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Commit d97e5fb2 authored by Jenni Rinker's avatar Jenni Rinker
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Updating documentation URLs, formatting, text 

Some issues with URLs (broken links and wrong pages), formatting
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......@@ -23,70 +23,73 @@ from the subordinate spreadsheets, submit those HTC files to the cluster,
and post-process results.
[houserules-mimerhawc2sim](docs/houserules-mimerhawc2sim.md) has some
"house rules" on storing simulations on mimer.
[docs/using-statistics-df.md](using-statistics-df) has some information
[using-statistics-df.md](docs/using-statistics-df) has some information
on loading the post-processing statistics using Python.
## Steps
##### 1. Make sure that you can access the cluster/mimer according to the instructions in [wetb](README.md)
##### 1. Make sure that you can access the cluster/mimer.
See the instructions on [this page](docs/howto-make-dlcs.md).
##### 2. Create a Set ID folder for this project/simulation (detailed house rules [houserules-mimerhawc2sim](docs/houserules-mimerhawc2sim.md))
a. Navigate to or create the folder corresponding to your model on
```\\mimer.risoe.dk\hawc2sim```. You should create a new turbine model folder
only when the turbulence box size changes (e.g., if the rotor size changes) or
if you have a completely new model. You now have two options:
##### 2. Create a Set ID folder for this project/simulation.
You should find that, within a given turbine model, the folder structure is
similar to the following:
i. Create a new Set ID alpha code (e.g., "AA", "AB", etc.) You should
only do this if no one else in your project has run simulations on mimer.
ii. Use a pre-existing Set ID alpha code. This is preferable, but be
sure to contact whoever created/used the alpha code most recently to
verify it is okay to use.
b. Create a new Set ID folder. If you have a new Set ID alpha code (e.g.,
"AB"), then it should be that code followed by "0000". If you are using a
pre-existing Set ID alpha code, then just add 1 to the most recent number
(e.g., if "AB0008" exists, your new folder is "AB0009").
```
|-- DTU10MW/
| |-- AA0001
| | |-- ...
| |-- AA0002
| | |-- ...
| |-- ...
| |-- AB0001
| |-- ...
|-- AA_log_DTUMW.xlsx
|-- AB_log_DTUMW.xlsx
|-- ...
```
##### 3. Add proper log files for your Set ID folder. (See [using-statistics-df](docs/using-statistics-df.md))
Here, each of these alphanumeric folders are "set IDs", and you should have a
unique set ID for each set of simulations. Detailed house rules on how you
should store data on mimer can be found in the
[houserules-mimerhawc2sim](docs/houserules-mimerhawc2sim.md) document.
There are two steps to creating your new set ID folder:
1. Determine if you need to create a new turbine model folder. You should only
do this when the turbulence box size changes (e.g., if the rotor size changes)
or if you have a model that's never been simulated on mimer.
2. Determine your set ID code. There are two scenarios:
* No one else in your project has run simulations on mimer. In this case,
create a new set ID alpha code (e.g., "AA", "AB", etc.).
* Simulations for this project/turbine configuration already exist. In this
case, use a pre-existing set ID alpha code and add one to the most recent
Set ID (e.g., if "AB0008" exists, your new folder should be "AB0009").
##### 3. Add proper log files for your Set ID folder.
See the [house rules](docs/houserules-mimerhawc2sim.md) regarding log files.
##### 4. Add your model files.
Within your new Set ID folder, add your HAWC2 model files. Keep a folder
structure similar to this:
```
|-- animation
|-- control
|-- data
|-- externalforce
|-- htc
|-- iter
|-- logfiles
|-- pbs_in
|-- pbs_out
|-- res
|-- res_eigen
|-- turb
AA0001_ErrorLog.csv
DTU10MW_AA0001.zip
pbs_in_file_cache.txt
|-- control/
| |-- ...
|-- data/
| |-- ...
|-- htc/
| |-- _master/
| | |-- TURB_master_AA0001.htc
| |-- DLCs.xlsx
```
Your ```htc```, ```pbs_in```, and ```pbs_out``` folders will be empty at this time.
