Commit 270d1c01 authored by Holger Dinkel's avatar Holger Dinkel

fix broken links

parent 119f16dd
......@@ -7,18 +7,20 @@ Links
- A full 500 page book about the Linux commandline for free(!): `LinuxCommand.org <http://linuxcommand.org/>`_ [#l1]_
- Another nice introduction: `"A beginner's guide to UNIX/Linux" <http://www.mn.uio.no/astro/english/services/it/help/basic-services/linux/guide.html>`_ [#l2]_
- The "*commandline starter*" chapter of an O'Reilly book: `Learning Debian GNU/Linux - Issuing Linux Commands <http://oreilly.com/openbook/debian/book/ch04_01.html>`_ [#l3]_
- The "*commandline starter*" chapter of an O'Reilly book: `Learning Debian GNU/Linux - Issuing Linux Commands <http://www.oreilly.com/openbook/debian/book/ch04_01.html>`_ [#l3]_
- A nice introduction to Linux/UNIX file permissions: `"chmod Tutorial" <http://www.catcode.com/teachmod/>`_ [#l4]_
- `Linux Cheatsheets <http://www.cheat-sheets.org/#linux>`_ [#l5]_
- For the technically interested:
`Linux Filesystem Hierarchy Standard <http://www.pathname.com/fhs/>`_ [#l6]_ and
`Linux Standard Base <http://www.linuxfoundation.org/collaborate/workgroups/lsb>`_ [#l7]_
- `Unix commands applied to bioinformatics <http://rous.mit.edu/index.php/Unix_commands_applied_to_bioinformatics>`_ [#l8]_
- `Linux Cheatsheets <http://www.cheat-sheets.org/#Linux>`_ [#l5]_
- `BioPieces <http://code.google.com/p/biopieces>`_ [#l9]_ are a collection of bioinformatics tools that can be pieced together in a very easy and flexible manner to perform both simple and complex tasks.
- `Google shell style guide <https://code.google.com/p/google-styleguide>`_ [#l10]_
- `Useful bash one-liners for bioinformatics <https://github.com/stephenturner/oneliners>`_ [#l11]_
- Interactive explanation of your commandline: `Explain Shell <http://www.explainshell.com>`_ [#l12]_
- `Bash One-Liners Explained, Part III: All about redirections <http://www.catonmat.net/blog/bash-one-liners-explained-part-three>`_ [#l14]_
- `Bash Redirections Cheat Sheet <http://www.catonmat.net/blog/bash-redirections-cheat-sheet>`_ [#l15]_
- `Redirection Tutorial <http://wiki.bash-hackers.org/howto/redirection_tutorial>`_ [#l16]_
.. - For the technically interested: `Linux Filesystem Hierarchy Standard <http://www.pathname.com/fhs/>`_ [#l6]_ and `Linux Standard Base <http://www.linuxfoundation.org/collaborate/workgroups/lsb>`_ [#l7]_
Command Line Mystery Game
^^^^^^^^^^^^^^^^^^^^^^^^^
......@@ -37,8 +39,8 @@ To play the game, get the files from github and read the instructions:
cat instructions
Real printed paper books
^^^^^^^^^^^^^^^^^^^^^^^^
Recommended Reading: Real printed paper books
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
- Dietz, M., "*Praxiskurs Unix-Shell*", O'Reilly (highly recommended!, German language only)
- Herold, H., "*awk & sed*", Addison-Wesley
......@@ -94,17 +96,17 @@ of the BioInformatics Center (BIC), National University of Singapore (NUS).
.. [#l1] `http://linuxcommand.org/ <http://linuxcommand.org/>`_
.. [#l2] `http://www.mn.uio.no/astro/english/services/it/help/basic-services/linux/guide.html <http://www.mn.uio.no/astro/english/services/it/help/basic-services/linux/guide.html>`_
.. [#l3] `http://oreilly.com/openbook/debian/book/ch04_01.html <http://oreilly.com/openbook/debian/book/ch04_01.html>`_
.. [#l3] `http://www.oreilly.com/openbook/debian/book/ch04_01.html <http://www.oreilly.com/openbook/debian/book/ch04_01.html>`_
.. [#l4] `http://www.catcode.com/teachmod/ <http://www.catcode.com/teachmod/>`_
.. [#l5] `http://www.cheat-sheets.org/#linux <http://www.cheat-sheets.org/#linux>`_
.. [#l6] `http://www.pathname.com/fhs/ <http://www.pathname.com/fhs/>`_
.. [#l7] `http://www.linuxfoundation.org/collaborate/workgroups/lsb <http://www.linuxfoundation.org/collaborate/workgroups/lsb>`_
.. [#l8] `http://rous.mit.edu/index.php/Unix_commands_applied_to_bioinformatics <http://rous.mit.edu/index.php/Unix_commands_applied_to_bioinformatics>`_
.. [#l5] `http://www.cheat-sheets.org/#Linux <http://www.cheat-sheets.org/#Linux>`_
.. [#l9] `http://code.google.com/p/biopieces <http://code.google.com/p/biopieces>`_
.. [#l10] `https://code.google.com/p/google-styleguide <https://code.google.com/p/google-styleguide>`_
.. [#l11] `https://github.com/stephenturner/oneliners <https://github.com/stephenturner/oneliners>`_
.. [#l12] `http://www.explainshell.com <http://www.explainshell.com>`_
.. [#l13] `https://github.com/veltman/clmystery <https://github.com/veltman/clmystery>`_
.. [#l14] `http://www.catonmat.net/blog/bash-one-liners-explained-part-three <http://www.catonmat.net/blog/bash-one-liners-explained-part-three>`_
.. [#l15] `http://www.catonmat.net/blog/bash-redirections-cheat-sheet <http://www.catonmat.net/blog/bash-redirections-cheat-sheet>`_
.. [#l16] `http://wiki.bash-hackers.org/howto/redirection_tutorial <http://wiki.bash-hackers.org/howto/redirection_tutorial>`_
.. [#c1] `http://fedoraproject.org/wiki/FedoraLiveCD <http://fedoraproject.org/wiki/FedoraLiveCD>`_
.. [#c2] `http://knopper.net/knoppix <http://knopper.net/knoppix>`_
......
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