gistfile1.txt

diff config.xml /data/var/lib/tomcat7/webapps/WebApollo/config/config.xml 
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< 	<!-- set to false to use hybrid disk/memory store which provides a little slower performance
< 	but uses a lot less memory - great for annotation rich genomes -->
< 	<use_pure_memory_store>true</use_pure_memory_store>
< 
98,123c94,108
< 		<!-- grouping for the configuration.  The "feature_types" attribute takes a list of
< 		SO terms (comma separated) to apply this configuration to
< 		(e.g., feature_types="sequence:transcript,sequence:mRNA" will make it so the group
< 		configuration will only apply to features of type "sequence:transcript" or "sequence:mRNA").
< 		A value of "default" will make this the default configuration for any types not explicitly
< 		defined in other groups.  You can have any many groups as you'd like -->
< 		<annotation_info_editor_group feature_types="default">
<
215,287d198
< 
< 		<!-- group the <data_adapter> children elements together -->
< 		<data_adapter_group>
< 
< 			<!-- display name for adapter group -->
< 			<key>FASTA</key>
< 
< 			<!-- required permission for using data adapter group
< 			available options are: read, write, publish -->
< 			<permission>read</permission>
< 
< 			<!-- one child <data_adapter> for each data adapter in the group -->
< 			<data_adapter>
< 
< 				<!-- display name for data adapter -->
< 				<key>peptide</key>
< 
< 				<!-- class for data adapter plugin -->
< 				<class>org.bbop.apollo.web.dataadapter.fasta.FastaDataAdapter</class>
< 				
< 				<!-- required permission for using data adapter
< 				available options are: read, write, publish -->
< 				<permission>read</permission>
< 
< 				<!-- configuration file for data adapter -->
< 				<config>/config/fasta_config.xml</config>
< 
< 				<!-- options to be passed to data adapter -->
< 				<options>output=file&amp;format=gzip&amp;seqType=peptide</options>
< 
< 			</data_adapter>
< 
< 			<data_adapter>
< 
< 				<!-- display name for data adapter -->
< 				<key>cDNA</key>
< 
< 				<!-- class for data adapter plugin -->
< 				<class>org.bbop.apollo.web.dataadapter.fasta.FastaDataAdapter</class>
< 				
< 				<!-- required permission for using data adapter
< 				available options are: read, write, publish -->
< 				<permission>read</permission>
< 
< 				<!-- configuration file for data adapter -->
< 				<config>/config/fasta_config.xml</config>
< 
< 				<!-- options to be passed to data adapter -->
< 				<options>output=file&amp;format=gzip&amp;seqType=cdna</options>
< 
< 			</data_adapter>
< 
< 			<data_adapter>
< 
< 				<!-- display name for data adapter -->
< 				<key>CDS</key>
< 
< 				<!-- class for data adapter plugin -->
< 				<class>org.bbop.apollo.web.dataadapter.fasta.FastaDataAdapter</class>
< 				
< 				<!-- required permission for using data adapter
< 				available options are: read, write, publish -->
< 				<permission>read</permission>
< 
< 				<!-- configuration file for data adapter -->
< 				<config>/config/fasta_config.xml</config>
< 
< 				<!-- options to be passed to data adapter -->
< 				<options>output=file&amp;format=gzip&amp;seqType=cds</options>
< 
< 			</data_adapter>
< 
< 		</data_adapter_group>