I want to check/fix structures in a sdfile using the alias checker/fixer.
Some of the abbreviations assigned to the atom alias(es) in my sdfile are not present in the default abbreviations file (that seems to be part of a Marvin jar file).
I know the way to go is create a (tab separated) textfile with name 'user.abbrevgroup' and it seems that I need to copy that file in the chemaxon folder of the user home directory. Since I run win(8.1) this would be something like e.g.
Is that assumption correct? At least this is my understanding reading the docs.
If the assumption it does not work for me. I created a user.abbrev file (tab separated) and I assume I use the correct format and copied the file in the users home chemaxon folder.
When I run structure checker it seems that the content of this file is ignored, means I can specify what I want in my custom abbrev file, structure checker does not pick up the content of the file.
Could one please tell me what I am doing wrong. Hope someone can help.
Any feedback is highly appreciated.