Re: [netcdfgroup] Using NetCDF with OPeNDAP on MacOS Sierra (homebrew- and netCDF-dependant software)

  • To: "Capehart, William J" <William.Capehart@xxxxxxxxx>
  • Subject: Re: [netcdfgroup] Using NetCDF with OPeNDAP on MacOS Sierra (homebrew- and netCDF-dependant software)
  • From: Roy Mendelssohn - NOAA Federal <roy.mendelssohn@xxxxxxxx>
  • Date: Wed, 3 May 2017 13:31:55 -0700
Hmm - I may be wrong but i thought the ncdump for a remote file just uses curl 
to get  the .das and .dds and forms the .cdl response from those.  Have you 
tried a different server?

Say,

ncdump -h http://coastwatch.pfeg.noaa.gov/erddap/griddap/jplAquariusSSSMonthlyV4

-Roy


> On May 3, 2017, at 1:25 PM, Capehart, William J <William.Capehart@xxxxxxxxx> 
> wrote:
> 
> Roy for the curl I get the followingf
> 
> % curl -v http://test.opendap.org/opendap/data/nc/3fnoc.nc.das
> *   Trying 52.44.0.41...
> * TCP_NODELAY set
> * Connected to test.opendap.org (52.44.0.41) port 80 (#0)
>> GET /opendap/data/nc/3fnoc.nc.das HTTP/1.1
>> Host: test.opendap.org
>> User-Agent: curl/7.51.0
>> Accept: */*
>> 
> < HTTP/1.1 200 OK
> < Date: Wed, 03 May 2017 20:22:21 GMT
> < X-FRAME-OPTIONS: DENY
> < Last-Modified: Tue, 10 Jan 2006 18:32:26 GMT
> < Set-Cookie: JSESSIONID=63E4296077ED5DBE9CFE2C49B169D4ED; Path=/opendap; 
> HttpOnly
> < XDODS-Server: dods/3.2
> < XOPeNDAP-Server: bes/3.17.4, csv_handler/1.1.6, dap-server/ascii/4.1.5, 
> dap-server/usage/4.2.6, dap-server/www/4.1.5, dapreader_module/0.0.1, 
> fileout_gdal/0.10.1, fileout_json/1.0.6, fileout_netcdf/1.4.3, 
> fits_handler/1.0.18, freeform_handler/3.9.6, functions/1.1.0, 
> gateway_module/1.1.9, gdal_handler/1.0.7, hdf4_handler/3.12.3, 
> hdf5_handler/2.3.5, libdap/3.18.3, ncml_moddule/1.4.4, netcdf_handler/3.11.6, 
> w10n_handler/1.0.6, xml_data_handler/1.1.2
> < X-DAP: 3.2
> < Content-Description: dods_das
> < Content-Type: text/plain
> < Connection: close
> < Transfer-Encoding: chunked
> < 
> Attributes {
>    u {
>        String units "meter per second";
>        String long_name "Vector wind eastward component";
>        String missing_value "-32767";
>        String scale_factor "0.005";
>    }
>    v {
>        String units "meter per second";
>        String long_name "Vector wind northward component";
>        String missing_value "-32767";
>        String scale_factor "0.005";
>    }
>    lat {
>        String units "degree North";
>    }
>    lon {
>        String units "degree East";
>    }
>    time {
>        String units "hours from base_time";
>    }
>    NC_GLOBAL {
>        String base_time "88-245-00:00:00";
>        String title " FNOC UV wind components from 1988-245 to 1988-247.";
>    }
>    DODS_EXTRA {
>        String Unlimited_Dimension "time_a";
>    }
> }
> * Curl_http_done: called premature == 0
> * Closing connection 0
> 
> 
> ------------------------------------------------
> Bill Capehart <William.Capehart@xxxxxxxxx>
> Atmospheric and Environmental Sciences Program Coordinator
> Civil and Environmental Engineering
> 201 Mineral Industries Building
> South Dakota School of Mines and Technology
> 501 East St Joseph Street
> Rapid City, SD 57701-3995
> Ph: +1-605-394-1994   Mobile: +1-605-484-4692
> 
> On 5/3/17, 14:19 MDT, "Roy Mendelssohn - NOAA Federal" 
> <roy.mendelssohn@xxxxxxxx> wrote:
> 
>    More specifically,  what do you get when you give:
> 
>    curl -v http://test.opendap.org/opendap/data/nc/3fnoc.nc.das
> 
> 
>    -Roy
> 
> 
>> On May 3, 2017, at 1:01 PM, Roy Mendelssohn - NOAA Federal 
>> <roy.mendelssohn@xxxxxxxx> wrote:
>> 
>> What happens if you just do a curl to get the address but ask for the .das 
>> instead,  and see if your curl and access the site.
>> 
>> -Roy
>> 
>>> On May 3, 2017, at 12:57 PM, Capehart, William J 
>>> <William.Capehart@xxxxxxxxx> wrote:
>>> 
>>> Did that with both fink and homebrew including compiling all from source 
>>> each time.  Still no traction.  :-(
>>> 
>>> ------------------------------------------------
>>> Bill Capehart <William.Capehart@xxxxxxxxx>
>>> Atmospheric and Environmental Sciences Program Coordinator
>>> Civil and Environmental Engineering
>>> 201 Mineral Industries Building
>>> South Dakota School of Mines and Technology
>>> 501 East St Joseph Street
>>> Rapid City, SD 57701-3995
>>> Ph: +1-605-394-1994   Mobile: +1-605-484-4692
>>> 
>>> On 5/3/17, 08:06 MDT, "Roy Mendelssohn - NOAA Federal" 
>>> <roy.mendelssohn@xxxxxxxx> wrote:
>>> 
>>>  try installing the fink curl.
>>> 
>>>  -roy
>>> 
>>>> On May 3, 2017, at 6:47 AM, Capehart, William J 
