On Thu, Oct 10, 2019 at 9:38 PM Daniel Roe <daniel.r.roe.gmail.com> wrote:
> I cant reproduce this behavior with a similar system (scientific linux
> 6.1, gcc 4.4.7, Intel MPI 5.0.1). The 'missing actual argument' error
> looks more like you may have unwittingly altered some source files,
> maybe via an improperly applied patch? Best advice I can give is to
> start over from a clean source directory.
>
> -Dan
>
> I will try to install it again but later. That was my second trial of
amber18 installation with --skip-python from a clean source directory.
I started running my simulation with Amber14 as I could not succeed to
install Amber18.
Thanks for your suggestion.
Sunita
> On Wed, Oct 9, 2019 at 7:34 AM Sunita Patel <sunita.patel.cbs.ac.in>
> wrote:
> >
> > On Mon, Oct 7, 2019 at 5:57 PM David A Case <david.case.rutgers.edu>
> wrote:
> >
> > > On Mon, Oct 07, 2019, Sunita Patel wrote:
> > > >
> > > >I did ...
> > > >./configure -mpi --skip-python gnu
> > > >make install
> > > >
> > > >Error: Missing actual argument for argument 'ismremd' at (1)
> > > >make[3]: *** [binrestart.o] Error 1
> > >
> > > (a) Can you provide more of the error message (the material right
> before
> > > the snippet you provided above?
> > >
> >
> > Warning: Unused dummy argument 'nfftdim2' at (1)
> > short_ene.F90: In function ‘short_ene_dip’:
> > short_ene.F90:1590: warning: ‘lambda3’ may be used uninitialized in this
> > function
> > short_ene.F90:1590: warning: ‘lambda5’ may be used uninitialized in this
> > function
> > short_ene.F90:1590: warning: ‘lambda7’ may be used uninitialized in this
> > function
> > short_ene.F90: In function ‘short_ene’:
> > short_ene.F90:302: warning: ‘df’ may be used uninitialized in this
> function
> > debug.F90: In function ‘do_percentiles’:
> > debug.F90:1631: warning: ‘apmed’ may be used uninitialized in this
> function
> > debug.F90:1631: warning: ‘apsev5’ may be used uninitialized in this
> function
> > debug.F90:1631: warning: ‘apninety’ may be used uninitialized in this
> > function
> > debug.F90:1632: warning: ‘apninety5’ may be used uninitialized in this
> > function
> > debug.F90:1632: warning: ‘apninety9’ may be used uninitialized in this
> > function
> > extra_pts.F90: In function ‘do_14_dipole’:
> > extra_pts.F90:1705: warning: ‘lambda3’ may be used uninitialized in this
> > function
> > extra_pts.F90:1705: warning: ‘lambda5’ may be used uninitialized in this
> > function
> > extra_pts.F90:1705: warning: ‘lambda7’ may be used uninitialized in this
> > function
> > ar: creating sebomd.a
> > ar: creating sys.a
> > ....................
> > .....................
> > Warning: Unused dummy argument 'cn3' at (1)
> > short_ene.F90:1543.66:
> >
> > eedmeth, mpoltype, dxdr, eedvir, cn3, cn4, cn5)
> > 1
> > Warning: Unused dummy argument 'cn4' at (1)
> > short_ene.F90:1543.71:
> >
> > eedmeth, mpoltype, dxdr, eedvir, cn3, cn4, cn5)
> > 1
> > Warning: Unused dummy argument 'cn5' at (1)
> > short_ene.F90: In function ‘short_ene_dip’:
> > short_ene.F90:1590: warning: ‘lambda3’ may be used uninitialized in this
> > function
> > short_ene.F90:1590: warning: ‘lambda5’ may be used uninitialized in this
> > function
> > short_ene.F90:1590: warning: ‘lambda7’ may be used uninitialized in this
> > function
> > short_ene.F90: In function ‘short_ene’:
> > short_ene.F90:302: warning: ‘df’ may be used uninitialized in this
> function
> > extra_pts.F90: In function ‘do_14_dipole’:
> > extra_pts.F90:1705: warning: ‘lambda3’ may be used uninitialized in this
> > function
> > extra_pts.F90:1705: warning: ‘lambda5’ may be used uninitialized in this
> > function
> > extra_pts.F90:1705: warning: ‘lambda7’ may be used uninitialized in this
> > function
> > Action_XtalSymm.cpp: In member function ‘bool
> > Action_XtalSymm::OriginsAlign(Action_XtalSymm::XtalDock*, const
> > std::vector<int, std::allocator<int> >&, int) const’:
> > Action_XtalSymm.cpp:607: warning: ‘origx’ may be used uninitialized in
> this
> > function
> > Action_XtalSymm.cpp:607: warning: ‘origy’ may be used uninitialized in
> this
> > function
> > Action_XtalSymm.cpp:607: warning: ‘origz’ may be used uninitialized in
> this
> > function
> > Parm_Amber.cpp: In member function ‘int Parm_Amber::ReadPointers(int,
