Re: [R] How to get bathymetry data using R

2016-06-11 Thread javad bayat 
Dear all;
Many thanks for your answers but I think I should explain more. What I want
to do is extracting bathymetry data from topography or DEM for a model that
uses .npt format.
Is there a package to do such a thing?
Thanks.

On Sat, Jun 11, 2016 at 8:39 PM, Roy Mendelssohn - NOAA Federal <
roy.mendelss...@noaa.gov> wrote:

> Use the “rerddap” package that accesses our ERDDAP server.  You can see
> the data available at:
>
> http://upwell.pfeg.noaa.gov/erddap
>
> In the search box type in “bathymetry”.You can subset as you want,
> using “rerddap” you get back a netcdf file that is already read into your R
> workspace,  or you can write your own 2 lines of code  (since the URL
> completely defines the request) and get the data back in any number of file
> formats.  I don’t want to get into a format war, but for large gridded
> datasets like this I much prefer netcdf files.
>
> If you have any questions at all about either the “rerddap” package
> (developed by the wonderful people at ROpenSci) or about our ERDDAP
> service, don’t hesitate to ask.
>
> -Roy
>
> > On Jun 11, 2016, at 12:30 AM, Michael Sumner  wrote:
> >
> > On Sat, 11 Jun 2016 at 15:43 javad bayat  wrote:
> >
> >> Dear R users;
> >> I am searching for a package to extract bathymetry data from topography
> map
> >> to produce the control file for CE-Qual-w2 model.
> >> Is there anyone to know how to do it?
> >> many thanks.
> >>
> >>
> > There are few things around but I highly recommend find your own data
> > source, suitable for your purpose - and reading it directly with the
> raster
> > package.  If anyone knows a reliable source I'd like to hear it.
> >
> > As a global go-to I use Etopo1, but you may want some more detailed (like
> > Gebco 2014) or a non-global one. (I can't tell where you need this for or
> > what resolution would be suitable from what you've asked though).
> >
> > (The best format when you get a choice generally is GeoTIFF, but it
> depends
> > who creates them. I tend to use the NetCDF files from Etopo).
> >
> > Raster uses rgdal for many formats, but ncdf4 exclusively for NetCDF - if
> > it's not called "*.nc" you can get around that).
> >
> > Cheers, Mike.
> >
> >
> >
> >> --
> >> Best Regards
> >> Javad Bayat
> >> M.Sc. Environment Engineering
> >> Alternative Mail: bayat...@yahoo.com
> >>
> >>[[alternative HTML version deleted]]
> >>
> >> __
> >> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> >> https://stat.ethz.ch/mailman/listinfo/r-help
> >> PLEASE do read the posting guide
> >> http://www.R-project.org/posting-guide.html
> >> and provide commented, minimal, self-contained, reproducible code.
> >>
> > --
> > Dr. Michael Sumner
> > Software and Database Engineer
> > Australian Antarctic Division
> > 203 Channel Highway
> > Kingston Tasmania 7050 Australia
> >
> >   [[alternative HTML version deleted]]
> >
> > __
> > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
>
> **
> "The contents of this message do not reflect any position of the U.S.
> Government or NOAA."
> **
> Roy Mendelssohn
> Supervisory Operations Research Analyst
> NOAA/NMFS
> Environmental Research Division
> Southwest Fisheries Science Center
> ***Note new address and phone***
> 110 Shaffer Road
> Santa Cruz, CA 95060
> Phone: (831)-420-3666
> Fax: (831) 420-3980
> e-mail: roy.mendelss...@noaa.gov www: http://www.pfeg.noaa.gov/
>
> "Old age and treachery will overcome youth and skill."
> "From those who have been given much, much will be expected"
> "the arc of the moral universe is long, but it bends toward justice" -MLK
> Jr.
>
>


-- 
Best Regards
Javad Bayat
M.Sc. Environment Engineering
Alternative Mail: bayat...@yahoo.com

[[alternative HTML version deleted]]

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.

Re: [R] How to get bathymetry data using R

2016-06-11 Thread Roy Mendelssohn - NOAA Federal 
Use the “rerddap” package that accesses our ERDDAP server.  You can see the 
data available at:

http://upwell.pfeg.noaa.gov/erddap

In the search box type in “bathymetry”.You can subset as you want, using 
“rerddap” you get back a netcdf file that is already read into your R 
workspace,  or you can write your own 2 lines of code  (since the URL 
completely defines the request) and get the data back in any number of file 
formats.  I don’t want to get into a format war, but for large gridded datasets 
like this I much prefer netcdf files.

