[ncl-talk] ncl-talk Digest, Vol 177, Issue 29
Geeta Geeta
geetag54 at yahoo.com
Sat Aug 18 07:17:37 MDT 2018
Thanks Mary. I am first trying to plot the count values (IMG_MIR variable). and then going for the MIRF (Radiance)Earlier, I was attaching the X and Y axis Labels explicitly as given below, So the plot was not correct. Dont know why [; res at tmXBMode = "Explicit"
; res at tmXBValues = (/"60","65","70","75","80","85","90","95","100"/) ]
The lat/lon are large numbers, varyning between (5401854.420193..-1058893.687497] But the meta data says the lat/lon bounds are 44.5-105.5/-10S to 45.5. So lat/lon in the file are to be converted to the meaningful ones (as given in the meta data)
Now I am not attaching the X and Y axis Labels explicitly to the plot (attached) so it plots the contours. But I get a warning like this (0) get_lon_values: Warning: The range your of longitude values is greater than 360.warning:ManualComputeMajorTickMarks: Maximum tickmarks (256) has been reached, tickmarks may appear in completewarning:ExplicitComputeMinorTickMarks: Maximum minor tickmarks (1024) has been reached, tickmarks may appear incompletewarning:ManualComputeMajorTickMarks: Maximum tickmarks (256) has been reached, tickmarks may appear in completewarning:ExplicitComputeMinorTickMarks: Maximum minor tickmarks (1024) has been reached, tickmarks may appear incomplete(0) get_lat_values: Warning: Your latitude values do not fall between -90 and 90 inclusive.(0) You will not get 'nice' latitude labels.
Output from the code;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;Variable: MIRType: ushortTotal Size: 5229376 bytes 2614688 valuesNumber of Dimensions: 3Dimensions and sizes: [time | 1] x [lat | 1616] x [lon | 1618]Coordinates: lat: [5401854.420193..-1058893.687497] lon: [-3234623.003937..3234623.003937]Number Of Attributes: 18 DIMENSION_LIST : <ARRAY of 0 elements> _FillValue : 1023 bandwidth : 0.2 bits_per_pixel : 10 central_wavelength : 3.9313 grid_mapping : Projection_Information invert : trueection_Information lab_radiance_add_offset : -0.00413433 lab_radiance_add_offset_gsics : -0.0110259 lab_radiance_quad : -1.31797e-07 lab_radiance_quad_gsics : -1.88751e-07 lab_radiance_scale_factor : 0.000281346 lab_radiance_scale_factor_gsics : 0.000402925 long_name : Middle Infrared Countn radiance_units : mW.cm-2.sr-1.micron-1n resolution : 4 resolution_unit : km.cm-2.sr-1.micron-1n wavelength_unit : micron2.sr-1.micron-1n(0) MIRi (0) (0) Middle Infrared Countn: min=0 max=1001
Variable: MIRFType: floatTotal Size: 10458752 bytes 2614688 valuesNumber of Dimensions: 3Dimensions and sizes: [time | 1] x [lat | 1616] x [lon | 1618]Coordinates: lat: [5401854.420193..-1058893.687497] lon: [-3234623.003937..3234623.003937]Number Of Attributes: 19 _FillValue : 1023 _FillValue_original : 1023 wavelength_unit : micron2.sr-1.micron-1n resolution_unit : km.cm-2.sr-1.micron-1n resolution : 4 radiance_units : mW.cm-2.sr-1.micron-1n long_name : Middle Infrared Countn lab_radiance_scale_factor_gsics : 0.000402925 lab_radiance_scale_factor : 0.000281346 lab_radiance_quad_gsics : -1.88751e-07 lab_radiance_quad : -1.31797e-07 lab_radiance_add_offset_gsics : -0.0110259 lab_radiance_add_offset : -0.00413433 invert : trueection_Information grid_mapping : Projection_Information central_wavelength : 3.9313 bits_per_pixel : 10 bandwidth : 0.2 DIMENSION_LIST : <ARRAY of 0 elements>(0) (0) Middle Infrared Countn: min=-0.00413433 max=0.277493;;;;;;;;;;;;; O/P ended
;;;;;;;;;;;;;;;;;;; f = addfile("/home/aditya/geeta/ncl/h5/3DIMG_23JUN2018_0300_L1C_ASIA_MER.h5","r"); printVarSummary(f) print(f) var = getfilevarnames(f); print(var) longt = f->X; printVarSummary(longt) print(longt(0)) print(longt(1)) lati = f->Y; printVarSummary(lati) TIME = f->time
MIR = (f->IMG_MIR) MIR!0 = "time" MIR!1 = "lat" MIR!2 = "lon" MIR&lat = lati MIR&lon = longt MIR&lat at units = "degrees_north" MIR&lon at units = "degrees_east" MIR at _FillValue = integertoshort(1023) printVarSummary(MIR) print("MIRi ") printMinMax(MIR,True)
I have sent the data file. Geeta.
