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| other:newppl:starting [2022/11/18 11:46] – Added a specific Text editors section jypeter | other:newppl:starting [2023/02/01 17:38] – [NetCDF and file formats] Improved the section jypeter |
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| ==== Text editors ==== | ==== Text editors ==== |
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| <note important>A //jupyter notebook// is not a text editor! You need a correct text editor to efficiently work with scripts and programs</note> | <note important>A //jupyter notebook// is **not** a text editor! |
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| There are **lots** of text editors used on Linux computers/servers (vi, vim, gvim, emacs, nano, ...), that you can use: | **You need a correct text editor to efficiently work with scripts and programs** |
| * in basic text terminals (if you know the basic commands and shortcuts) | |
| * or in graphic mode (you may need to have an [[other:x_conf|X server configured]]) | {{ :other:newppl:real_programmers.png?direct&600 |}} [[https://www.explainxkcd.com/wiki/index.php/378:_Real_Programmers|xkcd & Real Programmers]]</note> |
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| | There are **lots of text editors available** on Linux computers/servers (''emacs'', ''nano'', ''vi'', ''vim'', ''gvim'', ''gedit'', ...). You can use them: |
| | * In basic **text terminals** |
| | * useful if you are in a hurry, and/or working on a remote server with a bad network connection or have no local [[other:x_conf|X server]] running |
| | * you should know the basic commands and shortcuts! Some text editors (e.g ''nano'') fortunately display some help at the bottom of the screen |
| | |
| | * With a **full Graphical User Interface** (aka //GUI//) allowing you to use the mouse+menus/buttons/etc... |
| | * you will need to have a //local// [[other:x_conf|X server]] running, if you want to use the text editor GUI on a //remote// server |
| |
| === emacs === | === emacs === |
| |
| * An annotated reference card of the ''emacs'' text editor ({{:other:newppl:emacs_jyp.pdf}}) | <note important>Read the **dedicated [[other:emacs_doc|Using emacs]] page**, and become a power user!</note> |
| * JYP's .emacs file: {{:other:emacs_linux_150806.tar|for Linux}} - {{:other:emacs_win_7_64_140408.zip|for Windows}}, with [[other:win7apps#gnu_emacs_gnuwin_diffutils|emacs for Windows]] | |
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| === vi (vim, gvim) === | === vi (vim, gvim) === |
| * [[https://www.atmos.albany.edu/daes/atmclasses/atm350/vi_cheat_sheet.pdf|vi cheat sheet]] | * [[https://www.atmos.albany.edu/daes/atmclasses/atm350/vi_cheat_sheet.pdf|vi cheat sheet]] |
| * [[https://web.mit.edu/merolish/Public/vi-ref.pdf|vi reference card]] | * [[https://web.mit.edu/merolish/Public/vi-ref.pdf|vi reference card]] |
| ==== NetCDF and file formats ==== | |
| | === Notepad++ === |
| | |
| | [[other:win10apps#notepad|Notepad++]] is a nice and powerful text editor for **Windows**, but it is also very easy to [[other:emacs_doc#windows_installation|install emacs on Windows]] |
| | ==== NetCDF and related Conventions ==== |
| | |
| | === Super-short introduction to NetCDF === |
| |
| * What are binary ({{:other:newppl:binaire_jyp.pdf}}) and NetCDF ({{:other:newppl:netcdf_jyp.pdf}}) files? | * What are binary ({{:other:newppl:binaire_jyp.pdf}}) and NetCDF ({{:other:newppl:netcdf_jyp.pdf}}) files? |
| * The NetCDF file format is **self-documented**, and the metadata of climate data files often follows the [[http://cfconventions.org/|CF (Climate and Forecast) Metadata Conventions]] | * The NetCDF file format is **self-documented**, and the metadata of climate data files often follows the [[http://cfconventions.org/|CF (Climate and Forecast) Metadata Conventions]] |
| * The files in the [[https://esgf-node.ipsl.upmc.fr/projects/esgf-ipsl/|CMIPn (n ≥ 5) database]] are written with the [[https://cmor.llnl.gov/|CMOR 3 library]] in order to make sure that they follow exactly the requested standards | * The files in the [[https://esgf-node.ipsl.upmc.fr/projects/esgf-ipsl/|CMIPn (n ≥ 5) database]] are written with the [[https://cmor.llnl.gov/|CMOR 3 library]] in order to make sure that they follow exactly the requested standards |
| * You can use [[other:win7apps#panoply|Panoply]] and [[http://meteora.ucsd.edu/~pierce/ncview_home_page.html|ncview]] for visualizing quickly the NetCDF files | |
| * [[https://code.zmaw.de/projects/cdo/wiki/Cdo#Documentation|Climate Data Operators]] for manipulating NetCDF files (and some other formats) | |
| * [[http://nco.sourceforge.net/#RTFM|netCDF Operator (NCO)]] for manipulating NetCDF files | === Some ways of working with NetCDF without programming === |
| * [[http://cfconventions.org/|NetCDF CF (Climate and Forecast) Metadata Conventions]]: this will help you understand the information you get when you do a ''ncdump -h some_climate_data_file.nc'' | |
| * Using Python to work with NetCDF data: | * Displaying the content of a NetCDF file in a text format\\ Check the ''ncdump'' [[https://docs.unidata.ucar.edu/nug/current/netcdf_utilities_guide.html#ncdump_guide|options]]. People usually want to quickly check the metadata, and use other programs to work with the actual data |
| * Using the [[http://uv-cdat.llnl.gov/documentation/cdms/cdms.html|cdms2]] module if you work with the [[other:python:starting#uv-cdat|UV-CDAT distribution]] | * ''ncdump some_climate_data_file.nc'': dump the full content to text |
| * Using the [[http://unidata.github.io/netcdf4-python/|netCDF4]] module | * ''ncdump -h some_climate_data_file.nc'': only display the metadata |
| | * You can use [[other:win7apps#panoply|Panoply]] and [[http://meteora.ucsd.edu/~pierce/ncview_home_page.html|ncview]] for quickly visualizing NetCDF files |
| | * Manipulating NetCDF files: |
| | * [[https://code.zmaw.de/projects/cdo/wiki/Cdo#Documentation|Climate Data Operators]] (''cdo'') |
| | * [[http://nco.sourceforge.net/#RTFM|netCDF Operator]] (//NCO// operators) |
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| | |
| | === NetCDF related Conventions === |
| | |
| | * [[http://cfconventions.org/|NetCDF CF (Climate and Forecast) Metadata Conventions]] |
| | * [[https://ugrid-conventions.github.io/ugrid-conventions/|UGRID Conventions]] for storing unstructured (or flexible mesh) model data |
| | * [[http://sgrid.github.io/sgrid/|SGRID Conventions]] for storing staggered data on structured grids that are consistent with the UGRID conventions |
| | |
| | === Using NetCDF with Python === |
| | |
| | |
| | Check the [[other:python:jyp_steps#using_netcdf_files_with_python|dedicated section]] of the //Python// page |
| |
| ==== Programming languages ==== | ==== Programming languages ==== |
