enviMass is a software package to be run locally from the R statistical environment, including a browser-based interface to facilitate its usage.
enviMass is mainly (but not exclusively) tested and hence recommended for 64bit Windows 7 or later. For ease of installation, enviMass and all its R dependency packages can thus be downloaded for 64bit Windows as described in the below installation section. Installations for other OS may be made available upon request. Please read the installation instructions carefully and adhere to them.
enviMass requires installed R version 3.3.3 and the latest version of a web-browser (preferably Firefox), both freely available. A memory minimum of 16GB RAM is highly recommended; the more and the larger files analyzed, the more RAM will be required though. You must be online for installation and when accessing certain help pages and internal data sets thereafter. Ensure you have administrator rights on your computer and write/read access to all concerned folders, both during installation and also when running enviMass.After installation: get introduced to enviMass following those → Next: ... links.
Updates on enviMass v4.16: 06.04.19 / patch for download of isotopologue spaces.
x64desktop icon (select 'Run as administrator') - the R console pops up. In the console, navigate to
Install package(s) from local filesto get to a
Select filesmenu. With this menu, navigate to the unzipped packages and select all packages in that folder to be opened, i.e., installed (you can use the
shiftkey to select all these zip-files at once). (If a message with '...install into your personal library instead' appears, you are not running R as adiministrator; abort)
The enviMass library should thereby be loaded into R and its user interface should appear in your web-browser. Once you start calculations in parallel mode, your OS may ask whether to block R (e.g., via
the Windows Defender Firewall) - allow access.
webMass(); # Press Enter
C:/Program Files/R/R-X.X.X/library), right-mouse-click on the folder, select properties and adapt the settings in the security tab accordingly.
C:/Program Files/R/R-X.X.X/libraryin Windows).
C:/Program Files/R/...in Windows - unfortunately often not removed automatically while uninstalling R) as well as any 'personal' Windows user R libraries (mostly to be found under sth like
XY:\Users\User_XY\Documents\R\win-library). Please repeat the installation (inclusive of renewed downloads) and make sure you adhere to all instructions (administrator rights, no RStudio, 64bit vs. 32bit, no shifting between installation options or unrelated updates, ...).
webMass()a time-out error message appears before the enviMass interface has been loaded in your browser? This may have different reasons. First, check the timeout-configurations both in your browser and also in R itself (command
getOption("timeout")) - the enviMass interface requires more than just a few seconds to build up. Second, check if the proxy settings of your browser interfere with adressing the R localhost server: is a proxy-auto-configuration file adressed? Check if enabling the automatic detection of proxy settings in your browser can solve the problem (at your own risk). Any other security settings which may interfere with adressing the localhost (IP-adress 127.0.0.1)? Talk to your network administrator.