cdat-discussion — Climate Data Analysis Tool main mailing list

Re: [Cdat-discussion] VCS display window not popping up

[Doutriaux, C. <dou...@ll...>]

Dileepkumar,

Most likely you are using a version of vcs built with the mesa library, this is designed for system with no displays or for batch mode.

C.


From: own...@li... <own...@li...> On Behalf Of dil...@GM...
Sent: Tuesday, October 25, 2022 12:45 PM
To: cda...@li...; cdat-support <cda...@ll...>; cdat-support <cda...@ll...>
Subject: VCS display window not popping up

Dear All,
When I plot using VCS, the display is not popping up, so I cannot do the data sanity check.
I used the following command
>>>Import VCS, cdms2
>>> f=cdms2.open("MyData.nc")
>>>d=f('myVariabile')
>>>v=vcs.init()
>>>v.plot(d)
<vcs.displayplot.Dp object at 0x7f6b3a40c110>

I can save the plot as png or pdf, but the only issue with this pop-up plot window is not working.

I really appreciate any help you can provide.

Sincerely,

Dileepkumar R

Re: [Cdat-discussion] How to transpose lat, lon, time variables across a suite of netcdf files to time, lat lon?

[Doutriaux, C. <dou...@ll...>]

Hi Ken,

I would use cdscan to make all the files look like one big file (something like: cdscan -x big.xlm *.nc)

Then open that file and loop through lat/lon as you want.

C.


From: Ken Caldeira <kca...@ca...>
Sent: Tuesday, January 4, 2022 5:23 PM
To: cdat-discussion <cda...@li...>
Cc: Lei Duan <le...@ca...>
Subject: [Cdat-discussion] How to transpose lat, lon, time variables across a suite of netcdf files to time, lat lon?

Hi,

We have a problem where we need to loop by latitude and longitude and then process all time periods for that grid cell, but the database is organized so time is spread across many files.

Is there a way to transpose  a variable contained in a set of netcdf files and write it out into another set of netcdf files such that all time periods for one variable and one grid cell are contained in a single netcdf file?

Thanks in advance for your help.

Best,
Ken


Ken Caldeira
Senior Scientist (Emeritus)
Carnegie Institution for Science
Dept of Global Ecology
260 Panama St, Stanford CA 94305 USA
+1 650 704 7212 kca...@ca...<mailto:kca...@ca...>
https://dge.carnegiescience.edu/labs/caldeira-lab<https://urldefense.us/v3/__https:/dge.carnegiescience.edu/labs/caldeira-lab__;!!G2kpM7uM-TzIFchu!jUqj_e-B9eAD70kIbJiJIpdQWootFckMGpjCw3b9CC-YO41mdF0wr5InSANrfMICAPM$>

Senior Scientist, Breakthrough Energy: https://www.breakthroughenergy.org/team/bios/ken-caldeira<https://urldefense.us/v3/__https:/www.breakthroughenergy.org/team/bios/ken-caldeira__;!!G2kpM7uM-TzIFchu!jUqj_e-B9eAD70kIbJiJIpdQWootFckMGpjCw3b9CC-YO41mdF0wr5InSANrkYvF8PQ$>

https://www.reuters.com/investigates/special-report/climate-change-scientists-caldeira/<https://urldefense.us/v3/__https:/www.reuters.com/investigates/special-report/climate-change-scientists-caldeira/__;!!G2kpM7uM-TzIFchu!jUqj_e-B9eAD70kIbJiJIpdQWootFckMGpjCw3b9CC-YO41mdF0wr5InSANrPsQEbyk$>

[Cdat-discussion] How to transpose lat, lon, time variables across a suite of netcdf files to time, lat lon?

[Ken C. <kca...@ca...>]

Hi,

We have a problem where we need to loop by latitude and longitude and then
process all time periods for that grid cell, but the database is organized
so time is spread across many files.

Is there a way to transpose  a variable contained in a set of netcdf files
and write it out into another set of netcdf files such that all time
periods for one variable and one grid cell are contained in a single netcdf
file?

Thanks in advance for your help.

Best,
Ken


*Ken Caldeira*
*Senior Scientist (Emeritus)*
*Carnegie Institution for Science*
Dept of Global Ecology
260 Panama St, Stanford CA 94305 USA
+1 650 704 7212 kca...@ca...
https://dge.carnegiescience.edu/labs/caldeira-lab

Senior Scientist, Breakthrough Energy:
https://www.breakthroughenergy.org/team/bios/ken-caldeira

https://www.reuters.com/investigates/special-report/climate-change-scientists-caldeira/

[Cdat-discussion] plotting map for disorder dates

[Maryam T. <Mar...@um...>]

​Hi All,
I'm new in CDAT. I have a textfile, including a list of disorder dates(Y.M.D). Now I wanna plot average of OLR ( 'olr.day.mean.nc')  variable for these dates. 

May somebody help me with that?

Re: [Cdat-discussion] Shade the area under a curve in VCS

[Doutriaux, C. <dou...@ll...>]

I believe there’s a vcsaddons for this.
https://github.com/CDAT/vcsaddons/blob/master/tests/test_yxvsxfill_00.py


From: own...@li... <own...@li...> On Behalf Of Dileepkumar R
Sent: Tuesday, May 19, 2020 3:00 PM
To: CDA...@li...
Cc: cda...@li...
Subject: Shade the area under a curve in VCS

Dear All,

I want to shade the area under a curve in VCS (The line plot sample attached).

Thank you in advance
[cid:image002.png@01D62DF2.A0DE3120]

Dileepkumar R
Postdoctoral Researcher,
Interdisciplinary Centre for Water Research (ICWaR),
Indian Institute of Sciences, Bangalore, 560012
Mob: 9953035600, skype id: dileepkunjaai


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[Cdat-discussion] PyData Seattle

[Doutriaux, C. <dou...@ll...>]

Hello,

I highly recommend any PyData conf. See bellow for Seattle PyData info



***Please notify sav...@nu... for any promotional codes or questions

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Email us at ad...@py...<mailto:ad...@py...> if you have questions.


Hope to see you there!

Re: [Cdat-discussion] CDAT help needed

[Arulalan T <aru...@gm...>]

Dear Souleymane,

All you need to do is just cdscan all your nc files.

cdscan -x out.xml *.nc

Then you can access this out.xml file via cdms2.open command.

cdscan command might be located in your cdat installation path.

Arulalan.T

On 2 January 2017 at 03:52, Fall, Souleymane <fa...@my...>
wrote:

> Hello,
>
>
>
> First of all, Happy New Year!
>
>
>
> I have 60 netcdf files with the same dimensions.
>
> Each file represents one year of daily data (e.g. tmin_1951.nc; tmin_1952.
> nc; tmin_1953.nc …) and has the following dimensions: 365 (or 366 for
> leap years), 48, 38.
>
> I would like to combine all 60 files into a single one.
>
>
> Please note: I am still using a relatively old (and nice) version of CDAT:
> 5.2.0
>
>
> Thanks for your help on this.
>
> Best regards.
>
>
>
>
>
>
>
>
>
>
>
>
>
> *Dr. Souleymane FallAssistant ProfessorCollege of Agriculture, Environment
> and Nutrition SciencesGeospatial and Climate Change CenterTuskegee
> University201 Marie Starke Harper HallTuskegee Institute, AL 36088Office:
> 334-727-8543 <(334)%20727-8543>*
>
>
>
> *Cell: 334-552-0850 <(334)%20552-0850>fa...@my...
> <fa...@my...>*
>
>
> ------------------------------------------------------------
> ------------------
> Check out the vibrant tech community on one of the world's most
> engaging tech sites, SlashDot.org! http://sdm.link/slashdot
> _______________________________________________
> Cdat-discussion mailing list
> Cda...@li...
> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>
>


-- 
Regards,
Arulalan.T
Project Scientist - C
National Centre for Medium Range Weather Forecasting
MoES, India

My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com

[Cdat-discussion] CDAT help needed

[Fall, S. <fa...@my...>]

Hello,



First of all, Happy New Year!



