Refactor Package structure

This commit cleans up the package structure, to make two new top-level
packages `internal` (for internal-use packages) and `pkg` (for general
shared utility code).

internal/env/instances/barrel/conf/ports.conf

@@ -0,0 +1,4 @@
+# This file configures where apache should listen. 
+# Because we are running as a limited user, we want to listen on a high port. 
+# For this we use port 8080
+Listen 8080

internal/env/instances/barrel/conf/wisski.conf

@@ -0,0 +1,24 @@
+<VirtualHost *:8080>
+    # the document root -- /var/www/data/project/web
+    DocumentRoot /var/www/data/project/web
+
+    <Directory /var/www/data/project/web>
+        # add types for .owl and .rdf
+        AddType application/rdf+xml .owl
+        AddType application/rdf+xml .rdf
+
+        # Rewrite the 'ontology' directory
+        RewriteEngine On
+        RewriteOptions InheritDownBefore
+        ReWriteRule ^(ontology/[^/]+/).+ $1 [R=303,END]
+        ReWriteRule ^(ontology/[^/]+)/$ sites/default/files/$1.owl [END]
+
+        # Allow overrides of symlinks
+        Options Indexes FollowSymLinks
+        AllowOverride All
+        Require all granted
+    </Directory>
+
+    ErrorLog /dev/stderr
+    CustomLog /dev/stdout combined
+</VirtualHost>

internal/env/instances/barrel/conf/wisski.ini

@@ -0,0 +1,14 @@
+; File Uploads up to 1GB
+file_uploads = On
+upload_max_filesize = 1000M
+post_max_size = 1000M
+
+; Composer uses an absurd amount of memory
+; 4GB ought to be enough
+memory_limit = 4G
+
+; Increase various limits for some long running WissKI operations
+max_execution_time = 3000
+max_input_time = 600
+max_input_nesting_level = 640
+max_input_vars = 10000