From 63856c2ba11f349c767c47bf012b2675bd174e3c Mon Sep 17 00:00:00 2001 From: Lubomir Prda <lubomir.prda@vsb.cz> Date: Thu, 19 Jan 2017 14:10:27 +0100 Subject: [PATCH] Sonsolidated Anselm and Salomon software to single navigation page. Not displaying in menu anymore. --- .../software/index.md | 86 +++++++++++++++++++ docs.it4i/salomon/software/index.md | 64 ++++++++++++-- it4i_theme/nav.html | 2 +- material/nav.html | 4 +- mkdocs.yml | 69 +++++++++++++-- scripts/source/list_md_mv | 42 --------- 6 files changed, 209 insertions(+), 58 deletions(-) create mode 100644 docs.it4i/anselm-cluster-documentation/software/index.md diff --git a/docs.it4i/anselm-cluster-documentation/software/index.md b/docs.it4i/anselm-cluster-documentation/software/index.md new file mode 100644 index 000000000..00336c99d --- /dev/null +++ b/docs.it4i/anselm-cluster-documentation/software/index.md @@ -0,0 +1,86 @@ +Salomon Cluster Software +=== + +## [Modules](../../modules-anselm) +* List of available modules +## [COMSOL](comsol-multiphysics) +* A finite element analysis, solver and Simulation software +## [ParaView](paraview) +* An open-source, multi-platform data analysis and visualization application +## [Compilers](compilers) +* Available compilers, including GNU, INTEL and UPC compilers +## [nVidia CUDA](nvidia-cuda) +* A guide to nVidia CUDA programming and GPU usage +## [GPI-2](gpi2) +* A library that implements the GASPI specification +## [OpenFOAM](openfoam) +* A free, open source CFD software package +## [ISV Licenses](isv_licenses) +* A guide to managing Independent Software Vendor licences +## [Intel Xeon Phi](intel-xeon-phi) +* A guide to Intel Xeon Phi usage +## [Virtualization](kvirtualization) +## [Java](java) +* Java on ANSELM +## [Operating System](operating-system) +* The operating system, deployed on ANSELM +## Intel Suite +* The Intel Parallel Studio XE +### [Introduction](intel-suite/introduction) +### [Intel MKL](intel-suite/intel-mkl) +### [Intel Compilers](intel-suite/intel-compilers) +### [Intel IPP](intel-suite/intel-integrated-performance-primitives) +### [Intel TBB](intel-suite/intel-tbb) +### [Intel Debugger](intel-suite/intel-debugger) +## MPI +* Message Passing Interface libraries +### [Introduction](mpi/mpi) +### [MPI4Py (MPI for Python)](mpi/mpi4py-mpi-for-python) +### [Running OpenMPI](mpi/Running_OpenMPI) +### [Running MPICH2](mpi/running-mpich2) +## Numerical Libraries +* Libraries for numerical computations +### [Intel numerical libraries](numerical-libraries/intel-numerical-libraries) +### [PETSc](numerical-libraries/petsc) +### [Trilinos](numerical-libraries/trilinos) +### [FFTW](numerical-libraries/fftw) +### [GSL](numerical-libraries/gsl) +### [MAGMA for Intel Xeon Phi](numerical-libraries/magma-for-intel-xeon-phi) +### [HDF5](numerical-libraries/hdf5) +## Omics Master +### [Diagnostic component (TEAM)](omics-master/diagnostic-component-team) +### [Priorization component (BiERApp)](omics-master/priorization-component-bierapp) +### [Overview](omics-master/overview) +## Debuggers +* A collection of development tools +### [Valgrind](debuggers/valgrind) +### [PAPI](debuggers/papi) +### [Allinea Forge (DDT,MAP)](debuggers/allinea-ddt) +### [Total View](debuggers/total-view) +### [CUBE](debuggers/cube) +### [Intel VTune Amplifier](debuggers/intel-vtune-amplifier) +### [VNC](debuggers/debuggers) +### [Scalasca](debuggers/scalasca) +### [Score-P](debuggers/score-p) +### [Intel Performance Counter Monitor](debuggers/intel-performance-counter-monitor) +### [Allinea