I have 60 netcdf files with the same dimensions.

Each file represents one year of daily data (e.g. tmin_1951.nc; tmin_1952.nc
; tmin_1953.nc …) and has the following dimensions: 365 (or 366 for leap
years), 48, 38.

I would like to combine all 60 files into a single one.


Please note: I am still using a relatively old (and nice) version of CDAT:
5.2.0


Thanks for your help on this.

Best regards.













*Dr. Souleymane FallAssistant ProfessorCollege of Agriculture, Environment
and Nutrition SciencesGeospatial and Climate Change CenterTuskegee
University201 Marie Starke Harper HallTuskegee Institute, AL 36088Office:
334-727-8543*



*Cell: 334...@my... <fa...@my...>*

[Cdat-discussion] CDAT: Help needed!

[Fall, S. <fa...@my...>]

Hello,


First of all, Happy New Year!


I have 60 netcdf files with the same dimensions.

Each file represents one year of daily data (e.g. tmin_1951.nc; tmin_1952.nc;
tmin_1953.nc …) and has the following dimensions: 365 (or 366 for leap
years), 48, 38.

I would like to combine all 60 files into a single one.

Please note: I am still using a relatively old (and nice) version of CDAT:
5.2.0


[image: Inline image 1]

I have attached one file as an example.
Thanks for your help on this.
Best regards.











*Dr. Souleymane FallAssistant ProfessorCollege of Agriculture, Environment
and Nutrition SciencesGeospatial and Climate Change CenterTuskegee
University201 Marie Starke Harper HallTuskegee Institute, AL 36088Office:
334-727-8543*



*Cell: 334...@my... <fa...@my...>*

Re: [Cdat-discussion] CDAT question

[Jean-Yves P. <Jea...@ls...>]

On 13/02/2016 07:54, Fall, Souleymane wrote:
> I am still using the old nice CDAT!
Wow, 2009, that's old

> I have netcdf files that span 1981-2009 at annual time step.
>
> One example: a netdcf representing consecutive dry days: variable: cdd
> (29,54,94).
>
>  From this file, I want to create a new netcdf that represents the sum
> for each gridpoint. VCDAT has plenty of functions including Mean,
> Variance, StDev ..., but not Sum.
can you try
	import MV2
	cdd_sum = MV2.sum(cdd, axis=0)
This is available in a 2011 CDAT version. I have older binaries, but I 
can't get them to work easily

If your 2009 version is still based on Numeric instead of numpy, just 
use 'MV' instead of MV2

You should consider moving to a more recent version. At least the old 
1.5.1 version!

	JY
-- 

                    ```
                   (o o)
+-------------oOO--(_)--OOo-------------------------------------------+
|                         Jean-Yves Peterschmitt                      |
|   Laboratoire des Sciences du Climat et de l'Environnement (LSCE)   |
|                           UMR CEA-CNRS 1572                         |
|       LSCE/DSM - CEA Saclay - L'Orme des Merisiers - Bat 701        |
|                    91191 Gif-sur-Yvette - FRANCE                    |
+---------------------------------------------------------------------+
|                  jea...@ls...                |
|            Tel (33.1) 69.08.77.19    Fax (33.1) 69.08.77.16         |
+---------------------------------------------------------------------+

[Cdat-discussion] CDAT question

[Fall, S. <fa...@my...>]

Hi Al,

I am still using the old nice CDAT!



​

I have netcdf files that span 1981-2009 at annual time step.

One example: a netdcf representing consecutive dry days: variable: cdd
(29,54,94).

>From this file, I want to create a new netcdf that represents the sum for
each gridpoint. VCDAT has plenty of functions including Mean, Variance,
StDev ..., but not Sum.

Can you please help on this?

Thanks!












*Dr. Souleymane FallAssistant ProfessorCollege of Agriculture, Environment
and Nutrition SciencesTuskegee University201 Marie Starke Harper
HallTuskegee Institute, AL 360...@my...
<fa...@my...>*

[Cdat-discussion] Reminder about the UV-CDAT askbot

[Jean-Yves P. <Jea...@ls...>]

[ If you have received this mail through the out-of-date 
"cdat-discussion" list instead of "uvcdat-support", please subscribe to 
"uvcdat-support"!
	http://uvcdat.llnl.gov/contact.html ]

	Dear all,

I have just added some Questions & Answers to the UV-CDAT askbot, and it 
seems that this nice tool is not being used as much as it should

	http://askbot-uvcdat.llnl.gov/questions/

So please, visit it, register and start using it

There is a question about "What should go where" at the following link
	http://askbot-uvcdat.llnl.gov/question/5616/

If something does not work on this askbot, report it to
	https://github.com/UV-CDAT/askbot-devel/issues

	JY
-- 

                    ```
                   (o o)
+-------------oOO--(_)--OOo--------------------------------------+
|                      Jean-Yves Peterschmitt                    |
|   Laboratoire des Sciences du Climat et de l'Environnement     |
|           LSCE/IPSL, Laboratoire CEA-CNRS-UVSQ, UMR 8212       |
|       LSCE/DSM - CEA Saclay - L'Orme des Merisiers - Bat 701   |
|                    91191 Gif-sur-Yvette - FRANCE               |
+----------------------------------------------------------------+
|                Jea...@ls...             |
|         Tel (33.1) 69.08.77.19    Fax (33.1) 69.08.77.16       |
+----------------------------------------------------------------+

Re: [Cdat-discussion] Strange error when using cdat as non-root

[Doutriaux, C. <dou...@ll...>]

Yes it was kind of a bug. I filled a bug report for it at:

https://github.com/UV-CDAT/uvcdat/issues/1391


On 06/15/2015 09:51 AM, sudipta sarkar wrote:
Hi Charles
That indeed fixed it. Thanks for pointing this out. So this was some sort of a bug in CDAT then?


On Mon, Jun 15, 2015 at 9:59 AM, Doutriaux, Charles <dou...@ll...<mailto:dou...@ll...>> wrote:
Hi Sudipta,

>From the trace you sent in another email, I suspect you're passing a file variable.

I need to fix this (I will try this to confirm)

IN the mean time in order to fix this please try:
o3tor_anom = cdutil.ANNUALCYCLE.departures(o3tor())

Note the parenthesis after o3tor() that should convert from file variable to in memory variable.

C.





On 06/13/2015 01:30 PM, sudipta sarkar wrote:
Sorry I meant "cdutil.ANNUALCYCLE.departures" function.
What I am trying to do is quite simple:

>>> o3tor_anom = cdutil.ANNUALCYCLE.departures(o3tor) this is where I get the error.


