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fix various typos
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‎ChangeLog.md

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* split examples by problem type
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* YAML blocks in input file for metadata are allowed (so far they are ignored by FeenoX)
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* `$0` (or `${0}` or `$(1)`) expands to the base name of the main input, i.e. without the `.fee` extension
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* bracketed argumens so ${1}1$(1) is a valid string
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* bracketed arguments so ${1}1$(1) is a valid string
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* multi-group neutron transport with discrete ordinates ($S_N$ method)
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* mimicked-nodes BCs
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* read mesh fields from VTK files

‎Makefile-doc.am

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SUBDIRS = src doc
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# the eps files are neded for the description in texinfo
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# the eps files are needed for the description in texinfo
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dist_doc_DATA = AUTHORS \
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ChangeLog \
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TODO \

‎README

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git clone https://github.com/seamplex/feenox
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4. Boostrap, configure, compile & make
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4. Bootstrap, configure, compile & make
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cd feenox
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./autogen.sh

‎README.markdown

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git clone https://github.com/seamplex/feenox
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```
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4. Boostrap, configure, compile & make
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4. Bootstrap, configure, compile & make
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``` terminal
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cd feenox

‎README4engineers

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reads. There is no need to give extra settings if the problem does not
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ask for them. Note that since the problem has only one volume, E means
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“the” Young modulus. No need to deal with a map between materials and
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mesh entitites (in this case the mapping is not needed but in
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mesh entities (in this case the mapping is not needed but in
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multi-material problems the mapping is needed indeed). Nothing more,
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nothing less.
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‎README4engineers.markdown

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@@ -48,7 +48,7 @@ between the human-friendly problem formulation and the input file FeenoX
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reads. There is no need to give extra settings if the problem does not
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ask for them. Note that since the problem has only one volume, `E` means
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“the” Young modulus. No need to deal with a map between materials and
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mesh entitites (in this case the mapping is not needed but in
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mesh entities (in this case the mapping is not needed but in
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[multi-material problems] the mapping is needed indeed). Nothing more,
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nothing less.
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‎README4engineers.md

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To fix ideas, let us consider the [NAFEMS LE10 "Thick plate pressure" benchmark](https://www.seamplex.com/feenox/examples/mechanical.html#nafems-le10-thick-plate-pressure-benchmark). @Fig:nafems-le10 shows that there is a one-to-one correspondence between the human-friendly problem formulation and the input file FeenoX reads.
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There is no need to give extra settings if the problem does not ask for them.
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Note that since the problem has only one volume, `E` means "the" Young modulus.
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No need to deal with a map between materials and mesh entitites (in this case the mapping is not needed but in [multi-material problems](https://seamplex.com/feenox/examples/mechanical.html#two-cubes-compressing-each-other) the mapping is needed indeed). Nothing more, nothing less.
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No need to deal with a map between materials and mesh entities (in this case the mapping is not needed but in [multi-material problems](https://seamplex.com/feenox/examples/mechanical.html#two-cubes-compressing-each-other) the mapping is needed indeed). Nothing more, nothing less.
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![The NAFEMS LE10 problem statement and the corresponding FeenoX input](nafems-le10-problem-input.svg){#fig:nafems-le10 width=100% }
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‎README4hackers

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usage: feenox [options] inputfile [replacement arguments] [petsc options]
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-h, --help display options and detailed explanations of commmand-line usage
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-h, --help display options and detailed explanations of command-line usage
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-v, --version display brief version information and exit
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-V, --versions display detailed version information
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--pdes list the types of PROBLEMs that FeenoX can solve, one per line
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- understands definitions (nouns) and instructions (verbs). FeenoX has
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an actual instruction pointer that loops over the instruction set
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(there might even be conditional blocks).
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- is simple for simple files (but might get more complicated for mor
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- is simple for simple files (but might get more complicated for more
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complex problems). Remember Alan Kay’s quote: “simple things should
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be simple and complex things should be possible.”
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@@ -247,7 +247,7 @@ Gitlab / Gitea)
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[definitions (nouns) and instructions (verbs)]: https://seamplex.com/feenox/doc/sds.html#sec:nouns_verbs
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[conditional blocks]: https://www.seamplex.com/feenox/doc/feenox-manual.html#if
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[simple for simple files]: https://seamplex.com/feenox/doc/sds.html#sec:simple
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[more complicated for mor complex problems]: https://seamplex.com/feenox/doc/sds.html#sec:complex
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[more complicated for more complex problems]: https://seamplex.com/feenox/doc/sds.html#sec:complex
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[Alan Kay]: https://en.wikipedia.org/wiki/Alan_Kay
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[“simple things should be simple and complex things should be possible.”]:
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https://www.quora.com/What-is-the-story-behind-Alan-Kay-s-adage-Simple-things-should-be-simple-complex-things-should-be-possible
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Feenox is a computational tool designed to be run on Unix servers as a
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part of a cloud-first workflow, optionally involving MPI communication
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among different servers to hande arbitrarily-large problems:
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among different servers to handle arbitrarily-large problems:
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Check out the section about invocation in the FeenoX manual.
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‎README4hackers.markdown

