formatting and more specific mailto links

rstudio1.md

@@ -6,10 +6,12 @@ Subscribe to updates of this documentation via
 [[_TOC_]]
 
 ## Access Web-IDE of RStudio
-1. check if you have been given access from gsu (g_r_users)
-1. [https://rstudio.idiv.de](https://rstudio.idiv.de)
+
+1. check if you have been given access from [GSU](https://www.idiv.de/?id=532)
+   (i.e. if you are the group g_r_users)
+1. go to https://rstudio.idiv.de
 1. use your iDiv username and password to login
-1. please remember to end your session when you have finished your current
+1. please remember to **end your session** when you have finished your current
    calculations
     - interactively via the red button in the upper right
     - in your longer running scripts use a statement like this after your
@@ -23,10 +25,12 @@ Subscribe to updates of this documentation via
       ```
 1. if you want to run jobs for weeks or which require many cores (>10) for
    multiple days, please contact
-   [it-support@idiv.de](mailto:it-support@idiv.de) beforehand. At this point
-   you should consider to move to the HPC cluster.
+   [it-support@idiv.de](mailto:it-support@idiv.de?subject=heavy%20rstudio%20use)
+   beforehand. At this point you should consider to move to the HPC cluster.
+
 
 ## ssh access
+
 You can only reach the server from the internal network, i.e. if you are
 connected via VPN or cable at iDiv. Note that the internal name is rstudio1
 instead of rstudio!
@@ -39,13 +43,16 @@ ssh rstudio1.idiv.de
 ```
 
 ## Data organisation
+
 Currently there are three important places for you on the server:
 
-1. /homes/$USER your home directory 
-2. /data place any larger files you want to work with here
-3. /home/$USER/winhome a mounting point for your network home directory
+1. `/homes/$USER` your home directory
+2. `/data place` any larger files you want to work with here
+3. `/home/$USER/winhome` a mounting point for your network home directory
+
 
 ### Home directory
+
 When you log in either via https or ssh this is usually the first place where
 you end up. Your home directory can be abbreviated by "~/". There is not a lot
 of space here, so do not place any larger data here. RStudio has the ugly not
@@ -60,19 +67,26 @@ in `.RData` of your current working directory if you end your session or call
 `save.image()` without further arguments. Please ensure that you do not save
 large `.RData` files in your home directory.
 
+
 ### /data
+
 You can create your own directories here and place data inside. By default
 others can read the directories you created here, but not write in them. If you
-need any special permission let us know via it-support@idiv.de. To directly
-jump to another directory select the *Files* pane and click on the three dots
-(…) located on the right hand side of the current file path. Now enter the path
-you want to browse, e.g. `/data/`. Additionally there should be a symbolic link
-in your home directory called data, which points to the /data directory.
+need any special permission let us know via
+[it-support@idiv.de](mailto:it-support@idiv.de?subject=rstudio%20file%20permissions).
+To directly jump to another directory select the *Files* pane and click on the
+three dots (…) located on
+the right hand side of the current file path. Now enter the path you want to
+browse, e.g. `/data/`. Additionally there should be a symbolic link in your
+home directory called data, which points to the /data directory.
+
 
 ### iDiv group shares
+
 If you are part of an iDiv group you can access your group share on the rstudio
 server at `/data/GROUPNAME-group-share/`. If your group share is not available
-yet please contact [it-support@idiv.de](mailto:it-support@idiv.de).
+yet please contact
+[it-support@idiv.de](mailto:it-support@idiv.de?subject=rstudio%20group-share).
 
 
 ## Network home
@@ -103,10 +117,12 @@ file had 98 MB. Many tools to read or write (e.g. save, save.image, read.table,
 fread from data.table) allow transparent use of compressed files, i.e. you just
 specify the compressed file instead of the uncompressed file.
 
+
 ## Data transfer
 You can use either use the web IDE to upload and export files.
 
 ### Web IDE
+
 In the *Files* pane click the *Upload* button to upload files to the current
 directory. For multiple files check the displayed *TIP* in the upload window.
 For big files please see below.
@@ -116,6 +132,7 @@ directory and click *More -> Export*. If you selected multiple files a zip file
 will be downloaded.
 
 ### Tools
+
 Other file transfer tools are often more reliable and faster than the web IDE.
 Short instructions are available for several tools like [scp](scp.md),
 [rsync](rsync.md), [filezilla](filezilla.md).
@@ -136,7 +153,9 @@ from your buisness logic. Recommendations and templates can be found in the
 [EVE HPC Cluster
 wiki](https://wiki.ufz.de/eve/index.php/R_Advanced_-_Tips_%26_Tricks#Interactive_and_Command_Line).
 
+
 ## Packages
+
 Many R packages are installed already via the system's package management and
 many more are available via the same track. This is the preferred way to
 install R packages, as it avoids duplicate installations per user, removes the
@@ -146,13 +165,15 @@ installed—check with `installed.packages()` for more details.
 
 Of course you can still install packages via R's own functions
 (install.packages, devtools, …) if there is the need for it. Long term please
-drop a note to it-suppot@idiv.de so that we can install the package via the
-system.
+drop a note to
+[it-suppot@idiv.de](mailto:it-suppot@idiv.de?subject=rstudio%20packages) so
+that we can install the package via the system.
 
-- [https://github.com/eddelbuettel/rcppapt](https://github.com/eddelbuettel/rcppapt) not yet implemented: 
+- https://github.com/eddelbuettel/rcppapt (not yet implemented)
 
 
 ## Other servers with R
+
 There are some other servers which have R and RStudio (desktop version)
 installed, but support for R on those is limited. This means you might
 frequently encounter outdated versions of R and associated packages.
@@ -163,10 +184,13 @@ frequently encounter outdated versions of R and associated packages.
 - idivts8.idiv.de windows 2012r2 terminal server
 
 ### External resources available to you
+
 Be aware that we do not control external resources and that you can connect
 your iDiv network shares directly.
 
+
 ### Scientific Computing at the University of Leipzig
+
 The UL department [Scientific
 Computing](https://www.urz.uni-leipzig.de/de/fue/sc/) makes a set of [rstudio
 servers](https://www.urz.uni-leipzig.de/de/fue/sc/rstudio/) available as well.