Commit 1145262a authored by Sebastien Moretti's avatar Sebastien Moretti
Browse files

Add other taxonomic exceptions

parent fe069968
......@@ -17,4 +17,5 @@
- fastacmd vs fetch ?
- apply Perl Best Practices deeply !
- remove problematic char when "** FATAL ERROR **: Unrecognised symbol '0' (ascii:48) fi..."
- Problems when cache contains files owned by different persons, and accessed between them
......@@ -17,6 +17,7 @@ my $uniprot = 'http://www.uniprot.org/uniprot/';
my $pdb = 'http://www.pdb.org/pdb/explore/explore.do?structureId=';
my %species = ( 'alfalfa' => '',
'baboon' => '',
'barley' => '',
'bovine' => '',
'cat' => '',
......@@ -69,51 +70,58 @@ my %nonSpecies = ( 'mRNA' => '',
);
#FIXME: fake match if 1st word is a single letter !
my %fakeMatch = ('Bacterial enrichment' => '',
'Boar' => '',
'Expression vector' => '',
'C-terminal' => '',
'chloroplast' => '',
'Cloning vector' => '',
'dihydrofolate reductase-thymidylate' => '',
'endosymbiont' => '',
'Expression vector' => '',
'Gamma proteobacterium' => '',
'Genomic sequence' => '',
'glycogen synthase' => '',
'high-potential iron' => '',
'Integrating YFP' => '',
'Landing site' => '',
'Mammalian expression' => '',
'Marine gamma' => '',
'Mariner mini-transposon' => '',
'Messenger RNA' => '',
'N-terminal' => '',
'nonselective-type endothelin' => '',
'PCR cloning' => '',
'PCR template' => '',
'Plasmid' => '',
'Prokaryote enrichment' => '',
'pyruvate carboxylase' => '',
'Recombinase expression' => '',
'retrotransposon' => '',
'self-incompatibility' => '',
'Sender Vector' => '',
'Shuttle vector' => '',
'Suicide vector' => '',
'Synthetic barnase' => '',
'Synthetic construct' => '',
'transposon' => '',
'Uncultured bacterium' => '',
'Uncultured marine' => '',
'Uncultured mollusc' => '',
'Uncultured microorganism' => '',
'Uncultured organism' => '',
'Uncultured prokaryote' => '',
'Uncultured proteobacterium' => '',
'UAS-less' => '',
'virus vector' => '',
'YAC construction' => '',
my %fakeMatch = ('Bacterial enrichment' => '',
'Boar' => '',
'Expression vector' => '',
'C-terminal' => '',
'chloroplast' => '',
'Cloning vector' => '',
'Control vector' => '',
'dihydrofolate reductase-thymidylate' => '',
'endosymbiont' => '',
'Expression vector' => '',
'Gamma proteobacterium' => '',
'Genomic sequence' => '',
'glycogen synthase' => '',
'high-potential iron' => '',
'Integrating YFP' => '',
'Integration vector' => '',
'Landing site' => '',
'Ligation-independent promoter-cloning' => '',
'Luciferase' => '',
'Mammalian expression' => '',
'Marine gamma' => '',
'Mariner mini-transposon' => '',
'Messenger RNA' => '',
'N-terminal' => '',
'nonselective-type endothelin' => '',
'PCR cloning' => '',
'PCR template' => '',
'Plasmid' => '',
'Prokaryote enrichment' => '',
'Promoter probe' => '',
'pyruvate carboxylase' => '',
'Recombinase expression' => '',
'Reporter vector' => '',
'retrotransposon' => '',
'self-incompatibility' => '',
'Sender Vector' => '',
'Shuttle vector' => '',
'Suicide vector' => '',
'Synthetic barnase' => '',
'Synthetic construct' => '',
'transposon' => '',
'T-DNA vector' => '',
'Uncultured bacterium' => '',
'Uncultured marine' => '',
'Uncultured mollusc' => '',
'Uncultured microorganism' => '',
'Uncultured organism' => '',
'Uncultured prokaryote' => '',
'Uncultured proteobacterium' => '',
'UAS-less' => '',
'virus vector' => '',
'YAC construction' => '',
);
my %Strain = ('biogroup' => '',
......
#
#Version: 3.4.2
#Version: 4.0.7
#OS: Linux
#Author: Sebastien Moretti
#E-mail: moretti.sebastien [AT] gmail.com
#
History of ProtoGene/PACMAN improvements:
History of ProtoGene improvements:
4.0.7
Harmonize download methods
Deep cleaning of code and names
Bug fixes: ...
3.4.2
Correct download for GeneID: 726214 / LOC726214
Enhance colored fasta CDS
......
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