Here is the complete error stack:

Traceback (most recent call last):

  File "<stdin>", line 1, in <module>

  File "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py", line 1303, in departures

    u=self.month_fix(slab)

  File "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py", line 1257, in month_fix

    t.toRelativeTime("months since "+str(tc))

  File "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py", line 852, in toRelativeTime

    self[i]=tmp2

  File "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py", line 1903, in __setitem__

    return apply(self._obj_.setitem,(index,numpy.ma.filled(value)))

IOError: cdunif: write access to read-only file


The complete info for the "o3tor" variable is given below, just in case you think there is something wrong with the variable:


o3tor.info<http://o3tor.info>()

*** Description of Slab variable_2 ***

id: variable_2

shape: (123, 120, 288)

filename: /Users/ssarkar1/data/RP_work/TOC/Aura_MLS_TropO3_Col_monthly.nc

missing_value: [999999]

comments:

grid_name: grid_120x288

grid_type: None

time_statistic:

long_name:

units:

Grid has Python id 0x11376a790.

Gridtype: generic

Grid shape: (120, 288)

Order: yx

** Dimension 1 **

   id: time

   Designated a time axis.

   units:  months since 2004-10

   Length: 123

   First:  0

   Last:   122

   Other axis attributes:

      calendar: gregorian

      axis: T

   Python id:  0x11376a6d0

** Dimension 2 **

   id: latitude

   Designated a latitude axis.

   units:  degrees_north

   Length: 120

   First:  -59.5

   Last:   59.5

   Other axis attributes:

      axis: Y

   Python id:  0x11375ac50

** Dimension 3 **

   id: longitude

   Designated a longitude axis.

   units:  degrees_east

   Length: 288

   First:  -179.375

   Last:   179.375

   Other axis attributes:

      topology: circular

      modulo: [ 360.]

      axis: X

   Python id:  0x11376a610

*** End of description for variable_2 ***


BTW this same command works in another setup where I have the cat-lite with complete anaconda stack of tools. But gives me this error when trying to run from CDAT.

On Sat, Jun 13, 2015 at 2:56 PM, Rajeev S Kurup <raj...@gm...<mailto:raj...@gm...>> wrote:
Hi Sudipta Sarkar;

That error message does not seem to be coming from cdutil.ANNUALCYCLE.departures function.
There is no cdutil.CLIMATOLOGY.departures function too

Could you post the whole error message  or the script part where you get this error ?

On Sun, Jun 14, 2015 at 12:05 AM, sudipta sarkar <sdp...@gm...<mailto:sdp...@gm...>> wrote:
Hi Arulalan
I am not trying to write to any file. All I am trying to do is to call the "cdutil.CLIMATOLOGY.departures" function and I get this error. I am not sure if the function internally tries to write to a location that is not accessible as a non root.


On Sat, Jun 13, 2015 at 12:16 PM, Arulalan T <aru...@gm...<mailto:aru...@gm...>> wrote:
Dear Sudipta Sarkar,

On 13 June 2015 at 20:25, sudipta sarkar <sdp...@gm...<mailto:sdp...@gm...>> wrote:
Hi All,
I installed CDAT in its usual location under /usr/local as root but now I am trying to use CDAT as a non-root user. When I do that I get this error when trying to use the command "cdutil.ANNUALCYCLE.departures". The error that I get is:

"IOError: cdunif: write access to read-only file"

You can access CDAT as normal user. In fact it will be accessible by all users if it has installed in the path /usr/local.

Your IO error says that you do not have write access.
I guess you are trying to write the variable to netcdf out file.
You make sure that you have write access in location (directory) where the outfile is specified.

Also I would suggest you to join & post queries in UV-CDAT mailing list.
http://uvcdat.llnl.gov/mailing-list.html




So does this error have anything to do with user privilege and access issues? Can I only run CDAT as root?

If this has nothing to do with access permission issues then please let me know what may be causing this?

Thanks


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--
Regards,
Arulalan.T
Project Associate
Centre for Atmospheric Sciences
Indian Institute of Technology Delhi

My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com


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--
Rajeev S Kurup
Research Scholar
Center for Atmospheric Sciences
IIT Delhi
Hauz Khas
New Delhi
email; raj...@gm...<mailto:raj...@gm...>
Ph: 08802650783

Re: [Cdat-discussion] Strange error when using cdat as non-root

[sudipta s. <sdp...@gm...>]

Hi Charles
That indeed fixed it. Thanks for pointing this out. So this was some sort
of a bug in CDAT then?


On Mon, Jun 15, 2015 at 9:59 AM, Doutriaux, Charles <dou...@ll...>
wrote:

