Fabian Fröhlich
Daniel Weindl
Paul Stapor
Yannik Schälte
LeonardSchmiester
AMICI-developer
Łukasz Paszkowski
Jan Hasenauer
MerktSimon
2019-08-07
<ul>
<li><p>Simplify/fix AMICI installation</p>
<ul>
<li>If available use environment modules to detect dependencies</li>
</ul>
<ul>
<li>Add SWIG installation script</li>
</ul>
</li>
<li><p>Update list of publication</p>
</li>
<li><p>Update documentation</p>
<ul>
<li>Update doc for SWIG build and custom SWIG location.</li>
<li>Add AMICI interface overview / workflow figure and show in README</li>
<li>Document environment variables for model/core compilation (Closes #737)</li>
</ul>
</li>
<li><p>Added handling of abs function, since there seem to be problems with case sensitivity (#713) Closes #770</p>
</li>
</ul>
<p>Detaills:</p>
<pre><code>* cmake: Use package_ROOT environment variables
* fix(cmake) Fix finding version.txt
* cmake: Auto-detect loaded MKL environment module
* cmake: Use new FindPython3 modules where possible
* fix(python) Restore python3.6 compatibility
* Inside venv, use pip instead of pip3 which should point to the correct version
* fix(python) Workaround for missing ensurepip during venv creation [ci skip]
* feature(python) Use MKL from environment modules to provide cblas
* fix(python) Fix define_macros not being passed to setuptools for Extension
* fix(python) Fix define_macros not being passed to setuptools for clibs
* Do not always add 'cblas' library since users may want to override that by a cblas-compatible library with a different name (closes #736)
* Update HDF5 path hints; use shared library if static is not available.
* Check for HDF5_BASE from environment module
* Fix system-dependent sundials library directory (Fixes #749) (#750)
* Handle OSTYPE==linux in scripts/buildBNGL.sh (Fixes #751)
* Add SWIG download and build script
* Improve finding swig executable and allow user override via SWIG environment variable
* Provide installation hints if no SWIG found (Closes #724)
* Allow overriding cmake executable with environment variables in build scripts (Closes #738)
</code></pre>
https://doi.org/10.5281/zenodo.3362453
oai:zenodo.org:3362453
Zenodo
https://github.com/ICB-DCM/AMICI/tree/v0.10.10
https://doi.org/10.5281/zenodo.597928
info:eu-repo/semantics/openAccess
Other (Open)
ICB-DCM/AMICI: AMICI v0.10.10
info:eu-repo/semantics/other