removing a trigger check on deprecated field
[sgn.git] / sgn.conf
blob076210ac35d33276a6fc4f9fdb1a645bc1d653d8
2 #### most commonly altered config variables ####
4 #is this a production server?
5 production_server         0
7 #default database connection info
8 dbhost   db.sgn.cornell.edu
9 dbname   cxgn
10 dbuser   web_usr
11 #dbpass   set_this_here
13 # who is the web server user for chowning and emailing.  need to set
14 # these manually under Apache mod_perl for example, because the server
15 # runs under a different user than when it starts.
16 www_user                 __USERNAME__
17 www_group                __GROUPNAME__
19 # when true, server removes its tempfiles when the app is started
20 clear_tempfiles_on_restart  1
22 ##### other config variables #####
24 dbsearchpath   sgn
25 dbsearchpath   public
26 dbsearchpath   annotation
27 dbsearchpath   genomic
28 dbsearchpath   insitu
29 dbsearchpath   metadata
30 dbsearchpath   pheno_population
31 dbsearchpath   phenome
32 dbsearchpath   physical
33 dbsearchpath   tomato_gff
34 dbsearchpath   biosource
35 dbsearchpath   gem
37 <DatabaseConnection sgn_test>
38         #password   set_this_please
39         dsn   dbi:Pg:host=localhost;dbname=cxgn
40         user   postgres
41         search_path   public
42         search_path   sgn
43         search_path   annotation
44         search_path   genomic
45         search_path   insitu
46         search_path   metadata
47         search_path   pheno_population
48         search_path   phenome
49         search_path   physical
50         search_path   tomato_gff
51         search_path   biosource
52         search_path   gem
53 </DatabaseConnection>
55 ### Cview configuration parameters
56 <Controller::Cview>
57         cview_default_map_id 9
58 </Controller::Cview>
60 ### backcompat variables for the various static content types
61 # relative URL and absolute path for static datasets
62 static_datasets_url       /data
63 static_datasets_path      /data/prod/public
65 # relative URL and absoluate path for static site content
66 static_content_url        /static_content
67 static_content_path       /data/prod/public/sgn_static_content
68 homepage_files_dir        /data/prod/public/sgn_static_content/homepage
70 # this needs to be here rather than in the CGI controller itself to
71 # work around a bug in all but the most recent
72 # Catalyst::Controller::CGIBin
73 <Controller::CGI>
74     cgi_dir   __path_to(cgi-bin)__
75 </Controller::CGI>
77 <View::Email::ErrorEmail>
78     <default>
79         content_type  text/plain
80         to            sgn-bugs@solgenomics.net
81         from          sgn-bugs@solgenomics.net
82         charset       utf-8
83     </default>
84     dump_skip_class   Catalyst Catalyst::Stats DBIx::Class::Schema DBIx::Class::ResultSet  DBIx::Class::Row  HTML::Mason::Interp
85 </View::Email::ErrorEmail>
87 # should we send emails, if we are a production server? this can be
88 # used to turn off emails if we are being bombarded.
89 admin_email              sgn-feedback@solgenomics.net
90 feedback_email           sgn-feedback@solgenomics.net
91 bugs_email               sgn-bugs@solgenomics.net
92 email                    sgn-feedback@solgenomics.net
93 disable_emails           0
95 # URL of the canonical, main production site
96 main_production_site_url  http://solgenomics.net
98 #is there a system message text file somewhere we should be displaying?
99 system_message_file       __HOME__/system_message.txt
100 # defaults to /tmp/<user>/SGN-site
101 tempfiles_base            
103 #R qtl tempfiles (must be cluster accessible)
104 r_qtl_temp_path           /data/prod/tmp/r_qtl___USERNAME__
106 #allow people to log in?
107 disable_login             0
109 # where to run cluster jobs
110 web_cluster_queue              
112 #is this a mirror of SGN, or the real thing?
113 is_mirror                 0
115 # how to find cosii_files for markerinfo.pl
116 cosii_files               /data/cosii2
118 # log files, ABSOLUTE PATHS
119 error_log                 /var/log/sgn-site/error.log
120 access_log                /var/log/sgn-site/access.log
121 rewrite_log               /var/log/sgn-site/rewrite.log
123 # paths to stuff
124 hmmsearch_location        hmmsearch
125 intron_finder_database    /data/prod/public/intron_finder_database
127 trace_path                /data/prod/public/chromatograms
128 image_dir                 /images/image_files
129 image_path                /data/prod/public/images
130 tempfiles_subdir          /static/documents/tempfiles
131 submit_dir                /data/shared/submit-uploads
132 programs_subdir           /programs
133 documents_subdir          /documents
134 conf_subdir               /conf
135 support_data_subdir       /support_data
137 #currently our cookies encrypt stuff, so this is just a random string to use to do that
138 cookie_encryption_key     bo9yie2JeeVee6ouAhch9aomeesieJ3iShae8aa8
140 # where the genefamily info is stored
141 genefamily_dir            /data/prod/private/genomes/genefamily/
143 <feature SGN::Feature::FeaturePages>
144     enabled      1
145 </feature>
146 <feature SGN::Feature::LocusPages>
147     enabled      1
148 </feature>
150 # default GBrowse2 configuration, for a Debian gbrowse2 installation
151 <feature SGN::Feature::GBrowse2>
152     enabled      1
153     perl_inc     /usr/share/gbrowse/lib/perl5
154     tmp_dir      /var/tmp/gbrowse
155     cgi_url      /gbrowse/bin
156     static_url   /gbrowse/static
157     run_mode     fcgi
158     cgi_bin      /usr/share/gbrowse/cgi-bin
159     static_dir   /usr/share/gbrowse/htdocs
160 </feature>
162 # default ITAG config
163 <feature SGN::Feature::ITAG>
164     enabled         1
165     pipeline_base   /data/shared/tomato_genome/itagpipeline/itag
166     releases_base   /data/prod/private/genomes/solanum_lycopersicum/annotation
167 </feature>
169 cview_db_backend    cxgn
171 #how to find blast stuff
172 blast_path                ""
173 blast_db_path             /data/shared/blast/databases/current
175 #the shared temp directory used by cluster nodes
176 cluster_shared_tempdir    /data/prod/tmp
178 #how verbose we want the warnings to be in the apache error log
179 verbose_warnings          1
181 # Insitu file locations
182 insitu_fullsize_dir       /data/prod/public/images/insitu/processed
183 insitu_fullsize_url       /data/images/insitu/processed
184 insitu_display_dir        /data/prod/public/images/insitu/display
185 insitu_display_url        /data/images/insitu/display
186 insitu_input_dir          /data/prod/public/images/insitu/incoming
188 #path to our production_ftp site
189 ftpsite_root              /data/prod/public
190 ftpsite_url               ftp://ftp.solgenomics.net
192 #path to the pucebaboon temperature sensor file:
193 pucebaboon_file        /data/prod/public/digitemp.out