On Friday, 17 August 2018 8:14 AM, "ncl-talk-request at ucar.edu" <ncl-talk-request at ucar.edu> wrote:
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Today's Topics:
1. Re: confused about tickmarks (Mary Haley)
2. Re: unable to plot correctly (Mary Haley)
3. ??? Significance with contour: positive in solid line
andnegative in dash line (=?gb18030?B?wfXV8Q==?=)
----------------------------------------------------------------------
Message: 1
Date: Thu, 16 Aug 2018 20:20:29 -0600
From: Mary Haley <haley at ucar.edu>
To: Laura Fowler <laura at ucar.edu>
Cc: Ncl-talk <ncl-talk at ucar.edu>
Subject: Re: [ncl-talk] confused about tickmarks
Message-ID:
<CACNN_CJd=PsHK5bvLa470WYzLEjqHcdid7fyYBYsCjW4W0aZvQ at mail.gmail.com>
Content-Type: text/plain; charset="utf-8"
Hi Laura,
I'm going through some older emails that look like they don't have
responses, and this is one of them.
The gsn_csm_pres_hgt function is actually two plots overlaid on top of each
other. The base plot is a "LogLin" plot which allows us to have a log
axis. The overlaid plot is the contour plot and it's the one that's setting
all the tickmark stuff.
When you did a getvalues on plot, this is the LogLin plot and hence doesn't
have the tickmark labels. If you call "print(plot)" you will see it has an
attribute "contour" that looks something like this:
contour : h_lat_contour contourPlotClass 11
This is the thing you want to retrieve the labels from:
getvalues plot at contour
"tmXBValues" : tmXBValues
end getvalues
Did you get your labeling problem figured out?
--Mary
On Thu, Aug 2, 2018 at 9:41 AM, Laura Fowler <laura at ucar.edu> wrote:
> Hello:
>
> Following the -email I sent yesterday regarding tickmarks, I simplified my
> ncl script to understand about the bottom tickmarks are labelled by default
> so that I can understand how to change them using tmXBValues and
> tmXBLabels. The simplified script is in
>
> /glade2/scratch2/laura/MPASprojects.2018/forPUBLICATION/TENDENCIES/
> rect.cu_kain_fritsch_sca.20151129-20160102 and the script is plot.ncl.
> Also see attached plot dtcup.kf.pdf.
>
>
> I tried to retrieve the default values of tmXBValues with the lines:
>
>
> res2 at tmXBMode = "Automatic"
>
> plot = gsn_csm_pres_hgt(wks,dtcup_interp_kf,res2)
>
>
> getvalues plot
>
> "tmXBValues" : tmXBValues
>
> end getvalues
>
> print(" ")
>
> print(tmXBValues)
>
> Then I get:
>
> Variable: tmXBValues
>
> Type: float
>
> Total Size: 16 bytes
>
> 4 values
>
> Number of Dimensions: 1
>
> Dimensions and sizes: [4]
>
> Coordinates:
>
> (0) 0
>
> (1) 100
>
> (2) 200
>
> (3) 300
>
> (0)
>
> which is super confusing to me since the plot shows at least 6 values for
> the major tickmarks and not just 4. Is it possible to actually set
> different XB labels with gsn_csm_pres_hgt?