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usage: feenox [options] inputfile [replacement arguments] [petsc options]
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-h, --help display options and detailed explanations of commmand-line usage
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-h, --help display options and detailed explanations of command-line usage
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-v, --version display brief version information and exit
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-V, --versions display detailed version information
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--pdes list the types of PROBLEMs that FeenoX can solve, one per line
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- understands [definitions (nouns) and instructions (verbs)]. FeenoX has
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an actual instruction pointer that loops over the instruction set
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(there might even be [conditional blocks]).
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- is [simple for simple files] (but might get [more complicated for mor
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- is [simple for simple files] (but might get [more complicated for more
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complex problems]). Remember [Alan Kay]’s quote: [“simple things
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should be simple and complex things should be possible.”]
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[definitions (nouns) and instructions (verbs)]: https://seamplex.com/feenox/doc/sds.html#sec:nouns_verbs
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[conditional blocks]: https://www.seamplex.com/feenox/doc/feenox-manual.html#if
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[simple for simple files]: https://seamplex.com/feenox/doc/sds.html#sec:simple
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[more complicated for mor complex problems]: https://seamplex.com/feenox/doc/sds.html#sec:complex
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[more complicated for more complex problems]: https://seamplex.com/feenox/doc/sds.html#sec:complex
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[Alan Kay]: https://en.wikipedia.org/wiki/Alan_Kay
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[“simple things should be simple and complex things should be possible.”]:
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https://www.quora.com/What-is-the-story-behind-Alan-Kay-s-adage-Simple-things-should-be-simple-complex-things-should-be-possible
@@ -269,7 +269,7 @@ and will not compute things that are not actually needed).
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Feenox is a computational tool designed to be run on Unix servers as a
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part of a [cloud-first] workflow, optionally [involving MPI
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communication among different servers] to hande arbitrarily-large
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communication among different servers] to handle arbitrarily-large
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problems:
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Check out the section about [invocation] in the [FeenoX manual].