>  Hi Sudipta,
>
> From the trace you sent in another email, I suspect you're passing a file
> variable.
>
> I need to fix this (I will try this to confirm)
>
> IN the mean time in order to fix this please try:
>
>
> *o3tor_anom = cdutil.ANNUALCYCLE.departures(o3tor()) *Note the
> parenthesis after o3tor() that should convert from file variable to in
> memory variable.
>
> C.
>
>
>
>
>
> On 06/13/2015 01:30 PM, sudipta sarkar wrote:
>
> Sorry I meant "cdutil.ANNUALCYCLE.departures" function.
> What I am trying to do is quite simple:
>
> *>>> o3tor_anom = cdutil.ANNUALCYCLE.departures(o3tor) this is where I get
> the error. *
>
>
>  Here is the complete error stack:
>
> Traceback (most recent call last):
>
>   File "<stdin>", line 1, in <module>
>
>   File
> "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py",
> line 1303, in departures
>
>     u=self.month_fix(slab)
>
>   File
> "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py",
> line 1257, in month_fix
>
>     t.toRelativeTime("months since "+str(tc))
>
>   File
> "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py",
> line 852, in toRelativeTime
>
>     self[i]=tmp2
>
>   File
> "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py",
> line 1903, in __setitem__
>
>     return apply(self._obj_.setitem,(index,numpy.ma.filled(value)))
>
> IOError: cdunif: write access to read-only file
>
>
>  The complete info for the "o3tor" variable is given below, just in case
> you think there is something wrong with the variable:
>
>
>  o3tor.info()
>
> *** Description of Slab variable_2 ***
>
> id: variable_2
>
> shape: (123, 120, 288)
>
> filename: /Users/ssarkar1/data/RP_work/TOC/Aura_MLS_TropO3_Col_monthly.nc
>
> missing_value: [999999]
>
> comments:
>
> grid_name: grid_120x288
>
> grid_type: None
>
> time_statistic:
>
> long_name:
>
> units:
>
> Grid has Python id 0x11376a790.
>
> Gridtype: generic
>
> Grid shape: (120, 288)
>
> Order: yx
>
> ** Dimension 1 **
>
>    id: time
>
>    Designated a time axis.
>
>    units:  months since 2004-10
>
>    Length: 123
>
>    First:  0
>
>    Last:   122
>
>    Other axis attributes:
>
>       calendar: gregorian
>
>       axis: T
>
>    Python id:  0x11376a6d0
>
> ** Dimension 2 **
>
>    id: latitude
>
>    Designated a latitude axis.
>
>    units:  degrees_north
>
>    Length: 120
>
>    First:  -59.5
>
>    Last:   59.5
>
>    Other axis attributes:
>
>       axis: Y
>
>    Python id:  0x11375ac50
>
> ** Dimension 3 **
>
>    id: longitude
>
>    Designated a longitude axis.
>
>    units:  degrees_east
>
>    Length: 288
>
>    First:  -179.375
>
>    Last:   179.375
>
>    Other axis attributes:
>
>       topology: circular
>
>       modulo: [ 360.]
>
>       axis: X
>
>    Python id:  0x11376a610
>
> *** End of description for variable_2 ***
>
>
>  BTW this same command works in another setup where I have the cat-lite
> with complete anaconda stack of tools. But gives me this error when trying
> to run from CDAT.
>
> On Sat, Jun 13, 2015 at 2:56 PM, Rajeev S Kurup <raj...@gm...>
> wrote:
>
>>   Hi Sudipta Sarkar;
>>
>>  That error message does not seem to be coming from
>> cdutil.ANNUALCYCLE.departures function.
>>  There is no cdutil.CLIMATOLOGY.departures function too
>>
>>  Could you post the whole error message  or the script part where you get
>> this error ?
>>
>> On Sun, Jun 14, 2015 at 12:05 AM, sudipta sarkar <sdp...@gm...>
>> wrote:
>>
>>> Hi Arulalan
>>> I am not trying to write to any file. All I am trying to do is to call
>>> the "cdutil.CLIMATOLOGY.departures" function and I get this error. I am not
>>> sure if the function internally tries to write to a location that is not
>>> accessible as a non root.
>>>
>>>
>>> On Sat, Jun 13, 2015 at 12:16 PM, Arulalan T <aru...@gm...>
>>> wrote:
>>>
>>>> Dear Sudipta Sarkar,
>>>>
>>>> On 13 June 2015 at 20:25, sudipta sarkar <sdp...@gm...> wrote:
>>>>
>>>>> Hi All,
>>>>> I installed CDAT in its usual location under /usr/local as root but
>>>>> now I am trying to use CDAT as a non-root user. When I do that I get this
>>>>> error when trying to use the command "cdutil.ANNUALCYCLE.departures".
>>>>> The error that I get is:
>>>>>
>>>>>  "IOError: cdunif: write access to read-only file"
>>>>>
>>>>
>>>>  You can access CDAT as normal user. In fact it will be accessible by
>>>> all users if it has installed in the path /usr/local.
>>>>
>>>>  Your IO error says that you do not have write access.
>>>>  I guess you are trying to write the variable to netcdf out file.
>>>>  You make sure that you have write access in location (directory)
>>>> where the outfile is specified.
>>>>
>>>>  Also I would suggest you to join & post queries in UV-CDAT mailing
>>>> list.
>>>> http://uvcdat.llnl.gov/mailing-list.html
>>>>
>>>>
>>>>
>>>>
>>>>>
>>>>>  So does this error have anything to do with user privilege and
>>>>> access issues? Can I only run CDAT as root?
>>>>>
>>>>>  If this has nothing to do with access permission issues then please
>>>>> let me know what may be causing this?
>>>>>
>>>>>  Thanks
>>>>>
>>>>>
>>>>>
>>>>> ------------------------------------------------------------------------------
>>>>>
>>>>> _______________________________________________
>>>>> Cdat-discussion mailing list
>>>>> Cda...@li...
>>>>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> Regards,
>>>> Arulalan.T
>>>> Project Associate
>>>> Centre for Atmospheric Sciences
>>>> Indian Institute of Technology Delhi
>>>>
>>>> My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com
>>>>
>>>
>>>
>>>
>>> ------------------------------------------------------------------------------
>>>
>>> _______________________________________________
>>> Cdat-discussion mailing list
>>> Cda...@li...
>>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>>
>>>
>>
>>
>> --
>>   Rajeev S Kurup
>> Research Scholar
>> Center for Atmospheric Sciences
>> IIT Delhi
>> Hauz Khas
>> New Delhi
>> email; raj...@gm...
>> Ph: 08802650783
>>
>
>
>

Re: [Cdat-discussion] Strange error when using cdat as non-root

[Doutriaux, C. <dou...@ll...>]

Hi Sudipta,

>From the trace you sent in another email, I suspect you're passing a file variable.

I need to fix this (I will try this to confirm)

IN the mean time in order to fix this please try:
o3tor_anom = cdutil.ANNUALCYCLE.departures(o3tor())

Note the parenthesis after o3tor() that should convert from file variable to in memory variable.

C.




On 06/13/2015 01:30 PM, sudipta sarkar wrote:
Sorry I meant "cdutil.ANNUALCYCLE.departures" function.
What I am trying to do is quite simple:

>>> o3tor_anom = cdutil.ANNUALCYCLE.departures(o3tor) this is where I get the error.


Here is the complete error stack:

Traceback (most recent call last):

  File "<stdin>", line 1, in <module>

  File "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py", line 1303, in departures

    u=self.month_fix(slab)

  File "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py", line 1257, in month_fix

    t.toRelativeTime("months since "+str(tc))

  File "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py", line 852, in toRelativeTime

    self[i]=tmp2

  File "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py", line 1903, in __setitem__

    return apply(self._obj_.setitem,(index,numpy.ma.filled(value)))

IOError: cdunif: write access to read-only file


The complete info for the "o3tor" variable is given below, just in case you think there is something wrong with the variable:


o3tor.info<http://o3tor.info>()

*** Description of Slab variable_2 ***

id: variable_2

shape: (123, 120, 288)

filename: /Users/ssarkar1/data/RP_work/TOC/Aura_MLS_TropO3_Col_monthly.nc

missing_value: [999999]

comments:

grid_name: grid_120x288

grid_type: None

time_statistic:

long_name:

units:

Grid has Python id 0x11376a790.

Gridtype: generic

Grid shape: (120, 288)

Order: yx

** Dimension 1 **

   id: time

   Designated a time axis.

   units:  months since 2004-10

   Length: 123

   First:  0

   Last:   122

   Other axis attributes:

      calendar: gregorian

      axis: T

   Python id:  0x11376a6d0

** Dimension 2 **

   id: latitude

   Designated a latitude axis.

   units:  degrees_north

   Length: 120

   First:  -59.5

   Last:   59.5

   Other axis attributes:

      axis: Y

   Python id:  0x11375ac50

** Dimension 3 **

   id: longitude

   Designated a longitude axis.

   units:  degrees_east

   Length: 288

   First:  -179.375

   Last:   179.375

   Other axis attributes:

      topology: circular

      modulo: [ 360.]

      axis: X

   Python id:  0x11376a610

*** End of description for variable_2 ***


BTW this same command works in another setup where I have the cat-lite with complete anaconda stack of tools. But gives me this error when trying to run from CDAT.

On Sat, Jun 13, 2015 at 2:56 PM, Rajeev S Kurup <raj...@gm...<mailto:raj...@gm...>> wrote:
Hi Sudipta Sarkar;

That error message does not seem to be coming from cdutil.ANNUALCYCLE.departures function.
There is no cdutil.CLIMATOLOGY.departures function too

Could you post the whole error message  or the script part where you get this error ?

On Sun, Jun 14, 2015 at 12:05 AM, sudipta sarkar <sdp...@gm...<mailto:sdp...@gm...>> wrote:
Hi Arulalan
I am not trying to write to any file. All I am trying to do is to call the "cdutil.CLIMATOLOGY.departures" function and I get this error. I am not sure if the function internally tries to write to a location that is not accessible as a non root.


On Sat, Jun 13, 2015 at 12:16 PM, Arulalan T <aru...@gm...<mailto:aru...@gm...>> wrote:
Dear Sudipta Sarkar,

On 13 June 2015 at 20:25, sudipta sarkar <sdp...@gm...<mailto:sdp...@gm...>> wrote:
Hi All,
I installed CDAT in its usual location under /usr/local as root but now I am trying to use CDAT as a non-root user. When I do that I get this error when trying to use the command "cdutil.ANNUALCYCLE.departures". The error that I get is:

"IOError: cdunif: write access to read-only file"

You can access CDAT as normal user. In fact it will be accessible by all users if it has installed in the path /usr/local.