>
>
> I would really appreciate some hints on how to do this.
>
>
>
> Many thanks,
>
> Laura
>
>
>
> --
> !-----------------------------------------------------------
> --------------------------------------------------
> Laura D. Fowler
>
> Mesoscale and Microscale Meteorology Division (MMM)
> National Center for Atmospheric Research
> P.O. Box 3000, Boulder CO 80307-3000
>
> e-mail: laura at ucar.edu
> phone: 303-497-1628
>
> !-----------------------------------------------------------
> --------------------------------------------------
>
> _______________________________________________
> ncl-talk mailing list
> ncl-talk at ucar.edu
> List instructions, subscriber options, unsubscribe:
> http://mailman.ucar.edu/mailman/listinfo/ncl-talk
>
>
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Message: 2
Date: Thu, 16 Aug 2018 20:21:56 -0600
From: Mary Haley <haley at ucar.edu>
To: Geeta Geeta <geetag54 at yahoo.com>
Cc: "ncl-talk \[ncl-talk\]" <ncl-talk at ucar.edu>
Subject: Re: [ncl-talk] unable to plot correctly
Message-ID:
<CACNN_C+8vMWS_Q4dyXA1HMx65Hed3xp8cW_ac2Y61EDDDCphog at mail.gmail.com>
Content-Type: text/plain; charset="utf-8"
Geeta,
I don't know if you ever resolved this, but part of the problem is if you
are drawing contour lines of a very high-res plot, it is not a surprise
that you would get a lot of black lines.
To make the plotting go faster, I suggest:
res at cnFillOn = True
res at cnFillMode = "RasterFill"
Dennis suggested that you use this:
MIRF = MIR*MIR at lab_radiance_scale_factor + MIR at lab_radiance_add_offset
but then in the script that you sent, MIRF is not used for plotting.
However, I think there would be an issue with plotting anyway, because when
you do a calculation like the above, all the metadata that was attached to
MIR is going to be stripped off, and MIRF will not have anything but a
_FillValue attribute. To fix something like that, we suggest:
MIRF = MIR*MIR at lab_radiance_scale_factor + MIR at lab_radiance_add_offset
copy_VarMeta(MIR,MIRF)
before you try to plot MIRF.
If you are still having problems, it would help if you include a
printVarSummary output of various variables in your script, especially the
MIR variables and the lat/lon variables. Even better, if you could provide
the file on ftp.
Thanks,
--Mary
On Wed, Aug 1, 2018 at 12:18 PM, Geeta Geeta <geetag54 at yahoo.com> wrote:
> thanks Dennis.
> I have to plot the count value only which is between 0-1001. (MinMax MIR).
> the plotting is over but the plot shows small white dots and is fully black
> on careful examination.
> I could not understand why should that be (i mean black with white dots)
> because below the plot, it is shown "Contour from 0-1001".
>
> If I ON the contour resources, the code runs forever.
>
>
> thanks
> Geeta.
>
>
> On Wednesday, 1 August 2018 5:05 AM, Dennis Shea <shea at ucar.edu> wrote:
>
>
> I think this has been mentioned to you before:
>
> *The most important rule in data processing is look at your data.'*---
> T*he 2nd-most important rule is* *read the documentation of the project.*
>
> Note: It is not ncl-talk's job to read the documentation. It is your job.
> ---
>
> Variable: MIR
> Type: *ushort*
> Dimensions and sizes: [DIM_000 | 1] x [DIM_001 | 1616] x [DIM_002 | 1618]
>
> * lab_radiance_add_offset *: -0.00413433
> lab_radiance_add_offset_gsics : -0.0110259
> lab_radiance_quad : -1.31797e-07
> lab_radiance_quad_gsics : -1.88751e-07
> *lab_radiance_scale_factor *: 0.000281346
> lab_radiance_scale_factor_ gsics : 0.000402925
>
> I *speculate* that to get correct values you would have to use something
> like:
>
> MIRF = MIR***MIR@*lab_radiance_scale_factor + MIR@*
>
> *lab_radiance_add_offset*
> or
>
>
> MIRF = *(*MIR* + **MIR at lab_radiance_add_offset**)**MIR@
> *lab_radiance_scale_factor*
>
> or
>
>
> * ????*
> Again, this is your responsibility.
