Re: [thredds] NetCDF Access failure with matlab and python

• To: Thomas Cook <tmcook@xxxxxxxx>
• Subject: Re: [thredds] NetCDF Access failure with matlab and python
• From: Sean Arms <sarms@xxxxxxxx>
• Date: Wed, 16 Jan 2019 19:31:59 -0700

Hi Tom,

So you are hitting up an opendap endpoint using all three libraries / tools
(python, matlab, and panoply)? Is this particular server publicly
accessible?

I have a bad feeling that this is due to URL encoding (or lack thereof) on
the client side and changes made in tomcat 8.5, which it looks like the
thredds-docker repository bumped up to with the 4.6.12 release.

Cheers,

Sean


On Wed, Jan 16, 2019 at 7:06 PM Thomas Cook <tmcook@xxxxxxxx> wrote:

> HI I just wanted to add some details.
>
> The functionality works when I downgraded to the docker container
> 4.6.12-SNAPSHOT
>
> My data is part of a FMRC collection.
>
> Thanks,
> Tom
>
> On Wed, Jan 16, 2019 at 4:51 PM Thomas Cook <tmcook@xxxxxxxx> wrote:
> >
> > HI
> > I just yesterday updated my thredds-docker to 4.6.12 from
> > 4.6.12-snapshot. It seems to be running fine, except I'm getting
> > errors using matlab ncread and python netcdf4.dataset. When I try to
> > access any of the multi-dimensional (time, lat, lon) variables I get
> > the following errors
> > with matlab:
> > Error using netcdflib
> > The NetCDF library encountered an error during execution of
> > 'getVarsShort' function - 'Access failure (-77)'.
> >
> > Error in netcdf.getVar (line 136)
> >     data = netcdflib(funcstr,ncid,varid,varargin{:});
> >
> > Error in internal.matlab.imagesci.nc/read (line 635)
> >                 data  = netcdf.getVar(gid, varid, ...
> >
> > Error in ncread (line 58)
> > vardata = ncObj.read(varName, varargin{:});
> >
> > Error in readUVfromTDS (line 56)
> > u=ncread(url, 'u_mean', [1 1 1], [2 2 2]);
> >
> >
> > and with python:
> > netCDF4/_netCDF4.pyx in netCDF4._netCDF4.Variable.__getitem__()
> >
> > netCDF4/_netCDF4.pyx in netCDF4._netCDF4.Variable._get()
> >
> > netCDF4/_netCDF4.pyx in netCDF4._netCDF4._ensure_nc_success()
> >
> > RuntimeError: NetCDF: Access failure
> >
> > I know that the latest docker contains netcdf 4.6, where as the
> > snapshot had 4.4. Could it be a version problem with the netCD4 python
> > and matlab libraries? I should be running the latest netcdf python
> > version and not too far behind with matlab versions.
> >
> > The weird things are that the index variables are accessible (time,
> > lat, lon etc),  and the multiple-dimension data is accessible just
> > fine using the OpenDap web interface and Panoply. So I'm a little
> > confused. I'm addressing this list since I think there might be some
> > matlab and python expertise here and I think there were some messages
> > about the Access failure error in the past.
> >
> > Thanks,
> > Tom
>
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  • [thredds] NetCDF Access failure with matlab and python
    • From: Thomas Cook
  • Re: [thredds] NetCDF Access failure with matlab and python
    • From: Thomas Cook