Bio-Genex
view release on metacpan or search on metacpan
Makefile.PL view on Meta::CPAN
} else {
if ($_ =~ /\%\%START_PERL\%\%/) {
$_ =~ s/\%\%START_PERL\%\%/$START_PERL/g;
$done = 1;
print OUT;
}
}
}
close(OUT);
close(IN);
chmod(0775,$outfile);
`$outfile`;
die "Couldn't run $outfile: $!"
if $?;
}
$EXAMPLE_DIR = $Bio::Genex::Config->{'GENEX_EXAMPLE_DIR'};
$GENEX_MAN1 = $Bio::Genex::Config->{'GENEX_MAN1'};
$GENEX_MAN3 = $Bio::Genex::Config->{'GENEX_MAN3'};
$GENEX_INSTALLSITE = $Bio::Genex::Config->{'GENEX_INSTALLSITE'};
data/db_tables/species.xml view on Meta::CPAN
general_classification="plant:angiosperm:dicot:brassicaceae:arabidopsis"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; core eudicots; Rosidae; eurosids II; Brassicales; Brassicaceae; Arabidopsis"
common_names="thale cress, mouse-eared cress"
scientific_aliases="A. thaliana, Pilsella siliquasa"
cell_structure="multicellular_eukaryotic"
genome_size="140000000"
is_sequenced_genome="yes"
is_circular_genome="no"
num_chromosomes="5"
ncbi_taxonomy_acc="3702"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=3702&lvl=3&keep=1&srchmode=1&unlock, http://www.arabidopsis.org/aboutarabidopsis.html"/>
<species classification_group="2"
primary_scientific_name="Escherichia coli"
full_taxonomy="Bacteria; Proteobacteria; gamma subdivision; Enterobacteriaceae; Escherichia "
general_classification="prokaryote:eubacteria"
common_names="ecoli, E. coli"
is_sequenced_genome="yes"
is_circular_genome="yes"
ncbi_taxonomy_acc="562"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=562&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="5"
primary_scientific_name="Saccharomyces cerevisiae"
full_taxonomy="Eukaryota; Fungi; Ascomycota; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces "
general_classification="eukaryote:fungi:saccharomyces"
is_sequenced_genome="yes"
is_circular_genome="no"
common_names="baker's yeast, brewer's yeast, yeast"
ncbi_taxonomy_acc="4932"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=4932&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:dicot:legume"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; core eudicots; Rosidae; eurosids I; Fabales; Fabaceae; Papilionoideae; Medicago "
primary_scientific_name="Medicago truncatula"
common_names="barrel medic"
ncbi_taxonomy_acc="3880"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=3880&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="5"
primary_scientific_name="Dictyostelium discoideum"
general_classification="eukaryote:dictyosteliida"
full_taxonomy="Eukaryota; Dictyosteliida; Dictyostelium"
common_names="slime mold"
ncbi_taxonomy_acc="44689"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=44689&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
primary_scientific_name="Takifugu rubripes rubripes"
general_classification="animal:fish"
full_taxonomy="Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Euteleostei; Neoteleostei; Acanthomorpha; Acanthopterygii; Percomorpha; Tetraodontiformes; Tetraodontidae; Takifugu; Ta...
scientific_aliases="Fugu rubripes"
common_names="fugu, torafugu, puffer fish"
ncbi_taxonomy_acc="31033"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=31033&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
primary_scientific_name="Mus musculus"
full_taxonomy="Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Rodentia; Sciurognathi; Muridae; Murinae; Mus"
general_classification="animal:mammal:rodentia"
common_names="house mouse"
ncbi_taxonomy_acc="10090"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=10090&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="5"
primary_scientific_name="Plasmodium falciparum"
full_taxonomy="Eukaryota; Alveolata; Apicomplexa; Haemosporida; Plasmodium "
general_classification="eukaryote:apicomplexa"
common_names="malarial parasite P. falciparum"
ncbi_taxonomy_acc="5833"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=5833&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
primary_scientific_name="Caenorhabditis elegans"
full_taxonomy="Eukaryota; Metazoa; Nematoda; Chromadorea; Rhabditida; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis "
general_classification="animal:metazoa:nematode"
common_names="worm"
ncbi_taxonomy_acc="6239"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=6239&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
primary_scientific_name="Drosophila melanogaster"
full_taxonomy="Eukaryota; Metazoa; Arthropoda; Tracheata; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila "
general_classification="animal:insect"
common_names="fruit fly"
ncbi_taxonomy_acc="7227"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Undef&id=7227&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="2"
primary_scientific_name="Mycoplasma genitalium"
full_taxonomy="Bacteria; Firmicutes; Bacillus/Clostridium group; Mollicutes; Mycoplasmataceae; Mycoplasma "
general_classification="prokaryote"
is_circular_genome="true"
common_names=""
ncbi_taxonomy_acc="2097"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=2097&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="2"
full_taxonomy="Bacteria; Firmicutes; Bacillus/Clostridium group; Mollicutes; Mycoplasmataceae; Mycoplasma "
is_circular_genome="true"
general_classification="prokaryote"
primary_scientific_name="Mycoplasma pneumoniae"
common_names=""
ncbi_taxonomy_acc="2104"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=2104&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="5"
primary_scientific_name="Pneumocystis carinii"
full_taxonomy="Eukaryota; Fungi; Fungi incertae sedis; Pneumocystidaceae; Pneumocystis "
general_classification="eukaryote:fungi"
common_names=""