> > Topology&, const Parm_Amber::FortranData&)’:
> > Parm_Amber.cpp:576: warning: comparison between signed and unsigned
> integer
> > expressions
> > bind.c: In function ‘rl_translate_keyseq’:
> > bind.c:445: warning: suggest parentheses around assignment used as truth
> > value
> > bind.c: In function ‘rl_parse_and_bind’:
> > bind.c:1188: warning: suggest parentheses around assignment used as truth
> > value
> > bind.c:1279: warning: suggest parentheses around assignment used as truth
> > value
> > bind.c: In function ‘rl_function_dumper’:
> > bind.c:2051: warning: suggest parentheses around assignment used as truth
> > value
> > bind.c: In function ‘rl_generic_bind’:
> > bind.c:342: warning: ‘k.type’ may be used uninitialized in this function
> > complete.c: In function ‘fnwidth’:
> > complete.c:604: warning: implicit declaration of function ‘wcwidth’
> > complete.c: In function ‘_rl_find_completion_word’:
> > complete.c:886: warning: suggest parentheses around assignment used as
> > truth value
> > complete.c: In function ‘rl_completion_matches’:
> > complete.c:1805: warning: suggest parentheses around assignment used as
> > truth value
> > complete.c: In function ‘rl_username_completion_function’:
> > complete.c:1856: warning: suggest parentheses around assignment used as
> > truth value
> > display.c: In function ‘rl_redisplay’:
> > display.c:714: warning: implicit declaration of function ‘wcwidth’
> > display.c:462: warning: ‘n0’ may be used uninitialized in this function
> > display.c:467: warning: ‘wc_width’ may be used uninitialized in this
> > function
> > histexpand.c: In function ‘get_history_event’:
> > histexpand.c:206: warning: suggest parentheses around assignment used as
> > truth value
> > input.c: In function ‘rl_read_key’:
> > input.c:423: warning: suggest parentheses around assignment used as truth
> > value
> > mbutil.c: In function ‘_rl_find_next_mbchar_internal’:
> > mbutil.c:118: warning: implicit declaration of function ‘wcwidth’
> > readline.c:1078: warning: ‘reset_default_bindings’ defined but not used
> > tilde.c: In function ‘tilde_expand’:
> > tilde.c:199: warning: suggest parentheses around assignment used as truth
> > value
> > tparam.c: In function ‘memory_out’:
> > tparam.c:51: warning: implicit declaration of function ‘write’
> > undo.c: In function ‘_rl_copy_undo_list’:
> > undo.c:140: warning: ‘roving’ may be used uninitialized in this function
> > version.c:2: warning: ‘version_string’ defined but not used
> > binrestart.F90:110.8:
> >
> > if (NC_defineRemdIndices(ncid, remd_dimension, remd_indices_var_id,&
> > 1
> > Error: Missing actual argument for argument 'ismremd' at (1)
> > make[3]: *** [binrestart.o] Error 1
> > make[2]: *** [parallel] Error 2
> > make[1]: *** [parallel] Error 2
> > make: *** [install] Error 2
> >
> >
> >
> > >
> > > (b) What OS are you using? What version of compilers ("gcc
> --version")?
> > >
> >
> > lsb_release -a
> > LSB Version:
> >
> :core-4.0-amd64:core-4.0-noarch:graphics-4.0-amd64:graphics-4.0-noarch:printing-4.0-amd64:printing-4.0-noarch
> > Distributor ID: CentOS
> > Description: CentOS release 6.2 (Final)
> > Release: 6.2
> > Codename: Final
> >
> --------------------------------------------------------------------------------------------------------------------------------------
> > gcc --version
> > gcc (GCC) 4.4.6 20110731 (Red Hat 4.4.6-3)
> > Copyright (C) 2010 Free Software Foundation, Inc.
> >
> ----------------------------------------------------------------------------------------------------------------------------------------
> > mpicc -show
> > gcc -ldl -I/opt/intel/impi/4.1.0.024/intel64/include -L/opt/intel/impi/
> > 4.1.0.024/intel64/lib -Xlinker --enable-new-dtags -Xlinker -rpath
> -Xlinker
> > /opt/intel/impi/4.1.0.024/intel64/lib -Xlinker -rpath -Xlinker
> > /opt/intel/mpi-rt/4.1 -lmpi -lmpigf -lmpigi -lrt -lpthread
> >
> > Thank you so much for your time.
> >
> > Sincerely,
> > Sunita
> > _______________________________________________
> > AMBER mailing list
> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
>
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Received on Thu Oct 10 2019 - 23:00:02 PDT
