VM test - could not find a pecan.xml

[taolin1]

library(PEcAn.all)
settings.file <- c("/home/dlebauer/dev/biocro_regional/vignettes/illinois_mxg_settings.xml")
settings <- read.settings(settings.file)
2015-08-31 09:04:20 SEVERE [read.settings] :
Could not find a pecan.xml file
Error in logger.severe("Could not find a pecan.xml file") :
Could not find a pecan.xml file

[dlebauer]

sorry - that workflow is not on the PEcAn VM. Here is what to do:

1. If you haven't already, and the PEcAn VM is connected to the world, change the username/password for the carya user

2. Set up an ssh key-pair with Github

3. clone the biocro_regional repository

   cd ${HOME}
   git clone [email protected]:ebimodeling/biocro_regional
   

4. cd into the pecan directory, checkout the biocro-module branch, and build PEcAn

   cd ${HOME}/pecan
   git pull
   git fetch --all 
   git checkout -b biocro-module2
   ./scripts/build.sh --dependencies
   

5. Change the file path to the PEcAn settings file

   • from "/home/dlebauer/dev/biocro_regional/vignettes/illinois_mxg_settings.xml"
   • to "${HOME}/biocro_regional/vignettes/illinois_mxg_settings.xml"

.... proceed, and let me know if this resolves the issue ...

[dlebauer]

How can I configure PEcAn VM to submit jobs to ROGER?

• create a new user account
• git clone [email protected]:pecanproject/pecan
• ./pecan/scripts/sshkey.sh
  • follow instructions (roger-login.ncsa.illinois.edu; username, copy-paste last line in terminal beginning with cat " .... ... to send public key to roger
• now this should work ...

[haohuuiuc]

Thanks, David! It works.

[haohuuiuc]

The sshkey setting looks okay, however, after I reload setting file and run to the following command,

start.model.runs(settings, settings$database$bety$write) # Start ecosystem model runs

It is still using my account instead of Tao's to submit jobs, any steps I missed?

[haohuuiuc]

Oh, just figured out I need to change the .ssh/config user name option, it works now.