Your master htc file, stored in ```htc/_master/```, can take any desired naming
convention, but it must have ```_master_``` in the name or future scripts will
abort. ```htc/DLCs.xlsx``` is your master Excel file that will create the
subordinate Excel files in the coming steps.
##### 5. Structure your Set ID/htc folder like this:
```
|-- _master
DLCs.xlsx
```
Place your master HTC file in the _master folder (NOTE that it must have
"_master_" in its name or later scripts won’t find it). ```DLCs.xlsx``` is
your master Excel file that will create the subordinate Excel files in the coming
steps.
##### 6. Create your subordinate Excel files.
##### 5. Create your subordinate Excel files.
From a terminal, change to your htc directory. Then run the following code:
```
......@@ -99,12 +102,13 @@ $ source deactivate
This will create a subfolders DLCs and fill that new subfolder with the created
subordinate Excel files.
##### 7. Move your DLCs.xlsx file from the htc folder to the _master folder.
##### 6. Move your DLCs.xlsx file from the htc folder to the ```_master``` folder.
It will cause errors in later scripts if left in the htc folder.
##### 8. Create your htc files and corresponding PBS job scripts from the subordinate Excel files.
In the terminal, change up a level to your Set ID folder (e.g., to folder
"AB0001"). Then run this code
##### 7. Create your htc files and PBS job scripts .
These files and scripts are generated from the subordinate Excel files from
Step 5. To do this, in the terminal, change up a level to your Set ID folder
(e.g., to folder "AB0001"). Then run this code
```
$ qsub-wrap.py -f /home/MET/repositories/toolbox/WindEnergyToolbox/wetb/prepost/dlctemplate.py --prep
......@@ -113,30 +117,36 @@ $ qsub-wrap.py -f /home/MET/repositories/toolbox/WindEnergyToolbox/wetb/prepost/
Your htc files should now be placed in subfolders in the htc folder, and PBS
job files should be in folder ```pbs_in```.
##### 9. Launch the htc files to the cluster.
For example, the following code will launch the jobs in folder pbs_in on 100
nodes. You must be in the top-level Set ID folder for this to work (e.g., in
folder "AB0001").
##### 8. Launch the htc files to the cluster.
Use the ```launch.py``` function to launch the jobs on the cluster.
For example, the following code will launch the jobs in folder ```pbs_in``` on
100 nodes. You must be in the top-level Set ID folder for this to work (e.g.,
in folder "AB0001").
```
$ launch.py -n 100 -p pbs_in/
```
use the ```launchy.py``` help function to get more options:
There are many launch options available. You can read more about the options
and querying the cluster configurations/status/etc. on
[this page](docs/howto-make-dlcs.md), or you can use the ```launchy.py```
help function to print available launch options:
```
$ launch.py --help
```
More information on launching options and cluster configurations/status/etc.
can be found on the [wetb README](README.md).
##### 9. Post-process results.
##### 10. Post-process results.
More detail in [docs/using-statistics-df.md](using-statistics-df). Here is
example code to check the log files, calculate the statistics, the AEP and the
lifetime equivalent loads: (Execute from top-level Set ID folder)
The wetb function ```qsub-wrap.py``` can not only generate htc files but also
post-process results. For example, here is code to check the log files
and calculate the statistics, the AEP and the lifetime equivalent loads
(must be executed from the top-level Set ID folder):
```
$ qsub-wrap.py -f /home/MET/repositories/toolbox/WindEnergyToolbox/wetb/prepost/dlctemplate.py --years=25 --neq=1e7 --stats --check_logs --fatigue
```
More details regarding loading the post-processed with statistics dataframes
can be found here: [using-statistics-df](docs/using-statistics-df.md).
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