- Added chapter "Installing LOVD" to the manual. The manual is currently still only available in Subversion.
- Logs.php now loads the title first, before calling lovd_requireAuth(), such that the lovd_requireAuth() error message has a title also.
- Minor coding standard change in ajax/map_variants.php.
- Custom column detailed views didn't render the legend fields correctly, if they contained multiple lines.
- Clarified on the custom column data entry forms that the legend fields can contain HTML.
- From a disease's detailed view you now also have the option to see all available phenotype custom columns.
- Properly removed the column editing errors given when the custom column's legend fields contained HTML. Also the regular expression pattern is no longer checked for HTML contents.
- Fixed bug; When importing data from a SeattleSeq annotated file, data for the "DistanceToSplice" column was not stored.
- Added new custom columns: Individual/Age_of_death, Individual/Death/Cause, Phenotype/Age and Phenotype/Length.
- When importing VCF or SeattleSeq files, the number of successfully imported variants is now mentioned when importing is done. Also, you will get an error message when no variants were imported. LOVD will no longer throw PHP errors when a non-VCF file is being imported.
- LOVD will no longer add not so informative log entries about diseases being linked to individuals.
- The gene's disclaimer has been moved to the far bottom of the gene home page.
- Fixed bug; A gene's human readable reference sequence can now actually be clicked and opened from the gene home page.
- Resorted the LOVD_Genes::prepareData() code to the order in which the columns appear.
- Improved PubMed custom link help text.
- Fixed bug; Curators could not complete their submissions because of typos in the authorization functions.


git-svn-id: https://humgenprojects.lumc.nl/svn/LOVD3/trunk@186 a7477d18-a37e-46de-aef1-57953c184492