Your IO error says that you do not have write access.
I guess you are trying to write the variable to netcdf out file.
You make sure that you have write access in location (directory) where the outfile is specified.

Also I would suggest you to join & post queries in UV-CDAT mailing list.
http://uvcdat.llnl.gov/mailing-list.html




So does this error have anything to do with user privilege and access issues? Can I only run CDAT as root?

If this has nothing to do with access permission issues then please let me know what may be causing this?

Thanks


------------------------------------------------------------------------------

_______________________________________________
Cdat-discussion mailing list
Cda...@li...<mailto:Cda...@li...>
https://lists.sourceforge.net/lists/listinfo/cdat-discussion




--
Regards,
Arulalan.T
Project Associate
Centre for Atmospheric Sciences
Indian Institute of Technology Delhi

My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com


------------------------------------------------------------------------------

_______________________________________________
Cdat-discussion mailing list
Cda...@li...<mailto:Cda...@li...>
https://lists.sourceforge.net/lists/listinfo/cdat-discussion




--
Rajeev S Kurup
Research Scholar
Center for Atmospheric Sciences
IIT Delhi
Hauz Khas
New Delhi
email; raj...@gm...<mailto:raj...@gm...>
Ph: 08802650783

Re: [Cdat-discussion] Strange error when using cdat as non-root

[Hayes, W. <bh...@ca...>]

FYI, I tried your command
   >>> x = cdutil.ANNUALCYCLE.departures(v)
and it works for me using cdat
in UVCDAT 2.2.0 under Ubuntu 2.2.0
and also UVCDAT 1.5.0-rc5 under Ubuntu 13.10.

Bill Hayes

On Sat, Jun 13, 2015 at 1:28 PM, sudipta sarkar <sdp...@gm...>
wrote:

> Sorry I meant "cdutil.ANNUALCYCLE.departures" function.
> What I am trying to do is quite simple:
>
> *>>> o3tor_anom = cdutil.ANNUALCYCLE.departures(o3tor) this is where I get
> the error. *
>
>
> Here is the complete error stack:
>
> Traceback (most recent call last):
>
>   File "<stdin>", line 1, in <module>
>
>   File
> "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py",
> line 1303, in departures
>
>     u=self.month_fix(slab)
>
>   File
> "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py",
> line 1257, in month_fix
>
>     t.toRelativeTime("months since "+str(tc))
>
>   File
> "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py",
> line 852, in toRelativeTime
>
>     self[i]=tmp2
>
>   File
> "/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py",
> line 1903, in __setitem__
>
>     return apply(self._obj_.setitem,(index,numpy.ma.filled(value)))
>
> IOError: cdunif: write access to read-only file
>
>
> The complete info for the "o3tor" variable is given below, just in case
> you think there is something wrong with the variable:
>
>
> o3tor.info()
>
> *** Description of Slab variable_2 ***
>
> id: variable_2
>
> shape: (123, 120, 288)
>
> filename: /Users/ssarkar1/data/RP_work/TOC/Aura_MLS_TropO3_Col_monthly.nc
>
> missing_value: [999999]
>
> comments:
>
> grid_name: grid_120x288
>
> grid_type: None
>
> time_statistic:
>
> long_name:
>
> units:
>
> Grid has Python id 0x11376a790.
>
> Gridtype: generic
>
> Grid shape: (120, 288)
>
> Order: yx
>
> ** Dimension 1 **
>
>    id: time
>
>    Designated a time axis.
>
>    units:  months since 2004-10
>
>    Length: 123
>
>    First:  0
>
>    Last:   122
>
>    Other axis attributes:
>
>       calendar: gregorian
>
>       axis: T
>
>    Python id:  0x11376a6d0
>
> ** Dimension 2 **
>
>    id: latitude
>
>    Designated a latitude axis.
>
>    units:  degrees_north
>
>    Length: 120
>
>    First:  -59.5
>
>    Last:   59.5
>
>    Other axis attributes:
>
>       axis: Y
>
>    Python id:  0x11375ac50
>
> ** Dimension 3 **
>
>    id: longitude
>
>    Designated a longitude axis.
>
>    units:  degrees_east
>
>    Length: 288
>
>    First:  -179.375
>
>    Last:   179.375
>
>    Other axis attributes:
>
>       topology: circular
>
>       modulo: [ 360.]
>
>       axis: X
>
>    Python id:  0x11376a610
>
> *** End of description for variable_2 ***
>
>
> BTW this same command works in another setup where I have the cat-lite
> with complete anaconda stack of tools. But gives me this error when trying
> to run from CDAT.
>
> On Sat, Jun 13, 2015 at 2:56 PM, Rajeev S Kurup <raj...@gm...>
> wrote:
>
>> Hi Sudipta Sarkar;
>>
>> That error message does not seem to be coming from
>> cdutil.ANNUALCYCLE.departures function.
>> There is no cdutil.CLIMATOLOGY.departures function too
>>
>> Could you post the whole error message  or the script part where you get
>> this error ?
>>
>> On Sun, Jun 14, 2015 at 12:05 AM, sudipta sarkar <sdp...@gm...>
>> wrote:
>>
>>> Hi Arulalan
>>> I am not trying to write to any file. All I am trying to do is to call
>>> the "cdutil.CLIMATOLOGY.departures" function and I get this error. I am not
>>> sure if the function internally tries to write to a location that is not
>>> accessible as a non root.
>>>
>>>
>>> On Sat, Jun 13, 2015 at 12:16 PM, Arulalan T <aru...@gm...>
>>> wrote:
>>>
>>>> Dear Sudipta Sarkar,
>>>>
>>>> On 13 June 2015 at 20:25, sudipta sarkar <sdp...@gm...> wrote:
>>>>
>>>>> Hi All,
>>>>> I installed CDAT in its usual location under /usr/local as root but
>>>>> now I am trying to use CDAT as a non-root user. When I do that I get this
>>>>> error when trying to use the command "cdutil.ANNUALCYCLE.departures".
>>>>> The error that I get is:
>>>>>
>>>>> "IOError: cdunif: write access to read-only file"
>>>>>
>>>>
>>>> You can access CDAT as normal user. In fact it will be accessible by
>>>> all users if it has installed in the path /usr/local.
>>>>
>>>> Your IO error says that you do not have write access.
>>>> I guess you are trying to write the variable to netcdf out file.
>>>> You make sure that you have write access in location (directory) where
>>>> the outfile is specified.
>>>>
>>>> Also I would suggest you to join & post queries in UV-CDAT mailing list.
>>>> http://uvcdat.llnl.gov/mailing-list.html
>>>>
>>>>
>>>>
>>>>
>>>>>
>>>>> So does this error have anything to do with user privilege and access
>>>>> issues? Can I only run CDAT as root?
>>>>>
>>>>> If this has nothing to do with access permission issues then please
>>>>> let me know what may be causing this?
>>>>>
>>>>> Thanks
>>>>>
>>>>>
>>>>>
>>>>> ------------------------------------------------------------------------------
>>>>>
>>>>> _______________________________________________
>>>>> Cdat-discussion mailing list
>>>>> Cda...@li...
>>>>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> Regards,
>>>> Arulalan.T
>>>> Project Associate
>>>> Centre for Atmospheric Sciences
>>>> Indian Institute of Technology Delhi
>>>>
>>>> My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com
>>>>
>>>
>>>
>>>
>>> ------------------------------------------------------------------------------
>>>
>>> _______________________________________________
>>> Cdat-discussion mailing list
>>> Cda...@li...
>>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>>
>>>
>>
>>
>> --
>> Rajeev S Kurup
>> Research Scholar
>> Center for Atmospheric Sciences
>> IIT Delhi
>> Hauz Khas
>> New Delhi
>> email; raj...@gm...
>> Ph: 08802650783
>>
>
>
>
> ------------------------------------------------------------------------------
>
> _______________________________________________
> Cdat-discussion mailing list
> Cda...@li...
> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>
>

