Update Matrix Template
From WormBaseWiki
| Check | Note | Related Compile Step |
|---|---|---|
| Have directories been created for given release in /u/l/w/databases? | | Create Data Directories |
| Has a wormbase_RELEASE directory been created in /u/l/w/acedb? | Mirror and Unpack AceDB files | |
| Is the Dev site running with the correct release number? | Mirror and Unpack AceDB files | |
| Is the wormbase pointer linked to the newly created acedb? | | Mirror and Unpack AceDB files |
| Is the database running and providing the correct version number? | | Mirror and Unpack AceDB files |
| Are the correct ontology files in /u/l/w/databases? | | Mirror Ontology from Sanger |
| Were the additional ontology files generated? | | Compile Ontology Resources |
| Is the Multi-Ontology Search Running? URL: http://dev.wormbase.org/db/ontology/search | | Compile Ontology Resources |
| Are the Ontology related summary pages working? | | Compile Ontology Resources |
| Can you do a blast searches on the appropriate genomes? http://dev.wormbase.org/db/searches/blast_blat | | Create Blast DBs |
| Can you do a blat search on the appropriate genomes? http://dev.wormbase.org/db/searches/blast_blat | | Create Blat DBs |
| Does ePCR work? http://dev.wormbase.org/db/searches/epcr | | Create ePRC DBs |
| Are the appropriate tracks visible on the appropriate genomes http://dev.wormbase.org/db/seq/sequence?name=AC7;class=Sequence | | Load GFF DBs |
| Is the EST aligner working? http://dev.wormbase.org/db/seq/aligner | | Load GFF DBs |
| Is the Gene Details Page working? http://dev.wormbase.org/db/gene/gene?name=amx-2;class=Gene;details=1;dna=B0019.1 | | Load GFF DBs |
| Are the supplementary GFF tracks available http://dev.wormbase.org/db/seq/gbrowse/c_elegans/ | | Load GFF DBs |
| Are the GBrowsers for the various species working http://dev.wormbase.org/db/seq/gbrowse/ | | Load GFF DBs |
| Are the Genetic Limit Tracks available http://dev.wormbase.org/db/seq/gbrowse/c_elegans/ | | Build and Load GFF Patches |
| Are protein motifs available on the Protein page? http://dev.wormbase.org/db/seq/protein?name=T21C12.1;class=Protein | | Build and Load GFF Patches |
| Can you do a disease search? http://dev.wormbase.org/db/orthology/disease | | Compile orthology resources |
| Can you list diseases for a gene? http://dev.wormbase.org/db/orthology/disease?related=WBGene00006803 | | Compile orthology resources |
| Can you list interactions? http://dev.wormbase.org/db/gene/interaction?list=WBGene00001188 | | Compile interaction resources |
| Can you list the available position matrices? http://dev.wormbase.org/db/seq/position_matrix?list=all | | Compile position matrices |
| Can you run a CLUSTAL search? http://dev.wormbase.org/db/seq/show_mult_align | | Update CLUSTAL database |
