[ncl-talk] Segmentation fault (core dumped) when mpDataBaseVersion = "HighRes", new NCL build on Ubuntu, SOLVED

[Orestis Speyer]

Thanks to Rick, we narrowed the problem down to a broken ncl-ncarg package
distribution which I installed using the Ubuntu Software.
It is missing several files like  ftfonts in directory
/usr/lib/ncarg/database/
It is a documented issue
(https://bugs.launchpad.net/ubuntu/+source/ncl/+bug/1808217).

Cheers,
Orestis






On 21/3/2019 5:19 μ.μ., Orestis Speyer wrote:

Kind reminder,

 

I looked further and I am thinking that perhaps it is the fault in the

naming of the rangs and gshhs files,

in particular the parentheses "(" which is a special character and I think

Ubuntu has trouble with.

 

I have successfully run the script in:

Distributor ID: RedHatEnterpriseServer

Description:    Red Hat Enterprise Linux Server release 6.9 (Santiago)

Release:        6.9

Codename:       Santiago

 

I get the segmentation error when running in Ubuntu:

Distributor ID: Ubuntu

Description:   Ubuntu 18.04.2 LTS

Release:       18.04

Codename:      bionic

 

the rangs directory looks like this:

-rw-r--r-- 1 root root 89496428 Μαΐ  13  1997 'gshhs(0).rim'

-rw-r--r-- 1 root root 20775224 Μαΐ  13  1997 'gshhs(1).rim'

-rw-r--r-- 1 root root  5099196 Μαΐ  13  1997 'gshhs(2).rim'

-rw-r--r-- 1 root root  1109192 Μαΐ  13  1997 'gshhs(3).rim'

-rw-r--r-- 1 root root   170948 Μαΐ  13  1997 'gshhs(4).rim'

-rw-r--r-- 1 root root   259200 Μαρ  19 16:48 'rangs(0).cat'

-rw-r--r-- 1 root root  6518664 Μαρ  19 16:48 'rangs(0).cel'

-rw-r--r-- 1 root root   259200 Μαρ  19 16:48 'rangs(1).cat'

-rw-r--r-- 1 root root  5945492 Μαρ  19 16:48 'rangs(1).cel'

-rw-r--r-- 1 root root   259200 Μαρ  19 16:48 'rangs(2).cat'

-rw-r--r-- 1 root root  4062215 Μαρ  19 16:48 'rangs(2).cel'

-rw-r--r-- 1 root root   259200 Μαρ  19 16:48 'rangs(3).cat'

-rw-r--r-- 1 root root  3398642 Μαρ  19 16:48 'rangs(3).cel'

-rw-r--r-- 1 root root   259200 Μαρ  19 16:48 'rangs(4).cat'

-rw-r--r-- 1 root root  3045848 Μαρ  19 16:48 'rangs(4).cel'

 

The single quotes in the filenames come automatically (for Ubuntu to be able

to handle them) when I download them.

 

I know that NCL is looking for this file because when I have HighRes and

when I deliberately export NCARG_RANGS to a different directory, I get

fatal:MapRGDHDrawMapList: MDRGOL/MDRGOF - ERROR OPENING RANGS/GSHHS CAT.

When I export NCARG_RANGS= /usr/share/ncarg/database/rangs I get the

segmentation fault.

 

Is it an environment thing? Is it Is it a permission thing? I tried running

with sudo to no avail. I don't know how NCL "reads" these files. Final note,

 

Using ls I get:

ls gshhs(0).rim

bash: syntax error near unexpected token `('

with quotes:

ls 'gshhs(0).rim'

'gshhs(0).rim'

 

Thanks again for your time,

Orestis

 

 

 

 

 

 

 

-----Original Message-----

From: ospeyer [mailto:ospeyer at noa.gr] 

Sent: Tuesday, March 19, 2019 6:09 PM

To: ncl-talk at ucar.edu

Subject: Segmentation fault (core dumped) when mpDataBaseVersion =

"HighRes", new NCL build on Ubuntu

 

 

 

Deal all,

 

I just installed NCL 6.4.0 through the Ubuntu Software in my desktop within

an Ubuntu virtual machine with 5GB of RAM.

I am trying to run a script (which runs successfully on a 4gb laptop, with a

virtual machine of 2GB of RAM) but I get a  Segmentation fault (core

dumped).

When I use mpDataBaseVersion = "LowRes" it works fine, although no colors

appear on my contour plot (the label bar has colours just fine).

 

Is it possible that I run out of memory for some reason? I am suspicious of

the new build. I followed the rangs procedure for high resolution

coastlines. I do not know if it's important but the NCARG_ROOT is not set as

in the default that I find in the NCL site. My suspicion increases due to

the lack of colour in the contour (I'm using

gsn_define_colormap(wks,"gui_default")).

 

 

In my script I load:

load "/usr/share/ncarg/nclscripts/csm/gsn_code.ncl"

load "/usr/share/ncarg/nclscripts/csm/gsn_csm.ncl"

load "/usr/share/ncarg/nclscripts/csm/contributed.ncl"

load "./shapefile_utils.ncl" ; This I need for shapefiles

 

I found a relative thread in the ncl-archive under "[ncl-talk]

mpDataBaseVersion ="HighRes" " but there was no solution therein.

 

Cheers and thanks for your time,

 

Orestis Speyer, MSc

 

 

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.ucar.edu/pipermail/ncl-talk/attachments/20190409/8234e8db/attachment-0001.html>