Crashed when loading Netcdf-CF file

[luminoctum]

Describe the bug

I install the most recent Mac distribution of VAPOR. My dataset is a netcdf-cf file. I used the "cfchecks" command to check whether my nc file is cf complaint. Here's the output

===================== Using CF Checker Version 4.0.0 Checking against CF Version CF-1.7 Using Standard Name Table Version 77 (2021-01-19T13:38:50Z) Using Area Type Table Version 10 (23 June 2020) Using Standardized Region Name Table Version 4 (18 December 2018)

WARN: (2.6.1): No 'Conventions' attribute present

---

Checking variable: time

WARN: (4.4.1): Use of the calendar and/or month_lengths attributes is recommended for time coordinate variables

---

Checking variable: x1

---

Checking variable: x1f

---

Checking variable: x2

---

Checking variable: x2f

---

Checking variable: x3

---

Checking variable: x3f

---

Checking variable: rho

WARN: (2.4): space/time dimensions appear in incorrect order WARN: (2.4): space/time dimensions appear in incorrect order

---

Checking variable: press

WARN: (2.4): space/time dimensions appear in incorrect order WARN: (2.4): space/time dimensions appear in incorrect order

---

Checking variable: vel1

WARN: (2.4): space/time dimensions appear in incorrect order WARN: (2.4): space/time dimensions appear in incorrect order

---

Checking variable: vel2

WARN: (2.4): space/time dimensions appear in incorrect order WARN: (2.4): space/time dimensions appear in incorrect order

---

Checking variable: vel3

WARN: (2.4): space/time dimensions appear in incorrect order WARN: (2.4): space/time dimensions appear in incorrect order

ERRORS detected: 0 WARNINGS given: 12 INFORMATION messages: 0

I got a few warnings but no error. However, when I load it to VAPOR using Netcdf-cf, the software crashed without any error. Here's the header file of my netcdf data.

====== netcdf hj.out2.00000 { dimensions: time = UNLIMITED ; // (1 currently) x1 = 32 ; x1f = 33 ; x2 = 36 ; x2f = 37 ; x3 = 72 ; x3f = 73 ; variables: float time(time) ; time:axis = "T" ; time:long_name = "time" ; time:units = "seconds since 1-1-1 0:0:0" ; float x1(x1) ; x1:axis = "Z" ; x1:units = "m" ; x1:long_name = "altitude" ; float x1f(x1f) ; x1f:axis = "Z" ; x1f:units = "m" ; x1f:long_name = "altitude" ; float x2(x2) ; x2:axis = "Y" ; x2:units = "degrees_north" ; x2:long_name = "latitude" ; float x2f(x2f) ; x2f:axis = "Y" ; x2f:units = "degrees_north" ; x2f:long_name = "latitude" ; float x3(x3) ; x3:axis = "X" ; x3:units = "degrees_east" ; x3:long_name = "longitude" ; float x3f(x3f) ; x3f:axis = "X" ; x3f:units = "degrees_east" ; x3f:long_name = "longitude" ; float rho(time, x3, x2, x1) ; rho:units = "kg/m^3" ; rho:long_name = "density" ; float press(time, x3, x2, x1) ; press:units = "pa" ; press:long_name = "pressure" ; float vel1(time, x3, x2, x1) ; vel1:units = "m/s" ; vel1:long_name = "velocity in z-coordinate" ; float vel2(time, x3, x2, x1) ; vel2:units = "m/s" ; vel2:long_name = "velocity in y-coordinate" ; float vel3(time, x3, x2, x1) ; vel3:units = "m/s" ; vel3:long_name = "velocity in x-coordinate" ; }

Could you help me with this problem?

Helpful additional information (Please click check boxes AFTER submitting ticket)

• [ Y] Did VAPOR crash?
• [ ] Did you get wrong results?

Impact

• [ Y] High - User productivity significantly degraded
• [ ] Medium - User productivity partially degraded
• [ ] Low - User productivity trivially degraded

To Reproduce

Steps to reproduce the behavior. For example:

1. Go to '...'
2. Click on '....'
3. Scroll down to '....'
4. See error

Additionally, please attach a session file to this ticket to easily reproduce (use File->Save Session).

Expected behavior

A clear and concise description of what you expected to happen.

Attachments

• Can you reproduce the bug on our test data?
  • If so, which file?
  • If not, access to your data would be very helpful. If the data set is small, please zip and upload it as an attachment. If it is large, please provide instructions for how we can contact you to obtain this data.
• Please attach a session file to easily reproduce (use File->Save Session).
• Please attach any screenshots relevant to understanding the issue.

Desktop

• OS and version: [e.g. Ubuntu 18.04]
• Version: [e.g. Vapor 3.1]

Additional context

Add any other context about the problem here. Attach any (zipped) relevant files, such as data, configurations, session files, etc.

[clyne]

I'm not sure if this is your problem, but with georeferenced data VAPOR definitely expects the vertical dimension to be the slowest varying spatial dimension (this is probably what chchecks is complaining about). I.e. you have:

float vel2(time, x3, x2, x1) ;

try re-ordering your data variables so you have:

float vel2(time, x1, x2, x3) ;

[luminoctum]

I see. That may be the problem. Thanks!

[luminoctum]

But it would be better to have some error message. Right now, the program just crashes unexpectedly.

[clyne]

Agreed. Can you provide a test file that demonstrates the problem?

[sgpearse]

Related to #3301, in which we need better error messages. Nonetheless vapor should not be crashing. However we have no way to reproduce this so we will close for now.