>
> Good Luck
>
> On Tue, Jul 31, 2018 at 11:27 AM, Geeta Geeta <geetag54 at yahoo.com> wrote:
>
> Hi all.
> I am trying to plot MIR_int (variable defined in the ncl code), but it is
> not being plotted properly. the output is without any error
>
>
> aditya at agniilap:~/geeta/ncl/ h5$ ../bin/ncl readh5.v2.ncl
> Copyright (C) 1995-2014 - All Rights Reserved
> University Corporation for Atmospheric Research
> NCAR Command Language Version 6.2.1
> The use of this software is governed by a License Agreement.
> See http://www.ncl.ucar.edu/ for more details.
>
> Variable: f
> Type: file
> File path: /home/aditya/geeta/ncl/h5/ 3DIMG_23JUN2018_0300_L1C_ASIA_
> MER.h5
> Number of global attributes: 38
> Number of dimensions: 4
> Number of variables: 27
>
>
> Variable: var
> Type: string
> Total Size: 108 bytes
> 27 values
> Number of Dimensions: 1
> Dimensions and sizes: [27]
> Coordinates:
> (0) /GreyCount
> (1) /IMG_MIR
> (2) /IMG_MIR_RADIANCE
> (3) /IMG_MIR_TEMP
> (4) /IMG_SWIR
> (5) /IMG_SWIR_RADIANCE
> (6) /IMG_TIR1
> (7) /IMG_TIR1_RADIANCE
> (8) /IMG_TIR1_TEMP
> (9) /IMG_TIR2
> (10) /IMG_TIR2_RADIANCE
> (11) /IMG_TIR2_TEMP
> (12) /IMG_VIS
> (13) /IMG_VIS_ALBEDO
> (14) /IMG_VIS_RADIANCE
> (15) /IMG_WV
> (16) /IMG_WV_RADIANCE
> (17) /IMG_WV_TEMP
> (18) /Projection_Information
> (19) /Sat_Azimuth
> (20) /Sat_Elevation
> (21) /Sun_Azimuth
> (22) /Sun_Elevation
> (23) /X
> (24) /Y
> (25) /proj_dim
> (26) /time
>
> Variable: MIR
> Type: ushort
> Total Size: 5229376 bytes
> 2614688 values
> Number of Dimensions: 3
> Dimensions and sizes: [DIM_000 | 1] x [DIM_001 | 1616] x [DIM_002 | 1618]
> Coordinates:
> Number Of Attributes: 18
> DIMENSION_LIST : <ARRAY of 0 elements>
> _FillValue : 1023
> bandwidth : 0.2
> bits_per_pixel : 10
> central_wavelength : 3.9313
> grid_mapping : Projection_Information
> invert : trueection_Information
> lab_radiance_add_offset : -0.00413433
> lab_radiance_add_offset_gsics : -0.0110259
> lab_radiance_quad : -1.31797e-07
> lab_radiance_quad_gsics : -1.88751e-07
> lab_radiance_scale_factor : 0.000281346
> lab_radiance_scale_factor_ gsics : 0.000402925
> long_name : Middle Infrared Countn
> radiance_units : mW.cm-2.sr-1.micron-1n
> resolution : 4
> resolution_unit : km.cm-2.sr-1.micron-1n
> wavelength_unit : micron2.sr-1.micron-1n
>
> Variable: MIR_int
> Type: integer
> Total Size: 10458752 bytes
> 2614688 values
> Number of Dimensions: 2
> Dimensions and sizes: [1616] x [1618]
> Coordinates:
> Number Of Attributes: 1
> _FillValue : 1023
> (0)
> (0) Middle Infrared Countn: min=0 max=1001
>
> Variable: longi
> Type: double
> Total Size: 12944 bytes
> 1618 values
> Number of Dimensions: 1
> Dimensions and sizes: [DIM_002 | 1618]
> Coordinates:
> Number Of Attributes: 5
> CLASS : DIMENSION_SCALE
> REFERENCE_LIST : <ARRAY of 0 elements>
> long_name : x coordinate of projectionperaturerature
> standard_name : projection_x_ coordinateionperaturerature
> units : mrojection_x_ coordinateionperaturerature
> (0)
