16. Importing different climatic change scenarios from WorldClim to ModestR (Version ModestR 5.6 or higher)

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Step by step tutorial:
Importing different climatic
change scenarios from WorldClim
to ModestR

What do you need for this tutorial:
1. ModestR v.5.6 or higher installed
2. Internet connection
3. About 40 minutes
ModestR software can be freely downloaded from http://www.ipez.es/ModestR

We’ll describe how to import different
climatic change scenarios from WorldClim
to ModestR. This is necessary for example
to use the 3D Niche capability of ModestR
to model species distribution along those
scenarios. Follow the next steps!

You have to download
WorldClim data, from
http://www.worldclim.org/
website, then to version 2.0.

NOTE to download bioclimatic variables
ModestR supports data with a
maximum resolution of 1 minute. We
recommend using data with a resolution
of 5 minutes.
Data will be downloaded as a single zip.
Decompress it in a folder!

Then, you have to download
WorldClim future climate data, from
http://www.worldclim.org/cmip5v1
website.
Select for example data at 5
minutes of resolution.

You can download climate projections for 2050 and 2070. There
are different scenarios (RCP26, RCP45…).
For this example we’ll use RCP26. But you can perform the
same procedure to import and use other ones.
Bioclimatic variable.- CCSM4
Scenario.- RCP26
Time Periods.- 2050 and 2070
Data will be downloaded as zip files. Decompress them in
the same folder than previously downloaded WorldClim data.

Now you’ll have all the files in the same folder. To make
them easier to locate, we’ll rename them in this way:
Future Climatic data ( CCSM4 –RCP26 – 2050)
Rename files with name “cc6bi50[X].tif” to “bio[X] ccsm4 rcp26 2050.tif”
For example:
cc26bi501.tif -> bio01 ccsm4 rcp26 2050.tif
Future Climatic data ( CCSM4 –RCP26 – 2070)
Rename files with name “cc6bi70[X].tif” to “bio[X] ccsm4 rcp26 2070.tif”
For example:
Bioclimatic Variables data
Rename files with name “wc2.0_bio_5m_[X].tif” to “bio[X] 2000.tif”
For example:
wc2.0_bio_5m_01.tif -> bio01 2000.tif
wc2.0_bio_5m_14.tif -> bio14 2000.tif

Now you’ll have all the files renamed.
This step is very important
because in this way ModestR will be
able to assign the corresponding year
to each variable, as we’ll see later.

We need now to group them in
folders.
Each folder will contain the
three files that refer to the same
bioclimatic variable, for the three
years (2000, 2050 and 2070):
Folder BIO02
Those three files will be moved to
a new folder called BIO02
Folder BIO01
Folder BIO19
Folder BIO??
… Etc …

Now we have a folder with several subfolders
(from BIO01 to BIO19), each one containing 3
files: for year 2000, 2050 and 2070.
Let’s rename the main folder as
“WorldClim RCP26”. Now we are ready to
import them to ModestR!
The main folder contains subfolders from BIO01 to BIO19
Each subfolder contains 3 files, for year 2000,
2050 and 2070 respectively.
Rename the main folder as “WorldClim RCP26”

Run ModestR MapMaker application
Note.- In ModestRv2.0 this option is located
in the Options menu item. In more recent
releases it is found in the Layers menu item
Go to menu “Layers/Manage environmental variables”

An Environmental variables management
dialog box will be displayed. Then click on the
Import button in the bottom panel.
Click on the “Import” button, then on the “Folder”
option.
Next select the main folder that contains all the
data to be imported (WorldClim RCP26).

Data importation will start.
Be patient, this can take some time!

Now we have all the data imported in
ModestR and grouped by variable,
the same way we grouped the files in
folders.

