fix repertoire AP/OR/FI columns and main scroll containment

- repertoire-index.php: add $colHasMatches per-column guard.
  Entries in a column are only faded when that column has at least one
  matched entry in the current result set. When a dimension has no
  matched entries (e.g. no thesis has orientation_id set yet), the
  entire column stays fully interactive — all values remain clickable.
  This fixes: empty columns, forced single-select, cascade fading.

- Database.php: revert allAp/allOr/allFi to full lookup-table queries
  so all known values are always shown (not just ones linked to theses).

- common.css: body is now a flex column; main gets flex:1 + min-height:0;
  header-search-wrap gets flex-shrink:0; duplicate html/body blocks merged.
- public.css: removed redundant top-level main block; home-main gets min-height:0.
- repertoire.css: search-main gets min-height:0 for proper flex scroll.

.gitignore

@@ -1,16 +1,13 @@
-# Admin credentials (contains bcrypt hash — never commit)
-config/admin_credentials.php
-
 # Vendor directory (third-party code)
 vendor/
 compose.lock
 
 ### Test databases ###
-storage/test.db
+app/storage/test.db
 
 ### Logs ###
 error.log
-storage/cache/
+app/storage/cache/
 
 # Nix
 .direnv/