> (0) x coordinate of projectionperaturerature: min=-3234623.003937
> max=3234623.003937
>
> Variable: lati
> Type: double
> Total Size: 12928 bytes
> 1616 values
> Number of Dimensions: 1
> Dimensions and sizes: [DIM_001 | 1616]
> Coordinates:
> Number Of Attributes: 5
> CLASS : DIMENSION_SCALE
> REFERENCE_LIST : <ARRAY of 0 elements>
> long_name : y coordinate of projectionperaturerature
> standard_name : projection_y_ coordinateionperaturerature
> units : mrojection_y_ coordinateionperaturerature
> (0)
> (0) y coordinate of projectionperaturerature: min=-1058893.687497
> max=5401854.420193
>
> Variable: TIME
> Type: double
> Total Size: 8 bytes
> 1 values
> Number of Dimensions: 1
> Dimensions and sizes: [DIM_000 | 1]
> Coordinates:
> Number Of Attributes: 3
> CLASS : DIMENSION_SCALE
> REFERENCE_LIST : <ARRAY of 0 elements>
> units : minutes since 2000-01-01 00:00:00erature
>
> Variable: proj
> Type: integer
> Total Size: 4 bytes
> 1 values
> Number of Dimensions: 1
> Dimensions and sizes: [DIM_000 | 1]
> Coordinates:
> Number Of Attributes: 13
> DIMENSION_LIST : <ARRAY of 0 elements>
> false_easting : 0
> false_northing : 0
> grid_mapping_name : mercatorpor Brightness Temperaturerature
> longitude_of_projection_origin : 75
> lower_left_lat_lon(degrees) : ( -10, 44.5 )
> lower_right_lat_lon(degrees) : ( -10, 105.5 )
> semi_major_axis : 6378137
> semi_minor_axis : 6356752.3142
> standard_parallel : 17.75
> upper_left_lat_lon(degrees) : ( 45.5, 44.5 )
> upper_left_xy(meters) : ( -3234623.003937, 5401854.420193 )
> upper_right_lat_lon(degrees) : ( 45.5, 105.5 )
> (0)
> (0) min=1461309144 max=1461309144
> (0) check_for_y_lat_coord: Warning: Data either does not contain a valid
> latitude coordinate array or doesn't contain one at all.
> (0) A valid latitude coordinate array should have a 'units' attribute
> equal to one of the following values:
> (0) 'degrees_north' 'degrees-north' 'degree_north' 'degrees north'
> 'degrees_N' 'Degrees_north' 'degree_N' 'degreeN' 'degreesN' 'deg north'
> (0) check_for_lon_coord: Warning: Data either does not contain a valid
> longitude coordinate array or doesn't contain one at all.
> (0) A valid longitude coordinate array should have a 'units' attribute
> equal to one of the following values:
> (0) 'degrees_east' 'degrees-east' 'degree_east' 'degrees east'
> 'degrees_E' 'Degrees_east' 'degree_E' 'degreeE' 'degreesE' 'deg east'
> aditya at agniilap:~/geeta/ncl/ h5$
>
>
> thanks
>
> Geeta.
>
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Message: 3
Date: Fri, 17 Aug 2018 10:43:41 +0800
From: "=?gb18030?B?wfXV8Q==?=" <286909655 at qq.com>
To: "=?gb18030?B?TWFyeSBIYWxleQ==?=" <haley at ucar.edu>
Cc: NCL <ncl-talk at ucar.edu>
Subject: [ncl-talk] ??? Significance with contour: positive in solid
line andnegative in dash line
Message-ID: <tencent_BE9334A174DB2BD1BAB01EBE8933E95DED0A at qq.com>
Content-Type: text/plain; charset="gb18030"
Dear Mary,
Thanks a lot for you reply and very good suggestions.