Performance Reports](debuggers/allinea-performance-reports) +### [Vampir](debuggers/vampir) +## Numerical Languages +* Interpreted languages for numerical computations +### [Introduction](numerical-languages/introduction) +### [R](numerical-languages/r) +### [Matlab 2013-2014](numerical-languages/matlab_1314) +### [Matlab](numerical-languages/matlab) +### [Octave](numerical-languages/octave) +## Chemistry +* Tools for computational chemistry +### [Molpro](chemistry/molpro) +### [NWChem](chemistry/nwchem) +## Ansys +* An engineering simulation software +### [Introduction](ansys/ansys) +### [ANSYS CFX](ansys/ansys-cfx) +### [ANSYS LS-DYNA](ansys/ansys-ls-dyna) +### [ANSYS MAPDL](ansys/ansys-mechanical-apdl) +### [LS-DYNA](ansys/ls-dyna) +### [ANSYS Fluent](ansys/ansys-fluent) diff --git a/docs.it4i/salomon/software/index.md b/docs.it4i/salomon/software/index.md index 6c2d32b7c..6fdb05a03 100644 --- a/docs.it4i/salomon/software/index.md +++ b/docs.it4i/salomon/software/index.md @@ -2,9 +2,63 @@ Salomon Cluster Software === ## [Modules](../../modules-salomon) - List of Available Modules - -## COMSOL - A finite element analysis, solver and Simulation software -### [Introduction](comsol/comsol-multiphysics) +* List of Available Modules +## [Compilers](compilers) +* Available compilers, including GNU, INTEL and UPC compilers +## [Intel Xeon Phi](intel-xeon-phi) +* A guide to Intel Xeon Phi usage +## [Java](java) +* Java on the cluster +## [Operating System](operating-system) +* The operating system, deployed on Salomon cluster +## Intel Suite +* The Intel Parallel Studio XE +### [Introduction](intel-suite/intel-parallel-studio-introduction) +### [Intel MKL](intel-suite/intel-mkl) +### [Intel Compilers](intel-suite/intel-compilers) +### [Intel IPP](intel-suite/intel-integrated-performance-primitives) +### [Intel TBB](intel-suite/intel-tbb) +### [Intel Debugger](intel-suite/intel-debugger) +### [Intel Inspector](intel-suite/intel-inspector) +### [Intel Trace Analyzer and Collector](intel-suite/intel-trace-analyzer-and-collector) +### [Intel Advisor](intel-suite/intel-advisor) +## MPI +* Message Passing Interface libraries +### [Introduction](mpi/mpi) +### [MPI4Py (MPI for Python)](mpi/mpi4py-mpi-for-python) +### [Running OpenMPI](mpi/Running_OpenMPI) +## Debuggers +* A collection of development tools +### [Introduction](debuggers/Introduction) +### [Valgrind](debuggers/valgrind) +### [Allinea Forge (DDT,MAP)](debuggers/allinea-ddt) +### [Total View](debuggers/total-view) +### [Intel VTune Amplifier XE](debuggers/intel-vtune-amplifier) +### [Aislinn](debuggers/aislinn) +### [Allinea Performance Reports](debuggers/allinea-performance-reports) +### [Vampir](debuggers/vampir) +## Numerical Languages +* Interpreted languages for numerical computations +### [Introduction](numerical-languages/introduction) +### [R](numerical-languages/r) +### [Matlab](numerical-languages/matlab) +### [Octave](numerical-languages/octave) +## Chemistry +* Tools for computational chemistry +### [Molpro](chemistry/molpro) +### [Phono3py](chemistry/phono3py) +### [NWChem](chemistry/nwchem) +## Comsol +* A finite element analysis, solver and Simulation software +### [COMSOL](comsol/comsol-multiphysics) ### [Licensing and Available Versions](comsol/licensing-and-available-versions) +## Ansys +* An engineering simulation software +### [Introduction](ansys/ansys) +### [Workbench](ansys/workbench) +### [ANSYS CFX](ansys/ansys-cfx) +### [ANSYS LS-DYNA](ansys/ansys-ls-dyna) +### [ANSYS MAPDL](ansys/ansys-mechanical-apdl) +### [ANSYS