Re: [Cdat-discussion] Strange error when using cdat as non-root

[sudipta s. <sdp...@gm...>]

Sorry I meant "cdutil.ANNUALCYCLE.departures" function.
What I am trying to do is quite simple:

*>>> o3tor_anom = cdutil.ANNUALCYCLE.departures(o3tor) this is where I get
the error. *


Here is the complete error stack:

Traceback (most recent call last):

  File "<stdin>", line 1, in <module>

  File
"/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py",
line 1303, in departures

    u=self.month_fix(slab)

  File
"/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdutil/times.py",
line 1257, in month_fix

    t.toRelativeTime("months since "+str(tc))

  File
"/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py",
line 852, in toRelativeTime

    self[i]=tmp2

  File
"/usr/local/uvcdat/2.2.0/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/cdms2/axis.py",
line 1903, in __setitem__

    return apply(self._obj_.setitem,(index,numpy.ma.filled(value)))

IOError: cdunif: write access to read-only file


The complete info for the "o3tor" variable is given below, just in case you
think there is something wrong with the variable:


o3tor.info()

*** Description of Slab variable_2 ***

id: variable_2

shape: (123, 120, 288)

filename: /Users/ssarkar1/data/RP_work/TOC/Aura_MLS_TropO3_Col_monthly.nc

missing_value: [999999]

comments:

grid_name: grid_120x288

grid_type: None

time_statistic:

long_name:

units:

Grid has Python id 0x11376a790.

Gridtype: generic

Grid shape: (120, 288)

Order: yx

** Dimension 1 **

   id: time

   Designated a time axis.

   units:  months since 2004-10

   Length: 123

   First:  0

   Last:   122

   Other axis attributes:

      calendar: gregorian

      axis: T

   Python id:  0x11376a6d0

** Dimension 2 **

   id: latitude

   Designated a latitude axis.

   units:  degrees_north

   Length: 120

   First:  -59.5

   Last:   59.5

   Other axis attributes:

      axis: Y

   Python id:  0x11375ac50

** Dimension 3 **

   id: longitude

   Designated a longitude axis.

   units:  degrees_east

   Length: 288

   First:  -179.375

   Last:   179.375

   Other axis attributes:

      topology: circular

      modulo: [ 360.]

      axis: X

   Python id:  0x11376a610

*** End of description for variable_2 ***


BTW this same command works in another setup where I have the cat-lite with
complete anaconda stack of tools. But gives me this error when trying to
run from CDAT.

On Sat, Jun 13, 2015 at 2:56 PM, Rajeev S Kurup <raj...@gm...>
wrote:

> Hi Sudipta Sarkar;
>
> That error message does not seem to be coming from
> cdutil.ANNUALCYCLE.departures function.
> There is no cdutil.CLIMATOLOGY.departures function too
>
> Could you post the whole error message  or the script part where you get
> this error ?
>
> On Sun, Jun 14, 2015 at 12:05 AM, sudipta sarkar <sdp...@gm...>
> wrote:
>
>> Hi Arulalan
>> I am not trying to write to any file. All I am trying to do is to call
>> the "cdutil.CLIMATOLOGY.departures" function and I get this error. I am not
>> sure if the function internally tries to write to a location that is not
>> accessible as a non root.
>>
>>
>> On Sat, Jun 13, 2015 at 12:16 PM, Arulalan T <aru...@gm...> wrote:
>>
>>> Dear Sudipta Sarkar,
>>>
>>> On 13 June 2015 at 20:25, sudipta sarkar <sdp...@gm...> wrote:
>>>
>>>> Hi All,
>>>> I installed CDAT in its usual location under /usr/local as root but now
>>>> I am trying to use CDAT as a non-root user. When I do that I get this error
>>>> when trying to use the command "cdutil.ANNUALCYCLE.departures". The
>>>> error that I get is:
>>>>
>>>> "IOError: cdunif: write access to read-only file"
>>>>
>>>
>>> You can access CDAT as normal user. In fact it will be accessible by all
>>> users if it has installed in the path /usr/local.
>>>
>>> Your IO error says that you do not have write access.
>>> I guess you are trying to write the variable to netcdf out file.
>>> You make sure that you have write access in location (directory) where
>>> the outfile is specified.
>>>
>>> Also I would suggest you to join & post queries in UV-CDAT mailing list.
>>> http://uvcdat.llnl.gov/mailing-list.html
>>>
>>>
>>>
>>>
>>>>
>>>> So does this error have anything to do with user privilege and access
>>>> issues? Can I only run CDAT as root?
>>>>
>>>> If this has nothing to do with access permission issues then please let
>>>> me know what may be causing this?
>>>>
>>>> Thanks
>>>>
>>>>
>>>>
>>>> ------------------------------------------------------------------------------
>>>>
>>>> _______________________________________________
>>>> Cdat-discussion mailing list
>>>> Cda...@li...
>>>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>>>
>>>>
>>>
>>>
>>> --
>>> Regards,
>>> Arulalan.T
>>> Project Associate
>>> Centre for Atmospheric Sciences
>>> Indian Institute of Technology Delhi
>>>
>>> My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com
>>>
>>
>>
>>
>> ------------------------------------------------------------------------------
>>
>> _______________________________________________
>> Cdat-discussion mailing list
>> Cda...@li...
>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>
>>
>
>
> --
> Rajeev S Kurup
> Research Scholar
> Center for Atmospheric Sciences
> IIT Delhi
> Hauz Khas
> New Delhi
> email; raj...@gm...
> Ph: 08802650783
>

Re: [Cdat-discussion] Strange error when using cdat as non-root

[Rajeev S K. <raj...@gm...>]

Hi Sudipta Sarkar;

That error message does not seem to be coming from
cdutil.ANNUALCYCLE.departures function.
There is no cdutil.CLIMATOLOGY.departures function too

Could you post the whole error message  or the script part where you get
this error ?

