The netCDF library - Historique des versions

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Emillour : Page créée avec « == the NetCDF library == The model reads and writes input and output files in NetCDF (Network Common Data Form) format (developed and maintained by Unidata: https://www.un... »

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Page créée avec « == the NetCDF library == The model reads and writes input and output files in NetCDF (Network Common Data Form) format (developed and maintained by Unidata: https://www.un... »

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== the NetCDF library ==
The model reads and writes input and output files in NetCDF (Network Common Data Form) format (developed and maintained by Unidata: https://www.unidata.ucar.edu/software/netcdf/ ) and therefore a NetCDF library must be at hand when compiling and running LMDZ6.

As this library is not quite standard, chances are that you might need to install it yourself on your system (note that the [[WhatIs: The install lmdz.sh script|install_lmdz.sh]] default behavior is to download and install that library), hence this page with some indications on how to do so.

=== Checking if a NetCDF library is already available ===
It is possible that the library, including its Fortran component, is already available. An easy way to check this is to see if the related utilities like '''ncdump''' are available, i.e. that
<syntaxhighlight lang="bash">
which ncdump
</syntaxhighlight>
returns a positive answer.

Note that this does not suffice as the full library, including its Fortran component, and not just the related utilities are required. A neat way to check this is to use the '''nf-config'''
<syntaxhighlight lang="bash">
nf-config --all
</syntaxhighlight>
returns something meaningful. If not, you probably need to take some action along the lines of what is indicated in the following sections.

=== Install via a system manager ===

@@ Ligne 20 : / Ligne 20 : @@
 === Install from the package repository of your Linux distribution ===
-This is the easiest (and recommended) way. For example, if your distribution is Ubuntu or Linux Mint (and you have admin, i.e. ''sudo'' rights), open a terminal and type:
+This is the easiest and fastest (and recommended) way. For example, if your distribution is Ubuntu or Linux Mint (and you have admin, i.e. ''sudo'' rights), open a terminal and type:
 <syntaxhighlight lang="bash">
 sudo apt install netcdf-bin libnetcdff-dev

@@ Ligne 19 : / Ligne 19 : @@
 == Various ways to install the NetCDF library ==
 === Install from the package repository of your Linux distribution ===
 This is the easiest (and recommended) way. For example, if your distribution is Ubuntu or Linux Mint (and you have admin, i.e. ''sudo'' rights), open a terminal and type:
 <syntaxhighlight lang="bash">
 sudo apt install netcdf-bin libnetcdff-dev
 </syntaxhighlight>
 === Personal installation ===

@@ Ligne 19 : / Ligne 19 : @@
 == Various ways to install the NetCDF library ==
 === Install from the package repository of your Linux distribution ===
-This is the easiest (and recommended) way. For exemple, if your distribution is Ubuntu or Linux Mint (and you have admin, i.e. ''sudo'' rights), open a terminal and type:
+This is the easiest (and recommended) way. For example, if your distribution is Ubuntu or Linux Mint (and you have admin, i.e. ''sudo'' rights), open a terminal and type:
 <syntaxhighlight lang="bash">
 sudo apt install netcdf-bin libnetcdff-dev

@@ Ligne 19 : / Ligne 19 : @@
 == Various ways to install the NetCDF library ==
 === Install from the package repository of your Linux distribution ===
-This is the easiest (and recommended) way. If your distribution is Ubuntu or Linux Mint (and you have admin, i.e. ''sudo'' rights), open a terminal and type:
+This is the easiest (and recommended) way. For exemple, if your distribution is Ubuntu or Linux Mint (and you have admin, i.e. ''sudo'' rights), open a terminal and type:
 <syntaxhighlight lang="bash">
 sudo apt install netcdf-bin libnetcdff-dev

