[Swift-devel] workflow hung?

[Mihael Hategan]

There are multiple declarations of prt_file_m001.

Mihael

On Tue, 2007-03-06 at 14:23 -0600, Veronika V. Nefedova wrote:
> v
> 
> Registered futures:
> file am1_file_m001  F/am1_file_m001 Closed
> file rtf_file_m001  F/rtf_file_m001 Closed
> file psf_file_m001  F/psf_file_m001 Closed
> file prt_file_m001 - F/prt_file_m001 Open
> ----
> 
> At 02:19 PM 3/6/2007, Mihael Hategan wrote:
> >Excellent! Quickly type "v", "Enter" and post the output :)
> >
> >On Tue, 2007-03-06 at 14:20 -0600, Veronika V. Nefedova wrote:
> > > I haven't cancelled it -- it is still hanging out there (;
> > >
> > > Nika
> > >
> > > At 02:18 PM 3/6/2007, Veronika  V. Nefedova wrote:
> > > >/sandbox/ydeng/alamines/swift-MolDyn-free-7bputznxmlga1.log
> > > >
> > > >on wiggum
> > > >
> > > >At 02:14 PM 3/6/2007, Mihael Hategan wrote:
> > > >>What's the run id (or the log file)?
> > > >>
> > > >>Mihael
> > > >>
> > > >>On Tue, 2007-03-06 at 14:14 -0600, Veronika V. Nefedova wrote:
> > > >> > Hi,
> > > >> >
> > > >> > I am testing an extend Molecular Dynamics workflow -- and it seems 
> > to be
> > > >> > hung after the first 3 steps of the workflow. The fourth step 
> > consists of
> > > >> > 68 jobs that could/should be ran simultaneously. All these jobs 
> > have the
> > > >> > same executable, but different command line parameters. Input 
> > files for
> > > >> > these 68 jobs come from step 3 of the workflow (plus 2 additional 
> > files -
> > > >> > one common to all jobs, and one unique for every job). I see all these
> > > >> > files on my localhost present.
> > > >> > The log finishes with staging out of the results of step 3
> > > >> (successful) and
> > > >> > then nothing happens. No files are being staged in for step 4.
> > > >> > This is the snapshot of the dtm file (CHARMM is step 3, CHARMM2 is 
> > step 4)
> > > >> > - the place where it all hung:
> > > >> >
> > > >> > (stdt_m001, psf_file_m001, crd_eq_file_m001, rst_file_m001, 
> > trj_file_m001,
> > > >> > crd_min_f
> > > >> > ile_m001) = CHARMM (gaff_rft, gaff_prm, stdn, rtf_file_m001,
> > > >> prm_file_m001,
> > > >> > crd_file
> > > >> > _m001, water_file, "system:solv_m001", "stitle:m001",
> > > >> > "rtffile:parm03_gaff_all.rtf",
> > > >> >   "paramfile:parm03_gaffnb_all.prm", "gaff:m001_am1");
> > > >> > file prt_file_m001 <"solv_chg_a0.prt">;
> > > >> > file solv_chg_a0_m001_wham  <"solv_chg_a0_m001.wham">;
> > > >> > file solv_chg_a0_m001_crd  <"solv_chg_a0_m001.crd">;
> > > >> > file solv_chg_a0_m001_out <"solv_chg_a0_m001.out">;
> > > >> > file solv_chg_a0_m001_done  <"solv_chg_a0_m001_done">;
> > > >> >
> > > >> > (solv_chg_a0_m001_wham, solv_chg_a0_m001_crd, solv_chg_a0_m001_out,
> > > >> > solv_chg_a0_m001
> > > >> > _done) = CHARMM2 (standn, gaff_prm, gaff_rft, rtf_file_m001,
> > > >> prm_file_m001,
> > > >> > psf_file
> > > >> > _m001, crd_eq_file_m001, prt_file_m001, "dirname:solv_chg_a0_m001",
> > > >> > "system:solv_m00
> > > >> > 1", "stitle:m001", "rtffile:parm03_gaff_all.rtf",
> > > >> > "paramfile:parm03_gaffnb_all.prm",
> > > >> >   "gaff:m001_am1", "stage:chg", "urandseed:4880701");
> > > >> >
> > > >> > The complete dtm file is on wiggum in:
> > > >> > /sandbox/ydeng/alamines/swift-MolDyn-free.dtm. I am probably missing
> > > >> > something here, but can't see what...
> > > >> >
> > > >> > Please let me know where to look for the errors,
> > > >> >
> > > >> > Thanks,
> > > >> >
> > > >> > Nika
> > > >> >
> > > >> > _______________________________________________
> > > >> > Swift-devel mailing list
> > > >> > Swift-devel at ci.uchicago.edu
> > > >> > http://mail.ci.uchicago.edu/mailman/listinfo/swift-devel
> > > >> >
> > > >
> > > >
> > > >_______________________________________________
> > > >Swift-devel mailing list
> > > >Swift-devel at ci.uchicago.edu
> > > >http://mail.ci.uchicago.edu/mailman/listinfo/swift-devel
> > >
> > >
> 
>