group updates

Author: kaibinary

mkdocs-project-dir/docs/Clusters/Michael.md

@@ -181,25 +181,25 @@ would then be responsible for managing and maintaining these installs.
 ### Licensed software
 
 Reserved application groups exist for software that requires them. The
-group name will begin with `leg` or `lg`. After we add you to one of
-these groups, the central group change will happen overnight. You can
+group name will begin with `ag-archpc-`. After we add you to one of
+these groups, the group change will happen within the next hour or so. You can
 check your groups with the `groups` command.
 
 Please let us know your username when you ask to be added to a group.
 
   - **CASTEP**: You/your group leader need to have [signed up for a CASTEP license](https://www.castep.org/get_castep).
     Send us an acceptance email, or we can ask them to verify you have a
     license. You will then be added to the reserved application group
-    `lgcastep`. If you are a member of UKCP you are already covered by a
+    `ag-archpc-castep`. If you are a member of UKCP you are already covered by a
     license and just need to tell us when you request access.
   - **CRYSTAL**: You/your group leader need to have signed up for an
     Academic license. Crystal Solutions will send an email saying an
     account has been upgraded to "Academic UK" - forward that to us
     along with confirmation from the group leader that you should be in
-    their group. You will be added to the `legcryst` group.
+    their group. You will be added to the `ag-archpc-crystal` group.
   - **DL\_POLY**: has individual licenses for specific versions. [Sign up at DL\_POLY's website](https://www.ccp5.ac.uk/dl_poly/)
     and send us the acceptance email they give you. We will add you to
-    the appropriate version's reserved application group, eg `lgdlp408`.
+    the appropriate version's reserved application group, eg `ag-archpc-dlpoly408`.
   - **Gaussian**: not currently accessible for non-UCL institutions. UCL
     having a site license and another institute having a site license
     does not allow users from the other institute to run Gaussian on
@@ -208,15 +208,15 @@ Please let us know your username when you ask to be added to a group.
     address you are named on a VASP license using. You can also send 
     name and email of the main VASP license holder along with the license 
     number if you wish. We will then check in the VASP portal if we can 
-    add you. We will add you to the `legvasp5` or `legvasp6` reserved 
+    add you. We will add you to the `ag-archpc-vasp5` or `ag-archpc-vasp6` reserved 
     application groups depending on which versions you are licensed for. 
     You may also install your own copy in your home, and we provide a simple
     [build script on Github](https://github.com/UCL-ARC/rcps-buildscripts/blob/master/vasp_individual_install)
     (tested with VASP 5.4.4, no patches). You need to download the VASP
     source code and then you can run the script following the
     instructions at the top.
   - **Molpro**: Only UCL users are licensed to use our central copy and
-    can request to be added to the `lgmolpro` reserved application group.
+    can request to be added to the `ag-archpc-molpro` reserved application group.
 
 ## Suggested job sizes on original Michael
 

mkdocs-project-dir/docs/Clusters/Young.md

@@ -271,8 +271,8 @@ would then be responsible for managing and maintaining these installs.
 ### Licensed software
 
 Reserved application groups exist for software that requires them. The
-group name will begin with `leg` or `lg`. After we add you to one of
-these groups, the central group change will happen overnight. You can
+group name will begin with `ag-archpc-`. After we add you to one of
+these groups, the group change will happen within the next hour or so. You can
 check your groups with the `groups` command.
 
