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= Personal Data =
 
= Personal Data =
[http://ailab.ifi.uzh.ch/carbajal/ Juan Pablo Carbajal]
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[https://sites.google.com/site/juanpicarbajal/ Juan Pablo Carbajal]
 +
 
 +
= Tips and Tricks=
 +
== Get file info when generate_html fails or warns==
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Since generate_html gives errors about the random files generated, it is useless when debugging help text. The following command shows the first few lines of the files created by generate_html.
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 +
<pre> f_old=/tmp/$(ls -1 -t /tmp | head -1);while true; do f=/tmp/$(ls -1 -t /tmp | head -1); if [ "$f" != "$f_old" ]; then echo $f; grep '@def' --include="*octave-help*" $f; f_old=$f; fi; done</pre>
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 +
run this in a different terminal before using generate_html
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is not ideal,but it does the trick
 +
 
 +
== Make options ==
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Some options to pass to make when compiling from source
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# <pre> DOC_TARGETS= </pre> avoids building the PDF but still builds function helps.
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# <pre> --disable-atomic-refcount</pre> improves performance when building CLI only.
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 +
== Getting help from CLI==
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# know the function --> <code>help function_name</code> or <code>help function_name</code>.
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# Know what to do but not the function name --> <code>lookfor what_to_do</code>.
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# Can't remember the fullname of a function (or have a guess) --> partial_name_of_function then press <TAB-key> twice
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# Did it once but can't remeber --> <Ctrl>+<R> to search the history.
 +
 
 +
= Sketchpad =
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== test syntax highlight ==
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{{Code|Loading the file as polygon compatible with geometry package|<syntaxhighlight lang="octave" style="font-size:13px">
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function y = deserializeInt (data)
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 +
  y = bitpack (
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        cell2mat(
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              arrayfun(
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                        @(x)bitget(x,1:8), data,
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                        "UniformOutput", false
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                      )
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                )', "uint16");
 +
 
 +
  y = double (y);
 +
 
 +
endfunction
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</syntaxhighlight>}}
    
= TODO list =
 
= TODO list =
* Write description of packages [[Geometry package]],[[Mechanics package]],[[Robotics package]].
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== Geometry package ==
* Start the API for [https://code.cor-lab.de/projects/rsb RSB].
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* Extend tutorial [[Geometry package]]
* Build packages for [https://launchpad.net/~ubuntu-octave PPA].
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=== extend sub2ind and ind2sub ===
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== Non-negative matrix factorization ==
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* Add nmf_bpas and nmf-pg  to linear-algebra <span style="color: green;">✔</span>
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* Get [http://cogsys.imm.dtu.dk/toolbox/nmf/index.html nmf_toolbox] from DTU under free license. <span style="color: green;">✔</span>
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** Add it to linear-algebra and create nnmf.m compatible with MATLAB calling all the methods.
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== GPML ==
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* Asked for a GPLv3 version of [http://www.gaussianprocess.org/gpml/code/matlab/doc/index.html GPML]. They answer but license is FreeBSD. A new version is comming out in June 2012, so I will wait to start the port.<span style="color: green;">✔</span>
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* Create [https://bitbucket.org/KaKiLa/gpml repository] to keep scripts to package it for OF. <span style="color: green;">✔</span>
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== make output format a valid input format ==
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An output format that prints valid input commands, so one can copy and re-execute the code.
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From IRC
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(04:57:05 PM) jwe: It might not be too hard to implement what you want.  There is a flag in the pr-output functions for pr_as_read_format and many (but probably not all) of the types that are printed there do something with that.  And it is not hooked in to the format function, so you can't enable it.
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(04:57:31 PM) jwe: pr-output.cc and pr_as_read_syntax
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== extend sub2ind and ind2sub ==
 
We are extending sub2ind and ind2sub to work with triangular matrices. Currently private functions of {{Forge|mechanics}}.
 
We are extending sub2ind and ind2sub to work with triangular matrices. Currently private functions of {{Forge|mechanics}}.
 
A string argument triggers the behavior. The string argument can be "triu" or "tril". After this str argument we accept an extra scalar value indicating that the triangular matrix is off diagonal (as in tril and triu).
 
A string argument triggers the behavior. The string argument can be "triu" or "tril". After this str argument we accept an extra scalar value indicating that the triangular matrix is off diagonal (as in tril and triu).
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# If the argument after the str argument is a scalar, it indicates off diagonal triangular matrix (we do not have algo for that yet, though).
 