Your methods perfectly solve my second problem.
But, for the first one, it is, somehow, a little tricky. The contour line I want to plot represents p value (according to student's t test), which is always positive. In order to plot the positive (value in shading) with solid line while negative with dash line, I use ?prob=where(var.lt.0,-prob,prob)? in my script to change the p value (i.e., prob) first. Then I plot the p value using contour with negative p value in dash. But the region at 95% significant area totally changed. Please check the differences between the two outputs attached. The var.pdf should be the right one. Could you please help me to solve this issue. Thanks.
Best regards,
zhen
------------------
??
????
?????????
?????
Phone: +86-15013246049
Liu Zhen
Department of Atmospheric Science
School of Environmental Science and Engineering
Sun Yat-sen University
Email address: liuzhen9 at mail2.sysu.edu.cn
------------------ ???? ------------------
???: "Mary Haley"<haley at ucar.edu>;
????: 2018?8?17?(???) ??7:49
???: "??"<286909655 at qq.com>;
??: "ncl-talk"<ncl-talk at ucar.edu>;
??: Re: [ncl-talk] Significance with contour: positive in solid line andnegative in dash line
Dear Zhen,
One way to find out if there's an example for something specific you are trying to do, you can use the "tips" link on the examples page:
List of tips, resources, functions/procedures and the example scripts they appear in.
Which takes you to this page:
http://www.ncl.ucar.edu/Applications/concepts_list.shtml
You can then use your browser search to search for "negative" or "positive". You will find this under the search for "negative":
Drawing negative contour lines as dashed lines
conOncon_1.ncl (contours on contours)
conOncon_2.ncl (contours on contours)
conOncon_4.ncl (contours on contours)
coneff_3.ncl (contour effects)
coneff_5.ncl (contour effects)
coneff_6.ncl (contour effects)
coneff_9.ncl (contour effects)
I recommend clicking on the link inside the "(...)" and not the actual NCL script, because this way you can see the description of the example, the image, and the link to the script. A good example to start with is "coneff_3.ncl":
http://www.ncl.ucar.edu/Applications/coneff.shtml#ex3
which mentions two resources, gsnContourNegLineDashPattern and gsnContourPosLineDashPattern
http://www.ncl.ucar.edu/Document/Graphics/Resources/gsn.shtml#gsnContourNegLineDashPattern
http://www.ncl.ucar.edu/Document/Graphics/Resources/gsn.shtml#gsnContourPosLineDashPattern
which should hopefully answer your first question.
To answer your second question, you can also use the "tips" page, but this time search for "dot" or "stipple". In this case, "dot" gives you the best results, and "coneff_11.ncl" may be the best example to look into. The resources cnFillScaleF and cnFillDotSizeF may help you with the density and size of your dots.
http://www.ncl.ucar.edu/Applications/coneff.shtml#ex11
If this doesn't help, please post back to ncl-talk.
Thanks,
--Mary
On Thu, Aug 16, 2018 at 8:02 AM, ?? <286909655 at qq.com> wrote:
Dear Sir/Madam,
I use the script attached to plot the significance area (student's t test) with contour lines. I am wondering if there is a way to make the positive area (shading) in solid line while negative area in dash line. The output is also attached. Thanks.
For another output named T2-CTLF-CTL-sum.pdf, most of the area are at 95% significant. By contrast, only region not significant show with contours. Could you also tell me how to deal with such kind of situation. I try to use dot instead of contour to show significant area. But all the plot become black because of the data at a high resolution. Here comes the question that how to decrease the density of the dots? Thanks.
Best regards,
zhen
------------------
??
????
?????????
?????
Phone: +86-15013246049
Liu Zhen
Department of Atmospheric Science
School of Environmental Science and Engineering
Sun Yat-sen University
Email address: liuzhen9 at mail2.sysu.edu.cn
_______________________________________________
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