Age of Water - User contributions [en]

Run GLM demo by Bruce Hargreaves

2014-10-23T10:58:53Z

Hargreaves: Set PropertyValue: Progress = 100

[[Category:Task]]
 
What this task is about: Follow the task instructions to install the GLM model and run the model demo in R 
Details on how to do this task: [[Run_GLM_demo]] 


{{#set:
Owner=Bruce_Hargreaves|
Progress=100|
StartDate=2014-10-21|
TargetDate=2014-10-26|
Type=Low}}

Install R packages by Bruce Hargreaves

2014-10-23T10:58:03Z

Hargreaves: Set PropertyValue: Progress = 100

[[Category:Task]]
 
What this task is about: Install the R packages 
Details on how to do this task: [[R_Packages]] 


{{#set:
Owner=Bruce_Hargreaves|
Progress=100|
StartDate=2014-10-20|
TargetDate=2014-10-26|
Type=Low}}

Run GLM demo

2014-10-23T10:55:32Z

Hargreaves: Set PropertyValue: Progress = 100

[[Category:Task]]


===Installing required packages===

For '''windows, OSX, or Linux''' use use the following command in R:
<code><pre> install.packages("glmtools",
repos = c("http://gleon.github.com/", "http://cran.us.r-project.org", "http://usgs-r.github.com/"),
dependencies = TRUE,
type = "both")</pre></code>

You now have GLM (<code>GLMr</code>), R tools for GLM (<code>glmtools</code>), NetCDF file handlers (<code>ncdf</code>), and <code>rLakeAnalyzer</code> installed!!

===Run GLM demo===
<code><pre>library(GLMr)
demo(glm)</pre></code>

If you get a success message, your task is complete!

===Troubleshooting===
Mac Users: If you get a 'permission denied error' when running demo(glm), you must change the permission setting on the sim folder in terminal.
 Example error:
<code><pre> sh: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/GLMr/extbin/macGLM/bin/glm: Permission denied </pre></code>

'''Steps'''
* Open TERMINAL
* Change directory folder to that listed in the error. (copy bold text, and change to match your personal file path)
example:
''MyLovley-MacBook-Pro:~ user$'' '''cd /Library/Frameworks/R.framework/Versions/3.0/Resources/library/GLMr/extbin/macGLM/bin'''
** If you type '''ls''', you should see 10 files, one of which is titled 'glm'
* Type
<code><pre> chmod 755 glm </pre></code>
* You should now be able to run demo(glm)


{{#set:
Owner=Jordan_Read|
Progress=100|
StartDate=2014-10-18|
TargetDate=2014-10-24|
Type=Low}}

Run GLM demo

2014-10-23T04:20:15Z

Hargreaves: Set PropertyValue: Progress = 75

[[Category:Task]]


===Installing required packages===

For '''windows, OSX, or Linux''' use use the following command in R:
<code><pre> install.packages("glmtools",
repos = c("http://gleon.github.com/", "http://cran.us.r-project.org", "http://usgs-r.github.com/"),
dependencies = TRUE,
type = "both")</pre></code>

You now have GLM (<code>GLMr</code>), R tools for GLM (<code>glmtools</code>), NetCDF file handlers (<code>ncdf</code>), and <code>rLakeAnalyzer</code> installed!!

===Run GLM demo===
<code><pre>library(GLMr)
demo(glm)</pre></code>

If you get a success message, your task is complete!

===Troubleshooting===
Mac Users: If you get a 'permission denied error' when running demo(glm), you must change the permission setting on the sim folder in terminal.
 Example error:
<code><pre> sh: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/GLMr/extbin/macGLM/bin/glm: Permission denied </pre></code>

'''Steps'''
* Open TERMINAL
* Change directory folder to that listed in the error. (copy bold text, and change to match your personal file path)
example:
''MyLovley-MacBook-Pro:~ user$'' '''cd /Library/Frameworks/R.framework/Versions/3.0/Resources/library/GLMr/extbin/macGLM/bin'''
** If you type '''ls''', you should see 10 files, one of which is titled 'glm'
* Type
<code><pre> chmod 755 glm </pre></code>
* You should now be able to run demo(glm)


{{#set:
Owner=Jordan_Read|
Progress=75|
StartDate=2014-10-18|
TargetDate=2014-10-24|
Type=Low}}

GLM Data Requirements

2014-10-23T04:09:51Z

Hargreaves: Set PropertyValue: Progress = 100

[[Category:Task]]


====GLM Data Requirements====

'''For GLM v1.4:'''

No installation is required for GLM. Simply download the binary files for v1.4 from the [http://aed.see.uwa.edu.au/research/models/GLM/ GLM Website].

To create a simulation specific to your lake, start by downloading sample files from Lake Mendota or one of the examples provided by the [http://aed.see.uwa.edu.au/research/models/GLM/ GLM Website]. Edit the files by adding data specific to your lake, following the description in the PDF link below.

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

Description of GLM data requirements for your lake: [[Media:INSPIRE_GLM_data_req.pdf]]

Lake Mendota Example Files: [[Media:Glmv1.4_example_files.zip]]

Example files for 'coldlake': [[Media:Glmv1.4_coldlake.zip]]


{{#set:
Progress=100}}

Set up R by Bruce Hargreaves

2014-10-23T04:04:13Z

Hargreaves: Set PropertyValue: Progress = 100

[[Category:Task]]
 
What this task is about: Install the R programming language and the RStudio software. These tools will be used to prep GLM models, run GLM models, and analyze the results 
Details on how to do this task: [[Installing_R]] 


{{#set:
Owner=Bruce_Hargreaves|
Progress=100|
StartDate=2014-10-19|
TargetDate=2014-10-26|
Type=Low}}

Download PIHMgis tutorial and documents by Bruce Hargreaves

2014-10-23T04:03:54Z

Hargreaves: Set PropertyValue: Progress = 100

[[Category:Task]]
 
What this task is about: You may also download archive of relevant PIHM/PIHMgis documents. 
Details on how to do this task: [[Download_PIHMgis_tutorial_and_documents]] 


{{#set:
Owner=Bruce_Hargreaves|
Progress=100|
StartDate=2014-10-18|
TargetDate=2014-10-26|
Type=Low}}

Download PIHMgis input data by Bruce Hargreaves

2014-10-23T04:02:53Z

Hargreaves: Set PropertyValue: Progress = 100

[[Category:Task]]
 
What this task is about: Download input geo-spatial datasets that we will be using to develop a prototype catchment simulation using PIHMgis. Please have the dataset specific to software version you installed downloaded on your laptop at an easily identifiable and accessible folder e.g., "PIHMWorkshop" in your users home directory. 
Details on how to do this task: [[Download_PIHMgis_input_data]] 


{{#set:
Owner=Bruce_Hargreaves|
Progress=100|
StartDate=2014-10-17|
TargetDate=2014-10-26|
Type=Low}}

Download and install PIHMgis software by Bruce Hargreaves

2014-10-23T04:01:36Z

Hargreaves: Set PropertyValue: Progress = 100

[[Category:Task]]
 
What this task is about: Download PIHMgis, and select appropriate version of PIHMgis based on the operating system that you are running on your computer. Version 3.0 is not available for Windows yet. 
Details on how to do this task: [[Download_and_install_PIHMgis_software]] 


{{#set:
Owner=Bruce_Hargreaves|
Progress=100|
StartDate=2014-10-16|
TargetDate=2014-10-26|
Type=Low}}