We can see that ModestR automatically
assigned a Z value to each variable using
the number at the end of the
corresponding filename
Moreover, ModestR automatically used the year indicated at the end of
each file name to assign it as Z value to each imported variable.
1) Select a variable in the tree
But by default the Z value is interpreted as a
depth, not as a year. We’ll modify this in a
later step

2) Then select “File Settings” tab in the right panel
But before continuing we have to be sure that all variables have the same dimensions. In fact, you can
see that variables for year 2000 don’t have the same dimensions than those for years 2050 and 2070.
Here variable dimensions are shown

To solve that we’ll clip all variables
to the same dimensions
2) Select “Open variables of this folder in raster tool”
in the contextual menu, then select “Include all
subfolders” in the submenu.
1) Select the WorldClim RCP26 node and right-
click

The Raster tool will be opened. This tool can be used to easily modify raster size, precision and more. When opened
from the Variables Manager, it allows directly editing the variables integrated in ModestR.
Here the list of variables to be modified is shown.
As you can see, the rasters for years 2050 and 2070
are of smaller size than those of year 2000.
So we’ll have to resize them to obtain that all raster
have the same size.
1) Select the operation to be done on rasters
“Clip data to selected region”
2) Enter the wanted size. Just change minimum latitude to -60.
The remaining default values are ok.
3) Click on “Save”
4) Click on “Accept”

Clipping will be performed

Click on “Accept”
As several of the selected variables already have the
target size, a warning will appear indicating that fact.
No problema, it’s OK!

Click on “Raster Tool”
Well, in fact there is another issue to solve:
* some of the WorldClim variables from climate projections (years
2050 and 2070) are not in the same scale than the corresponding ones for
current situation (year 2000).
In fact they are multiplied by 10 (this is indicated in WorldClim website).
So we have to correct this to have all variables with the same scale.

1) Click on this button to select
the variables to be modified.
2) Select the variables in this dialog box.
Please be sure of selecting all and only
the variables that have to be modified
(year 2050 and 2070)
3) Click on “Accept”
The variables to be modified are those for BIO01, BIO02, BIO04, BIO05, BIO06, BIO07, BIO08,
BIO09, BIO10 to BIO11, BUT ONLY corresponding to years 2050 and 2070.
That is “BIO01 CCSM4 RCP26 2050”, “BIO01 CCSM4 RCP26 2070”, “BIO02 CCSM4 RCP26 2050”,
“BIO02 CCSM4 RCP26 2070”, etc.
Be aware of selecting the correct variables!

Check that all and only the
wanted variables are in the list
2) Select the Advanced tab
1) Check “Transform raster values”
The modification to be applied is to divide by 10 all
values of those variables, to achieve that they’ll be at
the same scale that the corresponding variables for
year 2000.
To do that we’ll use the transformation feature of
the Raster tool.

We’ll add two transformation rules to indicate that any value of the selected rasters should have to be divided by 10.
1) The transformation rules to add are:
* IF [X]>=0 THEN [X]=[X]/10
* IF [X]<0 THEN [X]=[X]/10
Enter them using the operator
selectors and the text boxes.
Those buttons allow to add/delete rules
Please be sure that both rules correspond to the
shown here.
3) Then “Save” changes.
And be patient, this can take some time!
4) “Accept” to continue

Transformation will start.
Be patient, this can take
some time!

1) Select the WorldClim RCP26
node and right-click
2) Select “Convert all subfolders to
3D datasets” in the contextual menu
Now that we have homogenous variables we can
convert each variable folder to a 3D dataset, which is
a type of dataset containing several data for the same
variable, for different Z values (where Z can be for
example depth, or time, as in this case).

Done! Now we have a collection of 3D datasets.
3D icon identifies a 3D dataset

1) Select the WorldClim RCP26
node and right-click
2) Select “Change all variables Z
Meaning” to in the contextual menu,
then select “Year” in the submenu.
But we still have to change the meaning of the
Z dimension to set it as year, in turn of the
default meaning that is depth.

Done!
Now we have a collection of 3D datasets.
Each dataset contains values for a variable
(i.e. BIO1) for different years.
The Z meaning is now set to Year
2) “Close”

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You can download and import more scenarios from WorldClim, such as RCP45, RCP60 and so on.
To import them to ModestR you have to repeat ALL steps of this tutorial. Just name the new
folders as ”WorldClim RCP45”, WorldClim RCP60”… for example.
And don’t forget to always include WorldClim data for current conditions (whose we called here
“BIO1 2000”, “BIO2 2000”, etc.), as explained at the beginning of this tutorial. This is necessary to
correctly define 3D variables for each scenario.

It was the Step by step tutorial:
Importing different climatic change scenarios from WorldClim
to ModestR
Thank you for your interest.
You can find this one and other tutorials in http://www.ipez.es/ModestR
By the ModestR team

16. Importing different climatic change scenarios from WorldClim to ModestR (Version ModestR 5.6 or higher)

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