If you have any questions at all about either the “rerddap” package  (developed 
by the wonderful people at ROpenSci) or about our ERDDAP service, don’t 
hesitate to ask.

-Roy

> On Jun 11, 2016, at 12:30 AM, Michael Sumner  wrote:
> 
> On Sat, 11 Jun 2016 at 15:43 javad bayat  wrote:
> 
>> Dear R users;
>> I am searching for a package to extract bathymetry data from topography map
>> to produce the control file for CE-Qual-w2 model.
>> Is there anyone to know how to do it?
>> many thanks.
>> 
>> 
> There are few things around but I highly recommend find your own data
> source, suitable for your purpose - and reading it directly with the raster
> package.  If anyone knows a reliable source I'd like to hear it.
> 
> As a global go-to I use Etopo1, but you may want some more detailed (like
> Gebco 2014) or a non-global one. (I can't tell where you need this for or
> what resolution would be suitable from what you've asked though).
> 
> (The best format when you get a choice generally is GeoTIFF, but it depends
> who creates them. I tend to use the NetCDF files from Etopo).
> 
> Raster uses rgdal for many formats, but ncdf4 exclusively for NetCDF - if
> it's not called "*.nc" you can get around that).
> 
> Cheers, Mike.
> 
> 
> 
>> --
>> Best Regards
>> Javad Bayat
>> M.Sc. Environment Engineering
>> Alternative Mail: bayat...@yahoo.com
>> 
>>[[alternative HTML version deleted]]
>> 
>> __
>> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
>> https://stat.ethz.ch/mailman/listinfo/r-help
>> PLEASE do read the posting guide
>> http://www.R-project.org/posting-guide.html
>> and provide commented, minimal, self-contained, reproducible code.
>> 
> -- 
> Dr. Michael Sumner
> Software and Database Engineer
> Australian Antarctic Division
> 203 Channel Highway
> Kingston Tasmania 7050 Australia
> 
>   [[alternative HTML version deleted]]
> 
> __
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.

**
"The contents of this message do not reflect any position of the U.S. 
Government or NOAA."
**
Roy Mendelssohn
Supervisory Operations Research Analyst
NOAA/NMFS
Environmental Research Division
Southwest Fisheries Science Center
***Note new address and phone***
110 Shaffer Road
Santa Cruz, CA 95060
Phone: (831)-420-3666
Fax: (831) 420-3980
e-mail: roy.mendelss...@noaa.gov www: http://www.pfeg.noaa.gov/

"Old age and treachery will overcome youth and skill."
"From those who have been given much, much will be expected" 
"the arc of the moral universe is long, but it bends toward justice" -MLK Jr.

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.

Re: [R] How to get bathymetry data using R

2016-06-11 Thread Michael Sumner 
On Sat, 11 Jun 2016 at 15:43 javad bayat  wrote:

> Dear R users;
> I am searching for a package to extract bathymetry data from topography map
> to produce the control file for CE-Qual-w2 model.
> Is there anyone to know how to do it?
> many thanks.
>
>
There are few things around but I highly recommend find your own data
source, suitable for your purpose - and reading it directly with the raster
package.  If anyone knows a reliable source I'd like to hear it.

As a global go-to I use Etopo1, but you may want some more detailed (like
Gebco 2014) or a non-global one. (I can't tell where you need this for or
what resolution would be suitable from what you've asked though).

(The best format when you get a choice generally is GeoTIFF, but it depends
who creates them. I tend to use the NetCDF files from Etopo).

Raster uses rgdal for many formats, but ncdf4 exclusively for NetCDF - if
it's not called "*.nc" you can get around that).

Cheers, Mike.



> --
> Best Regards
> Javad Bayat
> M.Sc. Environment Engineering
> Alternative Mail: bayat...@yahoo.com
>
> [[alternative HTML version deleted]]
>
> __
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
-- 
Dr. Michael Sumner
Software and Database Engineer
Australian Antarctic Division
203 Channel Highway
Kingston Tasmania 7050 Australia

[[alternative HTML version deleted]]

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.

[R] How to get bathymetry data using R

2016-06-10 Thread javad bayat 
Dear R users;
I am searching for a package to extract bathymetry data from topography map
to produce the control file for CE-Qual-w2 model.
Is there anyone to know how to do it?
many thanks.

-- 
Best Regards
Javad Bayat
M.Sc. Environment Engineering
Alternative Mail: bayat...@yahoo.com

[[alternative HTML version deleted]]

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.