 Please let us know your username when you ask to be added to a group.
@@ -281,17 +281,17 @@ Please let us know your username when you ask to be added to a group.
     [signed up for a CASTEP license](https://www.castep.org/get_castep).
     Send us an acceptance email, or we can ask them to verify you have a
     license. You will then be added to the reserved application group
-    `lgcastep`. If you are a member of UKCP you are already covered by a
+    `ag-archpc-castep`. If you are a member of UKCP you are already covered by a
     license and just need to tell us when you request access.
   - **CRYSTAL**: You/your group leader need to have signed up for an
     Academic license. Crystal Solutions will send an email saying an
     account has been upgraded to "Academic UK" - forward that to us
     along with confirmation from the group leader that you should be in
-    their group. You will be added to the `legcryst` group.
+    their group. You will be added to the `ag-archpc-crystal` group.
   - **DL\_POLY**: has individual licenses for specific versions.
     [Sign up at DL\_POLY's website](https://www.ccp5.ac.uk/dl_poly/)
     and send us the acceptance email they give you. We will add you to
-    the appropriate version's reserved application group, eg `lgdlp408`.
+    the appropriate version's reserved application group, eg `ag-archpc-dlpoly408`.
   - **Gaussian**: not currently accessible for non-UCL institutions. UCL
     having a site license and another institute having a site license
     does not allow users from the other institute to run Gaussian on
@@ -300,15 +300,15 @@ Please let us know your username when you ask to be added to a group.
     address you are named on a VASP license using. You can also send 
     name and email of the main VASP license holder along with the license 
     number if you wish. We will then check in the VASP portal if we can 
-    add you. We will add you to the `legvasp5` or `legvasp6` reserved 
+    add you. We will add you to the `ag-archpc-vasp5` or `ag-archpc-vasp6` reserved 
     application groups depending on which versions you are licensed for. 
     You may also install your own copy in your home, and we provide a simple
     [build script on Github](https://github.com/UCL-ARC/rcps-buildscripts/blob/master/vasp_individual_install)
     (tested with VASP 5.4.4, no patches). You need to download the VASP
     source code and then you can run the script following the
     instructions at the top.
   - **Molpro**: Only UCL users are licensed to use our central copy and 
-    can request to be added to the `lgmolpro` reserved application group.
+    can request to be added to the `ag-archpc-molpro` reserved application group.
 
 ## Suggested job sizes
 

mkdocs-project-dir/docs/Other_Services/RStudio.md

@@ -23,7 +23,7 @@ by emailing the above address and provide the SITS code of the
 relevant module(s) and a pdf or link to the syllabus. Students who are
 registered on those SITS modules will then be added automatically.
 
-In addition we have a smalll number of Named Researcher licenses for
+In addition we have a small number of Named Researcher licenses for
 RStudio Pro which also run on this instance. Staff and Research
 Postgraduates who would like to have access to one of these licenses
 should email [email protected] to request access explaining why

mkdocs-project-dir/docs/Software_Guides/Other_Software.md

@@ -202,7 +202,7 @@ export PARROT_CVMFS_ALIEN_CACHE=</path/to/cache>
 
 CFD-ACE+ is a commercial computational fluid dynamics solver developed by ESI Group. It solves the conservation equations of mass, momentum, energy, chemical species and other scalar transport equations using the finite volume method. These equations enable coupled simulations of fluid, thermal, chemical, biological, electrical and mechanical phenomena.
 
-The license is owned by the Department of Mechanical Engineering who must give permission for users to be added to the group `lgcfdace`.
+The license is owned by the Department of Mechanical Engineering who must give permission for users to be added to the group `ag-archpc-cfdace`.
 
 ```
 module load cfd-ace/2018.0
@@ -216,7 +216,7 @@ CFD-SOLVER -model 3Dstepchannel_060414.DTF -num $NSLOTS -wd `pwd` \
 
 COMSOL Multiphysics is a cross-platform finite element analysis, solver and multiphysics simulation software.
 
-Electrical Engineering have a group license for version 52 and must give permission for users to be added to the group `legcomsl`. Chemical Engineering have a Departmental License for version 53 and members of that department may be added to the group `lgcomsol`. 
+Electrical Engineering have a group license for version 52 and must give permission for users to be added to the group `ag-archpc-comsol-eee`. Chemical Engineering have a Departmental License for version 53 and members of that department may be added to the group `ag-archpc-comsol-chemeng`. 
 
 ```
 # Run a parallel COMSOL job
@@ -1060,7 +1060,7 @@ The MRtrix GUI tools are unavailable: `mrview` and `shview` in MRtrix 3 cannot b
 
 MuTect is a tool developed at the Broad Institute for the reliable and accurate identification of somatic point mutations in next generation sequencing data of cancer genomes. It is built on top of the GenomeAnalysisToolkit (GATK), which is also developed at the Broad Institute, so it uses the same command-line conventions and (almost all) the same input and output file formats. 
 
-MuTect requires you to agree to the GATK license before we can add you to the `lgmutect` group which gives you access: you can do this by downloading MuTect from [The Broad Institute CGA page](https://software.broadinstitute.org/cancer/cga/mutect). You may need to create a gatkforums account before you can download.
+MuTect requires you to agree to the GATK license before we can add you to the `ag-archpc-mutect` group which gives you access: you can do this by downloading MuTect from [The Broad Institute CGA page](https://software.broadinstitute.org/cancer/cga/mutect). You may need to create a gatkforums account before you can download.
 
 MuTect is currently not compatible with Java 1.8, so you need to use the system Java 1.7. Set up your modules as follows: 
 ```