diff --git a/docs.it4i/software/bio-gentoo.md b/docs.it4i/software/bioinformatics.md similarity index 89% rename from docs.it4i/software/bio-gentoo.md rename to docs.it4i/software/bioinformatics.md index c96a6bf0646740a11d8508bd11bc61b86fe65d0d..941acad22ff0865d9725cb503636edc4b8cbd9fa 100644 --- a/docs.it4i/software/bio-gentoo.md +++ b/docs.it4i/software/bioinformatics.md @@ -4,7 +4,7 @@ Bioinformatics Applications Introduction ------------ -In addition to the many applications available through modules (deployed through EasyBuild packaging system) we provide an alternative source of applications on our clusters inferred from Gentoo Linux ( www.gentoo.org ). The user's environment is setup through a script which returns a bash instance to the user (you can think of it a starting a whole virtual machine but inside your current namespace) . The applications were optimized by gcc compiler for the SandyBridge and IvyBridge platforms. The binaries use paths from /apps/gentoo prefix to find the required runtime dependencies, config files, etc. The Gentoo Linux is a standalone installation not even relying on the glibc provided by host operating system (Redhat). The trick which allowed us to install Gentoo Linux on the host Redhat system is called Gentoo::RAP and uses a modified loader with a hardcoded path ( https://wiki.gentoo.org/wiki/Prefix/libc ). +In addition to the many applications available through modules (deployed through EasyBuild packaging system) we provide an alternative source of applications on our clusters inferred from [Gentoo Linux](www.gentoo.org). The user's environment is setup through a script which returns a bash instance to the user (you can think of it a starting a whole virtual machine but inside your current namespace) . The applications were optimized by gcc compiler for the SandyBridge and IvyBridge platforms. The binaries use paths from /apps/gentoo prefix to find the required runtime dependencies, config files, etc. The Gentoo Linux is a standalone installation not even relying on the glibc provided by host operating system (Redhat). The trick which allowed us to install Gentoo Linux on the host Redhat system is called Gentoo::RAP and uses a modified loader with a hardcoded path ([links](https://wiki.gentoo.org/wiki/Prefix/libc)). Starting the environment diff --git a/mkdocs.yml b/mkdocs.yml index 5a9bf6a77dc7b0ae2bb5d6d73299736677d7941d..759e52bbb751255639ab32051ec4d39b7b0c6d68 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -54,7 +54,7 @@ pages: - ANSYS MAPDL: anselm-cluster-documentation/software/ansys/ansys-mechanical-apdl.md - LS-DYNA: anselm-cluster-documentation/software/ansys/ls-dyna.md - 'Bioinformatics': - - Bioinformatics Applications: software/bio-gentoo.md + - Bioinformatics Applications: software/bioinformatics.md - 'Debuggers': - Allinea Forge (DDT,MAP): anselm-cluster-documentation/software/debuggers/allinea-ddt.md - Allinea Performance Reports: anselm-cluster-documentation/software/debuggers/allinea-performance-reports.md @@ -141,7 +141,7 @@ pages: - Setting License Preferences: salomon/software/ansys/licensing.md - Licensing and Available Versions: salomon/software/ansys/setting-license-preferences.md - 'Bioinformatics': - - Bioinformatics Applications: software/bio-gentoo.md + - Bioinformatics Applications: software/bioinformatics.md - 'Chemistry': - Molpro: salomon/software/chemistry/molpro.md - NWChem: salomon/software/chemistry/nwchem.md