‎README4hackers.md

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usage: feenox [options] inputfile [replacement arguments] [petsc options]
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-h, --help display options and detailed explanations of commmand-line usage
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-h, --help display options and detailed explanations of command-line usage
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-v, --version display brief version information and exit
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-V, --versions display detailed version information
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--pdes list the types of PROBLEMs that FeenoX can solve, one per line
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- is Git-traceable ([the mesh is defined in a separate file](https://seamplex.com/feenox/doc/sds.html#sec:input) created by [Gmsh](http://gmsh.info/), which may or may not be tracked)
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- allows the user to enter [algebraic expressions whenever a numerical value is needed](https://seamplex.com/feenox/doc/sds.html#sec:expression) (everything is an expression)
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- understands [definitions (nouns) and instructions (verbs)](https://seamplex.com/feenox/doc/sds.html#sec:nouns_verbs). FeenoX has an actual instruction pointer that loops over the instruction set (there might even be [conditional blocks](https://www.seamplex.com/feenox/doc/feenox-manual.html#if)).
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- is [simple for simple files](https://seamplex.com/feenox/doc/sds.html#sec:simple) (but might get [more complicated for mor complex problems](https://seamplex.com/feenox/doc/sds.html#sec:complex)). Remember [Alan Kay](https://en.wikipedia.org/wiki/Alan_Kay)'s quote: ["simple things should be simple and complex things should be possible."](https://www.quora.com/What-is-the-story-behind-Alan-Kay-s-adage-Simple-things-should-be-simple-complex-things-should-be-possible)
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- is [simple for simple files](https://seamplex.com/feenox/doc/sds.html#sec:simple) (but might get [more complicated for more complex problems](https://seamplex.com/feenox/doc/sds.html#sec:complex)). Remember [Alan Kay](https://en.wikipedia.org/wiki/Alan_Kay)'s quote: ["simple things should be simple and complex things should be possible."](https://www.quora.com/What-is-the-story-behind-Alan-Kay-s-adage-Simple-things-should-be-simple-complex-things-should-be-possible)
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Following the Unix rule of silence, [the output is 100% user-defined](https://seamplex.com/feenox/doc/sds.html#sec:output): if there are not explicit output instructions, FeenoX will not write anything. And probably nothing will be computed (because FeenoX is smart and will not compute things that are not actually needed).
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# How
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Feenox is a computational tool designed to be run on Unix servers as a part of a [cloud-first](https://seamplex.com/feenox/doc/sds.html#cloud-first) workflow, optionally [involving MPI communication among different servers](https://seamplex.com/feenox/doc/sds.html#sec:scalability) to hande arbitrarily-large problems:
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Feenox is a computational tool designed to be run on Unix servers as a part of a [cloud-first](https://seamplex.com/feenox/doc/sds.html#cloud-first) workflow, optionally [involving MPI communication among different servers](https://seamplex.com/feenox/doc/sds.html#sec:scalability) to handle arbitrarily-large problems:
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:::::: {.only-in-format .html }
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```{=html}

‎TODO.md

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## Wasora-like stuff
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* vector & matrix assignements & DAEs
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* vector & matrix assignments & DAEs
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* debug mode, line-by-line
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- run `feenox` with an option like `-d` or `--debug` and then present a gdb-like interface with print, and step by step advances
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* trap and handle signit & sigterm
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## Nice to have
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* add a keyword and command-line argument to set `OMP_NUM_THREADS`
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* logaritmic ranges for `PRINT_FUNCTION`
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* logarithmic ranges for `PRINT_FUNCTION`
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* default separator after `TEXT` should be space, after numerical should be tab
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* `PRINT_FUNCTION` with `%f` in between arguments (like `PRINT_VECTOR`)
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* `BLAS`
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* poisson f = 1, eta = 0
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* helmholtz f = 1, eta = 1
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* investigate `dsyrk()` insted of `dgemmv()` https://stackoverflow.com/questions/47013581/blas-matrix-by-matrix-transpose-multiply
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* investigate `dsyrk()` instead of `dgemmv()` https://stackoverflow.com/questions/47013581/blas-matrix-by-matrix-transpose-multiply
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## Heat
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‎configure.ac

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#AC_CHECK_LIB([readline], [readline],
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#[],
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#AS_IF([test "x${with_readline}" != "xcheck"],
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#AC_MSG_FAILURE([--with-readline was given, but test for readline libray failed])
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#AC_MSG_FAILURE([--with-readline was given, but test for readline library failed])
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#)
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#)
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#])
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AC_CHECK_LIB([sundials_ida], [IDAInit],
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[],
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AS_IF([test "x${with_sundials}" != "xcheck"],
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AC_MSG_FAILURE([--with-sundials was given, but test for libsundials-dev libray failed])
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AC_MSG_FAILURE([--with-sundials was given, but test for libsundials-dev library failed])
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)
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)
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AC_CHECK_HEADER([nvector/nvector_serial.h],
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[],
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AC_MSG_FAILURE([--with-sundials was given, but test for libsundials-dev libray failed])
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AC_MSG_FAILURE([--with-sundials was given, but test for libsundials-dev library failed])
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)
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)
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AC_CHECK_LIB([sundials_nvecserial], [N_VNew_Serial],
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[],
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AS_IF([test "x${with_sundials}" != "xcheck"],
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AC_MSG_FAILURE([--with-sundials was given, but test for libsundials-dev libray failed])
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AC_MSG_FAILURE([--with-sundials was given, but test for libsundials-dev library failed])
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)
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)
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])
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AC_ARG_VAR(PETSC_DIR, [location of PETSc installation])
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# assume we found it
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petsc_found=1
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AS_IF([test "x${have_petsc}" != "xno" -a "x${with_slepc}" != "xno"], [
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# asume we found it
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# assume we found it
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AC_MSG_CHECKING([for SLEPc dir])