On Sun, Jun 14, 2015 at 12:05 AM, sudipta sarkar <sdp...@gm...>
wrote:

> Hi Arulalan
> I am not trying to write to any file. All I am trying to do is to call the
> "cdutil.CLIMATOLOGY.departures" function and I get this error. I am not
> sure if the function internally tries to write to a location that is not
> accessible as a non root.
>
>
> On Sat, Jun 13, 2015 at 12:16 PM, Arulalan T <aru...@gm...> wrote:
>
>> Dear Sudipta Sarkar,
>>
>> On 13 June 2015 at 20:25, sudipta sarkar <sdp...@gm...> wrote:
>>
>>> Hi All,
>>> I installed CDAT in its usual location under /usr/local as root but now
>>> I am trying to use CDAT as a non-root user. When I do that I get this error
>>> when trying to use the command "cdutil.ANNUALCYCLE.departures". The
>>> error that I get is:
>>>
>>> "IOError: cdunif: write access to read-only file"
>>>
>>
>> You can access CDAT as normal user. In fact it will be accessible by all
>> users if it has installed in the path /usr/local.
>>
>> Your IO error says that you do not have write access.
>> I guess you are trying to write the variable to netcdf out file.
>> You make sure that you have write access in location (directory) where
>> the outfile is specified.
>>
>> Also I would suggest you to join & post queries in UV-CDAT mailing list.
>> http://uvcdat.llnl.gov/mailing-list.html
>>
>>
>>
>>
>>>
>>> So does this error have anything to do with user privilege and access
>>> issues? Can I only run CDAT as root?
>>>
>>> If this has nothing to do with access permission issues then please let
>>> me know what may be causing this?
>>>
>>> Thanks
>>>
>>>
>>>
>>> ------------------------------------------------------------------------------
>>>
>>> _______________________________________________
>>> Cdat-discussion mailing list
>>> Cda...@li...
>>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>>
>>>
>>
>>
>> --
>> Regards,
>> Arulalan.T
>> Project Associate
>> Centre for Atmospheric Sciences
>> Indian Institute of Technology Delhi
>>
>> My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com
>>
>
>
>
> ------------------------------------------------------------------------------
>
> _______________________________________________
> Cdat-discussion mailing list
> Cda...@li...
> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>
>


-- 
Rajeev S Kurup
Research Scholar
Center for Atmospheric Sciences
IIT Delhi
Hauz Khas
New Delhi
email; raj...@gm...
Ph: 08802650783

Re: [Cdat-discussion] Strange error when using cdat as non-root

[sudipta s. <sdp...@gm...>]

Hi Arulalan
I am not trying to write to any file. All I am trying to do is to call the
"cdutil.CLIMATOLOGY.departures" function and I get this error. I am not
sure if the function internally tries to write to a location that is not
accessible as a non root.


On Sat, Jun 13, 2015 at 12:16 PM, Arulalan T <aru...@gm...> wrote:

> Dear Sudipta Sarkar,
>
> On 13 June 2015 at 20:25, sudipta sarkar <sdp...@gm...> wrote:
>
>> Hi All,
>> I installed CDAT in its usual location under /usr/local as root but now I
>> am trying to use CDAT as a non-root user. When I do that I get this error
>> when trying to use the command "cdutil.ANNUALCYCLE.departures". The
>> error that I get is:
>>
>> "IOError: cdunif: write access to read-only file"
>>
>
> You can access CDAT as normal user. In fact it will be accessible by all
> users if it has installed in the path /usr/local.
>
> Your IO error says that you do not have write access.
> I guess you are trying to write the variable to netcdf out file.
> You make sure that you have write access in location (directory) where the
> outfile is specified.
>
> Also I would suggest you to join & post queries in UV-CDAT mailing list.
> http://uvcdat.llnl.gov/mailing-list.html
>
>
>
>
>>
>> So does this error have anything to do with user privilege and access
>> issues? Can I only run CDAT as root?
>>
>> If this has nothing to do with access permission issues then please let
>> me know what may be causing this?
>>
>> Thanks
>>
>>
>>
>> ------------------------------------------------------------------------------
>>
>> _______________________________________________
>> Cdat-discussion mailing list
>> Cda...@li...
>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>
>>
>
>
> --
> Regards,
> Arulalan.T
> Project Associate
> Centre for Atmospheric Sciences
> Indian Institute of Technology Delhi
>
> My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com
>

Re: [Cdat-discussion] Strange error when using cdat as non-root

[Arulalan T <aru...@gm...>]

Dear Sudipta Sarkar,

On 13 June 2015 at 20:25, sudipta sarkar <sdp...@gm...> wrote:

> Hi All,
> I installed CDAT in its usual location under /usr/local as root but now I
> am trying to use CDAT as a non-root user. When I do that I get this error
> when trying to use the command "cdutil.ANNUALCYCLE.departures". The error
> that I get is:
>
> "IOError: cdunif: write access to read-only file"
>

You can access CDAT as normal user. In fact it will be accessible by all
users if it has installed in the path /usr/local.

Your IO error says that you do not have write access.
I guess you are trying to write the variable to netcdf out file.
You make sure that you have write access in location (directory) where the
outfile is specified.

Also I would suggest you to join & post queries in UV-CDAT mailing list.
http://uvcdat.llnl.gov/mailing-list.html




>
> So does this error have anything to do with user privilege and access
> issues? Can I only run CDAT as root?
>
> If this has nothing to do with access permission issues then please let me
> know what may be causing this?
>
> Thanks
>
>
>
> ------------------------------------------------------------------------------
>
> _______________________________________________
> Cdat-discussion mailing list
> Cda...@li...
> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>
>


-- 
Regards,
Arulalan.T
Project Associate
Centre for Atmospheric Sciences
Indian Institute of Technology Delhi

My Experiments In Gnu/Linux !  : http://tuxcoder.wordpress.com

[Cdat-discussion] Strange error when using cdat as non-root

[sudipta s. <sdp...@gm...>]

Hi All,
I installed CDAT in its usual location under /usr/local as root but now I
am trying to use CDAT as a non-root user. When I do that I get this error
when trying to use the command "cdutil.ANNUALCYCLE.departures". The error
that I get is:

"IOError: cdunif: write access to read-only file"

So does this error have anything to do with user privilege and access
issues? Can I only run CDAT as root?

If this has nothing to do with access permission issues then please let me
know what may be causing this?

Thanks

Re: [Cdat-discussion] Define time axis with cdtime?

[sudipta s. <sdp...@gm...>]

Thanks once more Bill.
I did think it was just for user convenience but your comment made it clear
for me.
Appreciated

On Sat, May 23, 2015 at 5:13 PM, Hayes, William <bh...@ca...>
wrote:

> BTW, I found that some cdms / cdutil fuctions (like .YEAR)
> really insist on having
> ta.id='time'
> and having
> ta.units ='days since YYYY-MM-DD'
> They are not just for users to read.
>
> Good luck,
> Bill
>
>
> On Sat, May 23, 2015 at 2:09 PM, sudipta sarkar <sdp...@gm...>
> wrote:
>
>> Hi Bill
>> Thanks for your answer.
>> That is indeed what I was looking for. Thanks a lot!!
>> I was aware of the pieces but was just not sure how to put them together.
>> Your answer made it very clear.
>> Thanks again
>>
>>
>> On Sat, May 23, 2015 at 4:50 PM, Hayes, William <
>> bh...@ca...> wrote:
>>
>>> Hi Sudipta,
>>> I've only worked with monthly data, but I believe
>>> for your daily data you would do something like:
>>>
>>> Assuming the number of days was 4000 (you'll have to calculate this):
>>>
>>> days_list = range(4000)
>>> ta = cdms2.createAxis( days_list )
>>> ta.id = 'time'
>>> ta.units = 'days since 2004-10-01'
>>> var.setAxis(0, ta)
>>> cdutil.setTimeBoundsDaily(var, 1 )  # 1 is daily frequency, assumes 1
>>> data pt per day
>>>
>>> Bill Hayes
>>> Carnegie Institute DGE
>>>
>>>
>>> On Sat, May 23, 2015 at 1:10 PM, sudipta sarkar <sdp...@gm...>
>>> wrote:
>>>
>>>> Hi All
>>>> I am trying to concatenate several H5 daily data global gridded file
>>>> into a single array 3D array (time, lat, long).
>>>>
>>>> I can define the lat and long axis for this new 3d array. But I am not
>>>> sure how to create the time axis for this 3D array.
>>>> My start time is 2004-10-01 and end time is 2015-05-20.
>>>>
>>>> Do I need to create a cdtime time array with these start and end dates
>>>> and then define a time axis based on this time array?
>>>>
>>>> Can someone please show me how. I am not sure how to go about this.
>>>>
>>>> Thanks
>>>>
>>>>
>>>>
>>>> ------------------------------------------------------------------------------
>>>> One dashboard for servers and applications across Physical-Virtual-Cloud
>>>> Widest out-of-the-box monitoring support with 50+ applications
>>>> Performance metrics, stats and reports that give you Actionable Insights
>>>> Deep dive visibility with transaction tracing using APM Insight.
>>>> http://ad.doubleclick.net/ddm/clk/290420510;117567292;y
>>>> _______________________________________________
>>>> Cdat-discussion mailing list
>>>> Cda...@li...
>>>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>>>
>>>>
>>>
>>
>

