Bug fix: --all option was not working. Usage of get_available_genes now updated.
Added progress message for getting a list of all available genes when using --all mode
Bug fix: progress message was placed incorrectly, causing it to be printed multiple times
Bug fix: corrected command line interface so -d can be used with other options. -g and -a are still mutally exclusive.
Bug fix: some PMIDs are shorter than 8 digits.
Bug fix: Some links in Leiden have invalid markup. Replace these with INVALID_LINK_MARKUP if found.
Updated documentation on command-line behavior