‎dist/dsc.sh

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# # check
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# # see https://wiki.ubuntu.com/PbuilderHowto
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# sudo pbuilder create --debootstrapopts --variant=buildd
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# sudo pbuilder create --debootstrapopts --variant=build
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# sudo pbuilder update
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# sudo pbuilder build feenox_${version}-1.dsc

‎doc/FAQ.markdown

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usage: feenox [options] inputfile [replacement arguments] [petsc options]
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-h, --help display options and detailed explanations of commmand-line usage
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-h, --help display options and detailed explanations of command-line usage
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-v, --version display brief version information and exit
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-V, --versions display detailed version information
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> feenox.exe -h
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usage: feenox [options] inputfile [replacement arguments] [petsc options]
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-h, --help display options and detailed explanations of commmand-line usage
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-h, --help display options and detailed explanations of command-line usage
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-v, --version display brief version information and exit
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-V, --versions display detailed version information
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‎doc/binary.md

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usage: ./feenox [options] inputfile [replacement arguments] [petsc options]
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-h, --help display options and detailed explanations of commmand-line usage
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-h, --help display options and detailed explanations of command-line usage
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-v, --version display brief version information and exit
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-V, --versions display detailed version information
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-c, --check validates if the input file is sane or not

‎doc/cantilever.sh

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for element in tet4 tet10 hex8 hex20 hex27; do
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# create mesh if not already cached
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‎doc/cloud-first.md

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* design shared network file systems
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* etc.
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Instead of having to manually perform this set up each time a calculation is needed, one can automatize the workflow with _ad-hoc_ scripts acting as "thin clients" which would, for instance,
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Instead of having to manually perform this set up each time a calculation is needed, one can automate the workflow with _ad-hoc_ scripts acting as "thin clients" which would, for instance,
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* launch and configure the remote computing instances, optionally using containerization technology
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* send the input files needed by the computational tools

‎doc/compilation.markdown

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git clone https://github.com/seamplex/feenox
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4. Boostrap, configure, compile & make
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4. Bootstrap, configure, compile & make
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``` terminal
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cd feenox
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Note that there is no need to have a Fortran nor a C++ compiler to build
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FeenoX. They might be needed to build other dependencies (such as PETSc
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and its dependencies), but not to compile FeenoX if all the dependencies
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are installed from the oeprating system’s package repositories. In case
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are installed from the operating system’s package repositories. In case
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the build toolchain is not already installed, do so with
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``` terminal
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usage: feenox [options] inputfile [replacement arguments] [petsc options]
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-h, --help display options and detailed explanations of commmand-line usage
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-h, --help display options and detailed explanations of command-line usage
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-v, --version display brief version information and exit
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-V, --versions display detailed version information
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‎doc/compilation.md

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FeenoX has one mandatory dependency for run-time execution and the standard build toolchain for compilation. It is written in\ C99 so only a C compiler is needed, although `make` is also required. Free and open source compilers are favored.
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The usual C compiler is `gcc` but `clang` or Intel’s `icc` and the newer `icx` can also be used.
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Note that there is no need to have a Fortran nor a C++ compiler to build FeenoX. They might be needed to build other dependencies (such as PETSc and its dependencies), but not to compile FeenoX if all the dependencies are installed from the oeprating system's package repositories. In case the build toolchain is not already installed, do so with
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Note that there is no need to have a Fortran nor a C++ compiler to build FeenoX. They might be needed to build other dependencies (such as PETSc and its dependencies), but not to compile FeenoX if all the dependencies are installed from the operating system's package repositories. In case the build toolchain is not already installed, do so with
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```terminal
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sudo apt-get install gcc make
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usage: feenox [options] inputfile [replacement arguments] [petsc options]
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-h, --help display options and detailed explanations of commmand-line usage
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-h, --help display options and detailed explanations of command-line usage
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-v, --version display brief version information and exit
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-V, --versions display detailed version information
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