@@ Ligne 18 : / Ligne 18 : @@
 == Various ways to install the NetCDF library ==
-=== Install via a system manager ===
+=== Install from the package repository of your Linux distribution ===
-This is the easiest (and recommended) way. If on Ubuntu (and with admin, i.e. ''sudo'' rights) you can try
+This is the easiest (and recommended) way. If your distribution is Ubuntu or Linux Mint (and you have admin, i.e. ''sudo'' rights), open a terminal and type:
 <syntaxhighlight lang="bash">
 sudo apt install netcdf-bin libnetcdff-dev

@@ Ligne 4 : / Ligne 4 : @@
 As this library is not quite standard, chances are that you might need to install it yourself on your system (note that the [[WhatIs: The install lmdz.sh script|install_lmdz.sh]] default behavior is to download and install that library), hence this page with some indications on how to do so.
-=== Checking if a NetCDF library is already available ===
+== Checking if a NetCDF library is already available ==
 It is possible that the library, including its Fortran component, is already available. An easy way to check this is to see if the related utilities like '''ncdump''' are available, i.e. that
 <syntaxhighlight lang="bash">
@@ Ligne 17 : / Ligne 17 : @@
 returns something meaningful. If not, you probably need to take some action along the lines of what is indicated in the following sections.
 === Install via a system manager ===
 If on Ubuntu (and with admin, i.e. ''sudo'' rights) you can try
@@ Ligne 24 : / Ligne 25 : @@
 === Personal installation ===
-One can always download the source code and compile the NetCDF library (see https://docs.unidata.ucar.edu/netcdf-c/current/faq.html#HowdoIgetthenetCDFsoftwarepackage ). You can use the following home-made "install_netcdf4_hdf5_seq.bash" script to do so. For this, ensure that you are in your home directory:
+One can always download the source code and compile the NetCDF library (see https://docs.unidata.ucar.edu/netcdf-c/current/faq.html#HowdoIgetthenetCDFsoftwarepackage ). You can use the following home-made "install_netcdf4_hdf5_seq.bash" script to do so. For this, ensure that you are in your home directory and:
 <syntaxhighlight lang="bash">
 mkdir netcdf
@@ Ligne 40 : / Ligne 41 : @@
 The assumption here is that you have run the "install_netcdf4_hdf5_seq.bash" script in a "netcdf" subdirectory of your home directory. Adapt accordingly if not.
 /01/2022

← Version précédente		Version du 3 janvier 2023 à 12:43
Ligne 18 :		Ligne 18 :

	=== Install via a system manager ===		=== Install via a system manager ===
		+	If on Ubuntu (and with admin, i.e. ''sudo'' rights) you can try
		+	<syntaxhighlight lang="bash">
		+	sudo apt install libnetcdff-dev
		+	</syntaxhighlight>
		+
		+	=== Personal installation ===
		+	One can always download the source code and compile the NetCDF library (see https://docs.unidata.ucar.edu/netcdf-c/current/faq.html#HowdoIgetthenetCDFsoftwarepackage ). You can use the following home-made "install_netcdf4_hdf5_seq.bash" script to do so. For this, ensure that you are in your home directory:
		+	<syntaxhighlight lang="bash">
		+	mkdir netcdf
		+	cd netcdf
		+	wget -nv --no-check-certificate http://www.lmd.jussieu.fr/~lmdz/pub/import/install_netcdf4_hdf5_seq.bash
		+	chmod u=rwx install_netcdf4_hdf5_seq.bash
		+	./install_netcdf4_hdf5_seq.bash > netcdf.log 2>&1
		+	</syntaxhighlight>
		+	Compiling the library and dependencies can take a while (>>15 minutes; be patient).
		+	Once this is done, check file netcdf.log to verify that all went well.
		+	You may want to also add its "bin" directory to your PATH environment variable by adding in your .bashrc a line of:
		+	<syntaxhighlight lang="bash">
		+	export PATH=$PATH:$HOME/netcdf/bin
		+	</syntaxhighlight>
		+	The assumption here is that you have run the "install_netcdf4_hdf5_seq.bash" script in a "netcdf" subdirectory of your home directory. Adapt accordingly if not.
		+
		+
		+	03/01/2022
		+
		+	[[Category:HowTo]]
		+	[[Category:WhatIs]]