>>>> <William.Capehart@xxxxxxxxx> wrote:
>>>> 
>>>> I am attaching my gist of the build
>>>> 
>>>> https://gist.github.com/anonymous/4db828fcd4384c7883a8687147ced1f7
>>>> 
>>>> The C tst is 3.make
>>>> The C++4 Test is 7.make
>>>> The Fortran Test is 11.make
>>>> The C++ test is 16.make
>>>> 
>>>> Hi Sean: And the output of my nc-config –alll
>>>> 
>>>> https://gist.github.com/733ad6330523a83cee204f9f7f34c061
>>>> 
>>>> 
>>>> The curl version on my mac (10.12.4) is the on-board version which I 
>>>> presume is what I need
>>>> 
>>>> %  curl --version
>>>> curl 7.51.0 (x86_64-apple-darwin16.0) libcurl/7.51.0 SecureTransport 
>>>> zlib/1.2.8
>>>> Protocols: dict file ftp ftps gopher http https imap imaps ldap ldaps pop3 
>>>> pop3s rtsp smb smbs smtp smtps telnet tftp 
>>>> Features: AsynchDNS IPv6 Largefile GSS-API Kerberos SPNEGO NTLM NTLM_WB 
>>>> SSL libz UnixSockets 
>>>> 
>>>> And curl -Oing my the target file produces the following
>>>> 
>>>> https://gist.github.com/wjcapehart/6f49640a075f47b1040c48917ebd631b
>>>> 
>>>> Sorry Larry:  valgrind is reporting from homebrew that is in compatible 
>>>> with MacOS post El Capitan.
>>>> 
>>>> Roy: from the client side I’m not seeing any significant redflags in the 
>>>> console logs
>>>> 
>>>> Really really out of clues at this point.  Thanks to everyone or their 
>>>> input though.
>>>> 
>>>> Bill
>>>> 
>>>> 
>>>> From: Sean Arms <sarms@xxxxxxxx>
>>>> Date: Tuesday, May 2, 2017 at 17:50 MDT
>>>> To: William Capehart <William.Capehart@xxxxxxxxx>
>>>> Cc: "netcdfgroup@xxxxxxxxxxxxxxxx" <netcdfgroup@xxxxxxxxxxxxxxxx>
>>>> Subject: Re: [netcdfgroup] Using NetCDF with OPeNDAP on MacOS Sierra 
>>>> (homebrew- and netCDF-dependant software)
>>>> 
>>>> Greetings Bill, 
>>>> 
>>>> I have a suspicion this has to do with the way curl was built. What does
>>>> 
>>>> nc-config --libs
>>>> 
>>>> give you?
>>>> 
>>>> Sean
>>>> 
>>>> 
>>>> On Sun, Apr 30, 2017 at 10:42 AM, Capehart, William J 
>>>> <William.Capehart@xxxxxxxxx> wrote:
>>>>> Hi All
>>>>> 
>>>>> I have been having a particularly time working with NetCDF with OPeNDAP 
>>>>> on my Macs (right now both are on MacOS 10.12.4).  I’ve mostly been using 
>>>>> homebrew but this also happens with NCL 6.3 and 6.4 as downloaded from 
>>>>> Earth System Grid.
>>>>> 
>>>>> When testing code using just the NetCDF fortran libraries as well as just 
>>>>> using ncdump I get segmentation faults when I try to access 
>>>>> http://test.opendap.org/opendap/data/nc/3fnoc.nc
>>>>> 
>>>>> Is anyone else having any luck with their MacOS Sierra NetCDF builds and 
>>>>> the software that leverages NetCDF?
>>>>> 
>>>>> 
>>>>> ------------------------------------------------
>>>>> Bill Capehart <William.Capehart@xxxxxxxxx>
>>>>> Atmospheric and Environmental Sciences Program Coordinator
>>>>> Civil and Environmental Engineering
>>>>> 201 Mineral Industries Building
>>>>> South Dakota School of Mines and Technology
>>>>> 501 East St Joseph Street
>>>>> Rapid City, SD 57701-3995
>>>>> Ph: +1-605-394-1994   Mobile: +1-605-484-4692
>>>>> 
>>>>> 
>>>>> _______________________________________________
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>>>>> 
>>>>> 
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>>>> 
>>> 
>>>  **********************
>>>  "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 street address***
>>>  110 McAllister Way
>>>  Santa Cruz, CA 95060
>>>  Phone: (831)-420-3666
>>>  Fax: (831) 420-3980
>>>  e-mail: Roy.Mendelssohn@xxxxxxxx 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.
>>> 
>>> 
>>> 
>> 
>> **********************
>> "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 street address***
>> 110 McAllister Way
>> Santa Cruz, CA 95060
>> Phone: (831)-420-3666
>> Fax: (831) 420-3980
>> e-mail: Roy.Mendelssohn@xxxxxxxx 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.
>> 
> 
>    **********************
>    "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 street address***
>    110 McAllister Way
>    Santa Cruz, CA 95060
>    Phone: (831)-420-3666
>    Fax: (831) 420-3980
>    e-mail: Roy.Mendelssohn@xxxxxxxx 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.
> 
> 
> 

**********************
"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 street address***
110 McAllister Way
Santa Cruz, CA 95060
Phone: (831)-420-3666
Fax: (831) 420-3980
e-mail: Roy.Mendelssohn@xxxxxxxx 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.



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