# If the argument after the str argument is a scalar, it indicates off diagonal triangular matrix (we do not have algo for that yet, though).
   −
== Octave - Forge ==
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== updating pkg.m ==
* quaternion mpower.m
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Commands used with pkg
* <del>Invite biomechanicist to put their code in biomechanics package.</del>
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* Modify admin/releasePKG.m to erase svn specific files.
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    pkg install image-*
** and confirm everything's fine by running check_INDEX.pl --[[User:Carandraug|carandraug]] 07:37, 26 January 2012 (PST)
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    pkg load image
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    pkg unload image
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    pkg uninstall image
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    pkg install -forge image
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    pkg install -verbose -forge -nodeps signal
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    pkg install struct-old.tar.gz
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    pkg update struct
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    pkg update
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    pkg load all
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    pkg unload all
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    pkg list
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    installed_packages = pkg ("list")
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    [user_packages, system_packages] = pkg ("list")
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    oct_forge_pkgs = pkg ("list", "-forge")
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    pkg describe image
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    pkg describe -verbose image
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    pkg describe -verbose all
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    desc = pkg ("describe", "signal", "image")
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    [desc, flag] = pkg ("describe", "signal", "image")
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    pkg prefix
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    pkg prefix /tmp
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    pfx = pkg ("prefix")
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    pkg prefix /tmp /tmp
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    pfx = pkg ("prefix")
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    pkg build -verbose /tmp image-*
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    pkg rebuild signal
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    pkg local_db /tmp/.octave_packages.db
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    pkg local_db
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    pkg global_db /tmp/.octave_packages.db
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    pkg global_db
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    pkg whereis rgbplot
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    pkg whereis -forge rgbplot
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    pkg install -url "http://users.elis.ugent.be/~jcarbaja/DRD/DRD_files/" drd-1.1.0.tar.gz
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 +
 
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== real2rgb ==
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Porting the package.
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May be good to port [http://www.mathworks.com/matlabcentral/fileexchange/16233-sc-powerful-image-rendering SC] as well
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== EPA software suite ==
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Create native interfaces to the EPA software suites
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[[See this group https://github.com/OpenWaterAnalytics]]
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=== SWMM ===
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* [https://www.epa.gov/water-research/storm-water-management-model-swmm Official page]
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* Check work done in [https://github.com/water-systems/MatSWMM MatSWMM] [http://digital.csic.es/bitstream/10261/132982/1/MatSWMM.pdf article]
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=== Non-negative matrix factorization ===
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=== EPANET ===
* Get nmf.m under FreeBSD. <span style="color: green;">✔</span>
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* [https://www.epa.gov/water-research/epanet Official page]
* Get [http://www.cc.gatech.edu/~hpark/nmfsoftware.php nmf_bpas] under GPLv3. <span style="color: green;">✔</span>
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** Add them to linear-algebra ???
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* Get [http://cogsys.imm.dtu.dk/toolbox/nmf/index.html nmf_toolbox] from DTU under free license. <span style="color: green;">✔</span>
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== Old projects ==
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* Write description of packages [[Mechanics package]],[[Robotics package]].
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* Start the API for [https://code.cor-lab.de/projects/rsb RSB].
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=== Quaternion package ===
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* quaternion mpower.m
    
=== Biomechanics ===
 
=== Biomechanics ===
 
* <del> Ask [https://sites.google.com/site/systemsneurosciencegroup/people/stewart-heitmann Stewart Heitmann] to release under GPLv3.</del>
 
* <del> Ask [https://sites.google.com/site/systemsneurosciencegroup/people/stewart-heitmann Stewart Heitmann] to release under GPLv3.</del>
 
* Ask Andrea d'Avella to release under GPLv3 or equivalent. Waiting for answer. [[User:KaKiLa|KaKiLa]] 03:54, 9 March 2012 (PST)
 
* Ask Andrea d'Avella to release under GPLv3 or equivalent. Waiting for answer. [[User:KaKiLa|KaKiLa]] 03:54, 9 March 2012 (PST)
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 +
==== Contents ====
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* Muscle models
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** Hill model.
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** Voight model.
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* Locomotion
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** SLIP model, multiple generalized variables.
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* Reaching
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** Tendulum, tendon driven pendulum.
    
=== Robotics Toolbox ===
 
=== Robotics Toolbox ===
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* Ask [http://www.cs.washington.edu/homes/todorov/software.html Emanuel Todorov] to release under GPLv3 or equivalent.
 
* Ask [http://www.cs.washington.edu/homes/todorov/software.html Emanuel Todorov] to release under GPLv3 or equivalent.
 
* [http://ai.stanford.edu/~mitul/mpk/ MPK] apparently is non-Free. Discussing.
 
* [http://ai.stanford.edu/~mitul/mpk/ MPK] apparently is non-Free. Discussing.
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=== Matgeom ===
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[[Geometry_package]]
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  −
Working on '''graphs''':
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* Porting. <span style="color: green;">✔</span>
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* Write demos.
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Finish the port:
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* polygons2d
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* meshes
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* polygons3d
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Development:
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* iscw and isccw
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* cw2ccw and ccw2cw
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=== Mechanics ===
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[[Mechanics_package]]
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* <del>clean up structure.</del>
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* DMOC code generation.
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* Improve verlet integrator. A odepkg compatible version?
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=== TISEAN ===
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* Start port of [http://www.mpipks-dresden.mpg.de/~tisean/Tisean_3.0.1/index.html TISEAN].
 
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