Re: [Cdat-discussion] Define time axis with cdtime?

[Hayes, W. <bh...@ca...>]

Hi Sudipta,
I've only worked with monthly data, but I believe
for your daily data you would do something like:

Assuming the number of days was 4000 (you'll have to calculate this):

days_list = range(4000)
ta = cdms2.createAxis( days_list )
ta.id = 'time'
ta.units = 'days since 2004-10-01'
var.setAxis(0, ta)
cdutil.setTimeBoundsDaily(var, 1 )  # 1 is daily frequency, assumes 1 data
pt per day

Bill Hayes
Carnegie Institute DGE


On Sat, May 23, 2015 at 1:10 PM, sudipta sarkar <sdp...@gm...>
wrote:

> Hi All
> I am trying to concatenate several H5 daily data global gridded file into
> a single array 3D array (time, lat, long).
>
> I can define the lat and long axis for this new 3d array. But I am not
> sure how to create the time axis for this 3D array.
> My start time is 2004-10-01 and end time is 2015-05-20.
>
> Do I need to create a cdtime time array with these start and end dates and
> then define a time axis based on this time array?
>
> Can someone please show me how. I am not sure how to go about this.
>
> Thanks
>
>
>
> ------------------------------------------------------------------------------
> One dashboard for servers and applications across Physical-Virtual-Cloud
> Widest out-of-the-box monitoring support with 50+ applications
> Performance metrics, stats and reports that give you Actionable Insights
> Deep dive visibility with transaction tracing using APM Insight.
> http://ad.doubleclick.net/ddm/clk/290420510;117567292;y
> _______________________________________________
> Cdat-discussion mailing list
> Cda...@li...
> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>
>

Re: [Cdat-discussion] Define time axis with cdtime?

[Hayes, W. <bh...@ca...>]

BTW, I found that some cdms / cdutil fuctions (like .YEAR)
really insist on having
ta.id='time'
and having
ta.units ='days since YYYY-MM-DD'
They are not just for users to read.

Good luck,
Bill


On Sat, May 23, 2015 at 2:09 PM, sudipta sarkar <sdp...@gm...>
wrote:

> Hi Bill
> Thanks for your answer.
> That is indeed what I was looking for. Thanks a lot!!
> I was aware of the pieces but was just not sure how to put them together.
> Your answer made it very clear.
> Thanks again
>
>
> On Sat, May 23, 2015 at 4:50 PM, Hayes, William <
> bh...@ca...> wrote:
>
>> Hi Sudipta,
>> I've only worked with monthly data, but I believe
>> for your daily data you would do something like:
>>
>> Assuming the number of days was 4000 (you'll have to calculate this):
>>
>> days_list = range(4000)
>> ta = cdms2.createAxis( days_list )
>> ta.id = 'time'
>> ta.units = 'days since 2004-10-01'
>> var.setAxis(0, ta)
>> cdutil.setTimeBoundsDaily(var, 1 )  # 1 is daily frequency, assumes 1
>> data pt per day
>>
>> Bill Hayes
>> Carnegie Institute DGE
>>
>>
>> On Sat, May 23, 2015 at 1:10 PM, sudipta sarkar <sdp...@gm...>
>> wrote:
>>
>>> Hi All
>>> I am trying to concatenate several H5 daily data global gridded file
>>> into a single array 3D array (time, lat, long).
>>>
>>> I can define the lat and long axis for this new 3d array. But I am not
>>> sure how to create the time axis for this 3D array.
>>> My start time is 2004-10-01 and end time is 2015-05-20.
>>>
>>> Do I need to create a cdtime time array with these start and end dates
>>> and then define a time axis based on this time array?
>>>
>>> Can someone please show me how. I am not sure how to go about this.
>>>
>>> Thanks
>>>
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> One dashboard for servers and applications across Physical-Virtual-Cloud
>>> Widest out-of-the-box monitoring support with 50+ applications
>>> Performance metrics, stats and reports that give you Actionable Insights
>>> Deep dive visibility with transaction tracing using APM Insight.
>>> http://ad.doubleclick.net/ddm/clk/290420510;117567292;y
>>> _______________________________________________
>>> Cdat-discussion mailing list
>>> Cda...@li...
>>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>>
>>>
>>
>

Re: [Cdat-discussion] Define time axis with cdtime?

[sudipta s. <sdp...@gm...>]

Hi Bill
Thanks for your answer.
That is indeed what I was looking for. Thanks a lot!!
I was aware of the pieces but was just not sure how to put them together.
Your answer made it very clear.
Thanks again


On Sat, May 23, 2015 at 4:50 PM, Hayes, William <bh...@ca...>
wrote:

> Hi Sudipta,
> I've only worked with monthly data, but I believe
> for your daily data you would do something like:
>
> Assuming the number of days was 4000 (you'll have to calculate this):
>
> days_list = range(4000)
> ta = cdms2.createAxis( days_list )
> ta.id = 'time'
> ta.units = 'days since 2004-10-01'
> var.setAxis(0, ta)
> cdutil.setTimeBoundsDaily(var, 1 )  # 1 is daily frequency, assumes 1 data
> pt per day
>
> Bill Hayes
> Carnegie Institute DGE
>
>
> On Sat, May 23, 2015 at 1:10 PM, sudipta sarkar <sdp...@gm...>
> wrote:
>
>> Hi All
>> I am trying to concatenate several H5 daily data global gridded file into
>> a single array 3D array (time, lat, long).
>>
>> I can define the lat and long axis for this new 3d array. But I am not
>> sure how to create the time axis for this 3D array.
>> My start time is 2004-10-01 and end time is 2015-05-20.
>>
>> Do I need to create a cdtime time array with these start and end dates
>> and then define a time axis based on this time array?
>>
>> Can someone please show me how. I am not sure how to go about this.
>>
>> Thanks
>>
>>
>>
>> ------------------------------------------------------------------------------
>> One dashboard for servers and applications across Physical-Virtual-Cloud
>> Widest out-of-the-box monitoring support with 50+ applications
>> Performance metrics, stats and reports that give you Actionable Insights
>> Deep dive visibility with transaction tracing using APM Insight.
>> http://ad.doubleclick.net/ddm/clk/290420510;117567292;y
>> _______________________________________________
>> Cdat-discussion mailing list
>> Cda...@li...
>> https://lists.sourceforge.net/lists/listinfo/cdat-discussion
>>
>>
>