Fluent](ansys/ansys-fluent) +### [Setting license preferences](ansys/licensing) +### [Licensing and Available Versions](ansys/setting-license-preferences) diff --git a/it4i_theme/nav.html b/it4i_theme/nav.html index c926c085b..d1df76a03 100644 --- a/it4i_theme/nav.html +++ b/it4i_theme/nav.html @@ -29,4 +29,4 @@ {% endif %} {% endif %} </li> -{% endif %} \ No newline at end of file +{% endif %} diff --git a/material/nav.html b/material/nav.html index c926c085b..1faf8c2fe 100644 --- a/material/nav.html +++ b/material/nav.html @@ -1,3 +1,4 @@ +{% if not nav_item.title.startswith(" ") %} {% if nav_item.children %} <li> <span class="section">{{ nav_item.title }}</span> @@ -29,4 +30,5 @@ {% endif %} {% endif %} </li> -{% endif %} \ No newline at end of file +{% endif %} +{% endif %} diff --git a/mkdocs.yml b/mkdocs.yml index c87e45bd0..79166b4c7 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -42,7 +42,8 @@ pages: - Anselm Cluster Storage: - Cesnet Data Storage: anselm-cluster-documentation/storage/cesnet-data-storage.md - Storage: anselm-cluster-documentation/storage/storage.md - - Anselm Cluster Software: + - Anselm Cluster Software: anselm-cluster-documentation/software/index.md + - ' Anselm Cluster Software': - Modules: modules-anselm.md - COMSOL: anselm-cluster-documentation/software/comsol-multiphysics.md - ParaView: anselm-cluster-documentation/software/paraview.md @@ -55,19 +56,19 @@ pages: - Virtualization: anselm-cluster-documentation/software/kvirtualization.md - Java: anselm-cluster-documentation/software/java.md - Operating System: anselm-cluster-documentation/software/operating-system.md - - Anselm Cluster Intel Suite: + - ' Anselm Cluster Intel Suite': - Introduction: anselm-cluster-documentation/software/intel-suite/introduction.md - Intel MKL: anselm-cluster-documentation/software/intel-suite/intel-mkl.md - Intel Compilers: anselm-cluster-documentation/software/intel-suite/intel-compilers.md - Intel IPP: anselm-cluster-documentation/software/intel-suite/intel-integrated-performance-primitives.md - Intel TBB: anselm-cluster-documentation/software/intel-suite/intel-tbb.md - Intel Debugger: anselm-cluster-documentation/software/intel-suite/intel-debugger.md - - Anselm Cluster MPI: + - ' Anselm Cluster MPI': - Introduction: anselm-cluster-documentation/software/mpi/mpi.md - MPI4Py (MPI for Python): anselm-cluster-documentation/software/mpi/mpi4py-mpi-for-python.md - Running OpenMPI: anselm-cluster-documentation/software/mpi/Running_OpenMPI.md - Running MPICH2: anselm-cluster-documentation/software/mpi/running-mpich2.md - - Anselm Cluster Numerical Libraries: + - ' Anselm Cluster Numerical Libraries': - Intel numerical libraries: anselm-cluster-documentation/software/numerical-libraries/intel-numerical-libraries.md - PETSc: anselm-cluster-documentation/software/numerical-libraries/petsc.md - Trilinos: anselm-cluster-documentation/software/numerical-libraries/trilinos.md @@ -75,11 +76,11 @@ pages: - GSL: anselm-cluster-documentation/software/numerical-libraries/gsl.md - MAGMA for Intel Xeon Phi: anselm-cluster-documentation/software/numerical-libraries/magma-for-intel-xeon-phi.md - HDF5: anselm-cluster-documentation/software/numerical-libraries/hdf5.md - - Anselm Cluster Omics Master: + - ' Anselm Cluster Omics Master': - Diagnostic component (TEAM): anselm-cluster-documentation/software/omics-master/diagnostic-component-team.md - Priorization component (BiERApp): anselm-cluster-documentation/software/omics-master/priorization-component-bierapp.md - Overview: anselm-cluster-documentation/software/omics-master/overview.md - - Anselm Cluster Debuggers: + - ' Anselm Cluster Debuggers': - Valgrind: anselm-cluster-documentation/software/debuggers/valgrind.md - PAPI: anselm-cluster-documentation/software/debuggers/papi.md - Allinea Forge (DDT,MAP): anselm-cluster-documentation/software/debuggers/allinea-ddt.md @@ -92,16 +93,16 @@ pages: - Intel Performance Counter Monitor: anselm-cluster-documentation/software/debuggers/intel-performance-counter-monitor.md - Allinea Performance Reports: anselm-cluster-documentation/software/debuggers/allinea-performance-reports.md - Vampir: anselm-cluster-documentation/software/debuggers/vampir.md - - Anselm Cluster Numerical Languages: + - ' Anselm Cluster Numerical Languages': - Introduction: anselm-cluster-documentation/software/numerical-languages/introduction.md - R: anselm-cluster-documentation/software/numerical-languages/r.md - Matlab 2013-2014: anselm-cluster-documentation/software/numerical-languages/matlab_1314.md - Matlab: anselm-cluster-documentation/software/numerical-languages/matlab.md - Octave: anselm-cluster-documentation/software/numerical-languages/octave.md - - Anselm Cluster Chemistry: + - ' Anselm Cluster Chemistry': - Molpro: anselm-cluster-documentation/software/chemistry/molpro.md - NWChem: anselm-cluster-documentation/software/chemistry/nwchem.md - - Anselm Cluster Ansys: + - ' Anselm Cluster Ansys': - Introduction: anselm-cluster-documentation/software/ansys/ansys.md - ANSYS CFX: anselm-cluster-documentation/software/ansys/ansys-cfx.md - ANSYS LS-DYNA: anselm-cluster-documentation/software/ansys/ansys-ls-dyna.md @@ -131,6 +132,56 @@ pages: - CESNET Data Storage: salomon/storage/cesnet-data-storage.md - Storage: salomon/storage/storage.md - Salomon Cluster Software: salomon/software/index.md + - ' Salomon Cluster Software': + - Modules: modules-salomon.md + - Compilers: salomon/software/compilers.md + - Intel Xeon Phi: salomon/software/intel-xeon-phi.md + - Java: salomon/software/java.md + - Operating System: salomon/software/operating-system.md + - ' Salomon Cluster Intel Suite': + - Introduction: salomon/software/intel-suite/intel-parallel-studio-introduction.md + - Intel MKL: salomon/software/intel-suite/intel-mkl.md + - Intel Compilers: salomon/software/intel-suite/intel-compilers.md + - Intel IPP: salomon/software/intel-suite/intel-integrated-performance-primitives.md + - Intel TBB: salomon/software/intel-suite/intel-tbb.md + - Intel Debugger: salomon/software/intel-suite/intel-debugger.md + - Intel Inspector: salomon/software/intel-suite/intel-inspector.md + - Intel Trace Analyzer and Collector: salomon/software/intel-suite/intel-trace-analyzer-and-collector.md + - Intel Advisor: salomon/software/intel-suite/intel-advisor.md + - ' Salomon Cluster MPI': + - Introduction: salomon/software/mpi/mpi.md + - MPI4Py (MPI for Python): salomon/software/mpi/mpi4py-mpi-for-python.md + - Running OpenMPI: salomon/software/mpi/Running_OpenMPI.md + - ' Salomon Cluster Debuggers': + - Introduction: salomon/software/debuggers/Introduction.md + - Valgrind: salomon/software/debuggers/valgrind.md + - Allinea Forge (DDT,MAP): salomon/software/debuggers/allinea-ddt.md + - Total View: salomon/software/debuggers/total-view.md + - Intel VTune Amplifier XE: salomon/software/debuggers/intel-vtune-amplifier.md + - Aislinn: salomon/software/debuggers/aislinn.md + - Allinea Performance Reports: salomon/software/debuggers/allinea-performance-reports.md + - Vampir: salomon/software/debuggers/vampir.md + - ' Salomon Cluster Numerical Languages': + - Introduction: salomon/software/numerical-languages/introduction.md + - R: salomon/software/numerical-languages/r.md + - Matlab: salomon/software/numerical-languages/matlab.md + - Octave: salomon/software/numerical-languages/octave.md + - ' Salomon Cluster Chemistry': + - Molpro: salomon/software/chemistry/molpro.md + - Phono3py: salomon/software/chemistry/phono3py.md + - NWChem: salomon/software/chemistry/nwchem.md + - ' Salomon Cluster Comsol': + - COMSOL: salomon/software/comsol/comsol-multiphysics.md + - Licensing and Available Versions: salomon/software/comsol/licensing-and-available-versions.md + - ' Salomon Cluster Ansys': + - Introduction: salomon/software/ansys/ansys.md + - Workbench: salomon/software/ansys/workbench.md + - ANSYS CFX: salomon/software/ansys/ansys-cfx.md + - ANSYS LS-DYNA: salomon/software/ansys/ansys-ls-dyna.md + - ANSYS MAPDL: salomon/software/ansys/ansys-mechanical-apdl.md + - ANSYS Fluent: salomon/software/ansys/ansys-fluent.md + - Setting license preferences: salomon/software/ansys/licensing.md + - Licensing and Available Versions: salomon/software/ansys/setting-license-preferences.md - PBSPro Documentation: pbspro-documentation/pbspro.md extra: diff --git a/scripts/source/list_md_mv b/scripts/source/list_md_mv index fb5e03774..f4a48544c 100644 --- a/scripts/source/list_md_mv +++ b/scripts/source/list_md_mv @@ -148,45 +148,3 @@ anselm-cluster-documentation/remote-visualization.md anselm-cluster-documentation/compute-nodes.md get-started-with-it4innovations/accessing-the-clusters/shell-access-and-data-transfer/vpn-connection-fail-in-win-8.1.md index.md -salomon/software/ansys/ansys-cfx.md -salomon/software/ansys/ansys-fluent.md -salomon/software/ansys/ansys-ls-dyna.md -salomon/software/ansys/ansys-mechanical-apdl.md -salomon/software/ansys/ansys.md -salomon/software/ansys/licensing.md -salomon/software/ansys/setting-license-preferences.md -salomon/software/ansys/workbench.md -salomon/software/chemistry/molpro.md -salomon/software/chemistry/nwchem.md -salomon/software/chemistry/phono3py.md -salomon/software/compilers.md -salomon/software/comsol/comsol-multiphysics.md -salomon/software/comsol/licensing-and-available-versions.md -salomon/software/debuggers/Introduction.md -salomon/software/debuggers/aislinn.md -salomon/software/debuggers/allinea-ddt.md -salomon/software/debuggers/allinea-performance-reports.md -salomon/software/debuggers/intel-vtune-amplifier.md -salomon/software/debuggers/total-view.md -salomon/software/debuggers/valgrind.md -salomon/software/debuggers/vampir.md -salomon/software/index.md -salomon/software/intel-suite/intel-advisor.md -salomon/software/intel-suite/intel-compilers.md -salomon/software/intel-suite/intel-debugger.md -salomon/software/intel-suite/intel-inspector.md -salomon/software/intel-suite/intel-integrated-performance-primitives.md -salomon/software/intel-suite/intel-mkl.md -salomon/software/intel-suite/intel-parallel-studio-introduction.md -salomon/software/intel-suite/intel-tbb.md -salomon/software/intel-suite/intel-trace-analyzer-and-collector.md -salomon/software/intel-xeon-phi.md -salomon/software/java.md -salomon/software/mpi/Running_OpenMPI.md -salomon/software/mpi/mpi.md -salomon/software/mpi/mpi4py-mpi-for-python.md -salomon/software/numerical-languages/introduction.md -salomon/software/numerical-languages/matlab.md -salomon/software/numerical-languages/octave.md -salomon/software/numerical-languages/r.md -salomon/software/operating-system.md -- GitLab