From fdb1730e54a374e62a12139d3029f2c3be857fc2 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Pavel=20Gajdu=C5=A1ek?= <gajdusek.pavel@gmail.com>
Date: Thu, 14 Sep 2017 12:09:49 +0200
Subject: [PATCH] pages added to software from soft/sal and soft/ans
---
docs.it4i/software/java.md | 25 +++++++++++++++++++++++++
docs.it4i/software/operating-system.md | 9 +++++++++
mkdocs.yml | 17 ++++++-----------
3 files changed, 40 insertions(+), 11 deletions(-)
create mode 100644 docs.it4i/software/java.md
create mode 100644 docs.it4i/software/operating-system.md
diff --git a/docs.it4i/software/java.md b/docs.it4i/software/java.md
new file mode 100644
index 000000000..83c3738c0
--- /dev/null
+++ b/docs.it4i/software/java.md
@@ -0,0 +1,25 @@
+# Java
+
+Java is available on the cluster. Activate java by loading the Java module
+
+```console
+$ ml Java
+```
+
+Note that the Java module must be loaded on the compute nodes as well, in order to run java on compute nodes.
+
+Check for java version and path
+
+```console
+$ java -version
+$ which java
+```
+
+With the module loaded, not only the runtime environment (JRE), but also the development environment (JDK) with the compiler is available.
+
+```console
+$ javac -version
+$ which javac
+```
+
+Java applications may use MPI for inter-process communication, in conjunction with Open MPI. Read more on <http://www.open-mpi.org/faq/?category=java>. This functionality is currently not supported on Anselm cluster. In case you require the java interface to MPI, please contact [cluster support](https://support.it4i.cz/rt/).
diff --git a/docs.it4i/software/operating-system.md b/docs.it4i/software/operating-system.md
new file mode 100644
index 000000000..5f022fdff
--- /dev/null
+++ b/docs.it4i/software/operating-system.md
@@ -0,0 +1,9 @@
+# Anselm
+
+The operating system on Anselm is Linux - [**Red Hat Enterprise Linux release 6.x**](https://en.wikipedia.org/wiki/Red_Hat_Enterprise_Linux).
+
+# Salomon
+
+The operating system on Salomon is Linux - [**CentOS 6.x**](https://en.wikipedia.org/wiki/CentOS)
+
+The CentOS Linux distribution is a stable, predictable, manageable and reproducible platform derived from the sources of Red Hat Enterprise Linux (RHEL).
diff --git a/mkdocs.yml b/mkdocs.yml
index 05169fdac..ef4b53916 100644
--- a/mkdocs.yml
+++ b/mkdocs.yml
@@ -3,7 +3,7 @@ theme_dir: 'material'
docs_dir: docs.it4i
site_favicon: img/favicon.ico
-extra_css:
+extra_css:
- src/css.css
# Repository
@@ -58,11 +58,14 @@ pages:
- Remote Visualization: anselm/remote-visualization.md
- PRACE User Support: anselm/prace.md
- 'Software':
+ - Operating System: software/operating-system.md
- Lmod Environment: software/lmod.md
- Modules Matrix: modules-matrix.md
- - Singularity Container: software/singularity.md
+ - Singularity Container: software/singularity.md
- EasyBuild: software/easybuild.md
- Spack: software/spack.md
+ - Bioinformatics: software/bioinformatics.md
+ - Java: software/java.md
- Salomon Software:
- Available Modules: modules-salomon.md
- Available Modules on UV: modules-salomon-uv.md
@@ -78,8 +81,6 @@ pages:
- Workbench: salomon/software/ansys/workbench.md
- Setting License Preferences: salomon/software/ansys/licensing.md
- Licensing and Available Versions: salomon/software/ansys/setting-license-preferences.md
- - 'Bioinformatics':
- - Bioinformatics Applications: software/bioinformatics.md
- 'Chemistry':
- Molpro: salomon/software/chemistry/molpro.md
- NWChem: salomon/software/chemistry/nwchem.md
@@ -109,7 +110,6 @@ pages:
- Intel TBB: salomon/software/intel-suite/intel-tbb.md
- Intel Trace Analyzer and Collector: salomon/software/intel-suite/intel-trace-analyzer-and-collector.md
- Intel Xeon Phi: salomon/software/intel-xeon-phi.md
- - Java: salomon/software/java.md
- 'MPI':
- Introduction: salomon/software/mpi/mpi.md
- MPI4Py (MPI for Python): salomon/software/mpi/mpi4py-mpi-for-python.md
@@ -118,9 +118,8 @@ pages:
- Introduction: salomon/software/numerical-languages/introduction.md
- Matlab: salomon/software/numerical-languages/matlab.md
- Octave: salomon/software/numerical-languages/octave.md
- - R: salomon/software/numerical-languages/r.md
+ - R: salomon/software/numerical-languages/r.md
- OpenCoarrays: salomon/software/numerical-languages/opencoarrays.md
- - Operating System: salomon/software/operating-system.md
- ParaView: salomon/software/paraview.md
- Anselm Software:
- Available Modules: modules-anselm.md
@@ -134,8 +133,6 @@ pages:
- ANSYS LS-DYNA: anselm/software/ansys/ansys-ls-dyna.md
- ANSYS MAPDL: anselm/software/ansys/ansys-mechanical-apdl.md
- LS-DYNA: anselm/software/ansys/ls-dyna.md
- - 'Bioinformatics':
- - Bioinformatics Applications: software/bioinformatics.md
- 'Debuggers':
- Allinea Forge (DDT,MAP): anselm/software/debuggers/allinea-ddt.md
- Allinea Performance Reports: anselm/software/debuggers/allinea-performance-reports.md
@@ -165,7 +162,6 @@ pages:
- Intel TBB: anselm/software/intel-suite/intel-tbb.md
- Intel Xeon Phi: anselm/software/intel-xeon-phi.md
- ISV Licenses: anselm/software/isv_licenses.md
- - Java: anselm/software/java.md
- 'MPI':
- Introduction: anselm/software/mpi/mpi.md
- MPI4Py (MPI for Python): anselm/software/mpi/mpi4py-mpi-for-python.md
@@ -191,7 +187,6 @@ pages:
- Priorization Component (BiERApp): anselm/software/omics-master/priorization-component-bierapp.md
- Overview: anselm/software/omics-master/overview.md
- OpenFOAM: anselm/software/openfoam.md
- - Operating System: anselm/software/operating-system.md
- ParaView: anselm/software/paraview.md
- Virtualization: anselm/software/virtualization.md
- PBS Pro Documentation: pbspro.md
--
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