HPC/Applications/python: Difference between revisions
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: Such a module normally does not need to be loaded. It is included here for visibility in the module system, and as a prerequisite for (usually older) modules which provide Python packages outside of Conda or Pip. Such packages are usually tied to the version of the Python interpreter under which they were installed. | : Such a module normally does not need to be loaded. It is included here for visibility in the module system, and as a prerequisite for (usually older) modules which provide Python packages outside of Conda or Pip. Such packages are usually tied to the version of the Python interpreter under which they were installed. | ||
== | == Python software suites == | ||
Within recent years, entire Python software suites became popular, | |||
: | usually based on the [https://en.wikipedia.org/wiki/Conda_(package_manager) Conda package manager]. | ||
The suites typically contain: | The suites typically contain: | ||
* A Python interpreter | * A Python interpreter. | ||
* The conda/pip package management systems. | * The conda/pip package management systems. | ||
* A | * A wide-ranging set of Python-native packages, extensions, and add-on executables, often including: | ||
** Idle – Python Integrated DeveLopment Environment | ** Idle – Python Integrated DeveLopment Environment | ||
** iPython and juPyter – Interactive computation system | ** iPython and juPyter – Interactive computation system | ||
| Line 44: | Line 40: | ||
</div> | </div> | ||
== Custom Conda environments == | === Vendor-distributed suites === | ||
; Module nomenclature: | |||
: <code>'''python-''distributor'''''/''pyMajor.pyMinor''/''distMajor''/''distributor_defined_version[…]-moduleBuild''</code> | |||
; Contains: | |||
:* Python software suite with the '''package selection as distributed by the vendor.''' | |||
=== Suites with customized package selection === | |||
<!-- == Custom Conda environments == --> | |||
; Module nomenclature: | ; Module nomenclature: | ||
: <code>'''python-env-''distributor'''''/''pyMajor.pyMinor''/''distMajor''/''pyVersion[…]-moduleBuild''</code> | : <code>'''python-env-''distributor'''''/''pyMajor.pyMinor''/''distMajor''/''pyVersion[…]-moduleBuild''</code> | ||
| Line 54: | Line 57: | ||
--> | --> | ||
; Contains: | ; Contains: | ||
:* | :* Python software suite with the '''package selection customized for Carbon.''' | ||
:: This is usually implemented as a [https://conda.io/docs/user-guide/tasks/manage-environments.html Conda "environment"] derived from a vendor-distributed Conda suite. | |||
Revision as of 17:14, January 10, 2018
Python variants
Interpreter-only releases from the Python Software Foundation
- Module nomenclature
python/pyMajor.pyMinor/compilerName-compMajor.compMinor/pyMajor.pyMinor.pyPatch-moduleBuild- Contains
-
- The Python interpreter only, from the python.org sources.
Python interpreters and packages as bundled with the OS
- Module nomenclature
python-osname/pyMajor.pyMinor/compilerName-compMajor.compMinor/pyMajor.pyMinor.pyPatch- Contains
-
- The Python interpreter that comes with the operating system, which is required for many system internals and for system-provided add-on packages (installed via rpm or yum).
- Notes
- Such a module normally does not need to be loaded. It is included here for visibility in the module system, and as a prerequisite for (usually older) modules which provide Python packages outside of Conda or Pip. Such packages are usually tied to the version of the Python interpreter under which they were installed.
Python software suites
Within recent years, entire Python software suites became popular, usually based on the Conda package manager. The suites typically contain:
- A Python interpreter.
- The conda/pip package management systems.
- A wide-ranging set of Python-native packages, extensions, and add-on executables, often including:
- Idle – Python Integrated DeveLopment Environment
- iPython and juPyter – Interactive computation system
- Cython – Compiler for a superset of Python and C/C++
- Underlying libraries and supporting binaries, e.g.:
- Tcl – Interpreter for the Tool Command Language
- BLAS/LAPACK – Linear algebra libraries
- MPI – Runtime environment for parallel applications using Message Passing Interface, providing the
mpirunormpiexeccommands, plus related binaries and libraries.
Caveat: An MPI Runtime within a Python suite makes parallel computing easily accessible under Python, but this means a "mere python module" can clash with other MPI implementations used on Carbon.
Avoid loading modules at the same time for both an MPI implementation and a Python suite, especially in your dot-files. Doing so may lead to non-obvious failures with either the bundled parallel Python applications or (worse) unrelated compiled applications on Carbon.
Vendor-distributed suites
- Module nomenclature
python-distributor/pyMajor.pyMinor/distMajor/distributor_defined_version[…]-moduleBuild- Contains
-
- Python software suite with the package selection as distributed by the vendor.
Suites with customized package selection
- Module nomenclature
python-env-distributor/pyMajor.pyMinor/distMajor/pyVersion[…]-moduleBuild- A default selection of packages deemed useful for jobs on Carbon.
python-env-distributor-purpose/pyMajor.pyMinor/distMajor/pyVersion[…]-moduleBuild- Same, with alternative package selections. (TBD)
- Contains
-
- Python software suite with the package selection customized for Carbon.
- This is usually implemented as a Conda "environment" derived from a vendor-distributed Conda suite.