >>>> Home: +86-158-5181-0118
> > >>>>
> > >>>> Chinese Scholar supported by CSCC @ UC Berkeley
> > >>>> ________________________________________________
> > >>>> --- ADL: AutoDock List --- http://autodock.scripps.edu/mailing_list
> > >     ---
> > >>>
> > >>>
> > >>> ________________________________________________
> > >>> --- ADL: AutoDock List --- http://autodock.scripps.edu/mailing_list
> > ---
> > >>>
> > >>
> > >>
> > >>
> > >> --
> > >>
> > >> Chunqing Zhao /???
> > >>
> > >> Nanjing Agricultural University
> > >>
> > >> Office : +86-025-84399063
> > >>
> > >> Home: +86-158-5181-0118
> > >>
> > >> Chinese Scholar supported by CSCC @ UC Berkeley
> > >> ________________________________________________
> > >> --- ADL: AutoDock List --- http://autodock.scripps.edu/mailing_list
> ---
> > >     ________________________________________________
> > >     --- ADL: AutoDock List ---
> http://autodock.scripps.edu/mailing_list
> > ---
> > > ________________________________________________
> > > --- ADL: AutoDock List  --- http://autodock.scripps.edu/mailing_list
> ---
> >
> >
> >
> >
> > ------------------------------
> >
> > Message: 2
> > Date: Thu, 25 Dec 2014 23:50:45 +0800
> > From: zcqcau <zcqcau at gmail.com>
> > Subject: ADL: ??: ??:  Error in autogrid running
> > To: autodock at scripps.edu
> > Message-ID: <549c3264.3129460a.2c49.ffff86b9 at mx.google.com>
> > Content-Type: text/plain; charset="utf-8"
> >
> >
> >    Ok
> >    ?????????????
> >
> >    -------- ???? --------
> >    ???ADL: ??: Error in autogrid running
> >    ????zcqcau
> >    ????autodock at scripps.edu
> >    ???
> >
> >      ???????
> >      ?????????????
> >      -------- ???? --------
> >      ???Re: ADL: Error in autogrid running
> >      ????Xue Cai
> >      ????autodock at scripps.edu
> >      ???
> >      ??????????????
> >      ????????
> >      > On Dec 25, 2014, at 10:50 PM, Chunqing Zhao wrote:
> >      >
> >      > ????????????15851810118
> >      >
> >      > On Thu, Dec 25, 2014 at 9:31 PM, Xue Cai wrote:
> >      >
> >      >> ???
> >      >>
> >      >> ?????
> >      >> ????????cscc???????????
> >      >> ?????????
> >      >> ?????????????
> >      >>
> >      >> ??
> >      >> ?????????
> >      >>
> >      >>> On Dec 25, 2014, at 7:39 PM, Chunqing Zhao wrote:
> >      >>>
> >      >>> ???????????????
> >      >>> ????
> >      >>> ??????
> >      >>>
> >      >>> On Thu, Dec 25, 2014 at 5:33 PM, Xue Cai
> >      >> wrote:
> >      >>>
> >      >>>> Hi?
> >      >>>> This is the error that I encountered when running AutoGrid.
> >      >>>> My system is MAC OS X.
> >      >>>> It says:
> >      >>>>
> >      >>>> Traceback (most recent call last):
> >      >>>> File
> > "/Library/MGLTools/1.5.6/MGLToolsPckgs/ViewerFramework/VF.py",
> >      >> line
> >      >>>> 898, in tryto
> >      >>>> result = command( *args, **kw )
> >      >>>> File
> >      >>>>
> >      >>
> >
> >
> "/Library/MGLTools/1.5.6/MGLToolsPckgs/AutoDockTools/autostartCommands.py"
> >      ,
> >      >>>> line 964, in doit
> >      >>>> ps = subprocess.Popen(args)
> >      >>>> File "/Library/MGLTools/1.5.6/lib/python2.5/subprocess.py",
> line
> > 594,
> >      >> in
> >      >>>> __init__
> >      >>>> errread, errwrite)
> >      >>>> File "/Library/MGLTools/1.5.6/lib/python2.5/subprocess.py",
> line
> >      1097,
> >      >>>> in _execute_child
> >      >>>> raise child_exception
> >      >>>> OSError: [Errno 2] No such file or directory
> >      >>>>
> >      >>>>
> >      >>>> what should I do?
> >      >>>> Thanks!
> >      >>>> Merry Christmas!
> >      >>>>
> >      >>>> Xue Cai
> >      >>>> ________________________________________________
> >      >>>> --- ADL: AutoDock List ---
> > http://autodock.scripps.edu/mailing_list
> >      >> ---
> >      >>>
> >      >>>
> >      >>>
> >      >>>
> >      >>> --
> >      >>>
> >      >>> Chunqing Zhao /???
> >      >>>
> >      >>> Nanjing Agricultural University
> >      >>>
> >      >>> Office : +86-025-84399063
> >      >>>
> >      >>> Home: +86-158-5181-0118
> >      >>>
> >      >>> Chinese Scholar supported by CSCC @ UC Berkeley
> >      >>> ________________________________________________
> >      >>> --- ADL: AutoDock List ---
> > http://autodock.scripps.edu/mailing_list
> >      ---
> >      >>
> >      >>
> >      >> ________________________________________________
> >      >> --- ADL: AutoDock List ---
> > http://autodock.scripps.edu/mailing_list ---
> >      >>
> >      >
> >      >
> >      >
> >      > --
> >      >
> >      > Chunqing Zhao /???
> >      >
> >      > Nanjing Agricultural University
> >      >
> >      > Office : +86-025-84399063
> >      >
> >      > Home: +86-158-5181-0118
> >      >
> >      > Chinese Scholar supported by CSCC @ UC Berkeley
> >      > ________________________________________________
> >      > --- ADL: AutoDock List ---
> http://autodock.scripps.edu/mailing_list
> > ---
> >      ________________________________________________
> >      --- ADL: AutoDock List --- http://autodock.scripps.edu/mailing_list
> > ---
> >      ________________________________________________
> >      --- ADL: AutoDock List --- http://autodock.scripps.edu/mailing_list
> > ---
> >
> >
> > ------------------------------
> >
> > ________________________________________________
> > --- ADL: AutoDock List  ---
> > http://www.scripps.edu/pub/olson-web/doc/autodock/ ---
> >
> > End of autodock Digest, Vol 124, Issue 15
> > *****************************************
> >
> ________________________________________________
> --- ADL: AutoDock List  --- http://autodock.scripps.edu/mailing_list ---
>


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