ncbi_taxonomy_acc="4754"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=4754&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="5"
primary_scientific_name="Schizosaccharomyces pombe"
full_taxonomy="Eukaryota; Fungi; Ascomycota; Schizosaccharomycetales; Schizosaccharomycetaceae; Schizosaccharomyces "
general_classification="eukaryote:fungi"
common_names="yeast, fission yeast, S. pombe"
ncbi_taxonomy_acc="4896"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=4896&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
primary_scientific_name="Danio rerio"
full_taxonomy="Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Euteleostei; Ostariophysi; Cypriniformes; Cyprinidae; Rasborinae; Danio "
general_classification="animal:fish"
common_names="zebra fish, zebrafishes, zebra danio"
ncbi_taxonomy_acc="7955"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=7955&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
primary_scientific_name="Homo sapiens"
is_sequenced_genome="true"
full_taxonomy="Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Primates; Catarrhini; Hominidae; Homo "
general_classification="animal:mammal:human"
common_names="human"
ncbi_taxonomy_acc="9606"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=9606&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
primary_scientific_name="Oryza sativa subsp. indica"
is_sequenced_genome="true"
full_taxonomy=""
general_classification="plant:angiosperm:monocot:grass:cereal"
common_names="Indian rice"
ncbi_taxonomy_acc="39946"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=39946&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
primary_scientific_name="Oryza sativa subsp. japonica"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; Oryza; Oryza"
is_sequenced_genome="true"
general_classification="plant:angiosperm:monocot:grass:cereal"
common_names="rice"
ncbi_taxonomy_acc="39947"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Tree&id=39947&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
primary_scientific_name="Rattus norvegicus"
full_taxonomy="Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Rodentia; Sciurognathi; Muridae; Murinae; Rattus "
general_classification="animal:mammal:rodentia"
common_names="rat, brown rat"
ncbi_taxonomy_acc="10116"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=10116&lvl=3&keep=1&srchmode=2&unlock"/>
<species classification_group="4"
primary_scientific_name="Trypanosoma cruzi"
full_taxonomy="Eukaryota; Euglenozoa; Kinetoplastida; Trypanosomatidae; Trypanosoma; Schizotrypanum "
general_classification="eukaryote"
common_names="sleeping sickness parasite"
ncbi_taxonomy_acc="5693"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Undef&id=5693&lvl=0&keep=1&srchmode=2&unlock"/>
<species classification_group="4"
primary_scientific_name="Trypanosoma brucei"
full_taxonomy="Eukaryota; Euglenozoa; Kinetoplastida; Trypanosomatidae; Trypanosoma"
general_classification="eukaryote"
common_names="sleeping sickness parasite"
ncbi_taxonomy_acc="5691"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Undef&id=5691&lvl=0&keep=1&srchmode=2&unlock"/>
<species classification_group="5"
primary_scientific_name="Glomus versiforme"
full_taxonomy="Eukaryota; Fungi; Zygomycota; Zygomycetes; Glomales; Glomaceae; Glomus "
general_classification="eukaryote:fungi"
common_names="arbuscular mycorrhizae"
ncbi_taxonomy_acc="43425"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=43425&lvl=3&srchmode=2&unlock"/>
<species classification_group="3"
primary_scientific_name="Azolla caroliniana"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Filicophyta; Filicopsida; Hydropteridales; Azollaceae; Azolla "
general_classification="plant:fern"
common_names="mosquito fern"
ncbi_taxonomy_acc="39631"
relevant_urls="http://www.ncbi.nlm.nih.gov/htbin-post/Taxonomy/wgetorg?mode=Info&id=39631&lvl=3&srchmode=2&unlock"/>
<species classification_group="3"
primary_scientific_name="Pteridium aquilinum"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Filicophyta; Filicopsida; Filicales; Dennstaedtiaceae; Pteridium "
general_classification="plant:fern"
common_names="bracken"
ncbi_taxonomy_acc="32101"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=32101&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="2"
primary_scientific_name="Deinococcus radiodurans"
full_taxonomy="Bacteria; Thermus/Deinococcus group; Deinococcales; Deinococcus "
is_circular_genome="true"
general_classification="prokaryote:archaebacteria"
common_names="Conan the Bacterium"
ncbi_taxonomy_acc="1299"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=1299&lvl=3&keep=1&srchmode=3&unlock"/>
<species classification_group="2"
primary_scientific_name="Synechocystis sp. PCC6803"
full_taxonomy="Bacteria; Cyanobacteria; Chroococcales; Synechocystis"
is_circular_genome="true"
general_classification="prokaryote:eubacteria"
common_names="cyanobacteria"
ncbi_taxonomy_acc="1148"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=1148&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="4"
primary_scientific_name="Naegleria fowleri"
full_taxonomy="Eukaryota; Heterolobosea; Schizopyrenida; Vahlkampfiidae; Naegleria"
general_classification="eukaryote"
common_names="amoeba"
ncbi_taxonomy_acc="5763"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=5763&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="4"
primary_scientific_name="Giardia intestinalis"
full_taxonomy="Eukaryota; Diplomonadida; Hexamitidae; Giardiinae; Giardia "
general_classification="eukaryote"
scientific_aliases="Giardia lamblia, Giardia duodenalis"
common_names=""
ncbi_taxonomy_acc="5741"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=5741&lvl=3&keep=1&srchmode=2&unlock"/>
<species classification_group="7"
primary_scientific_name="Capsicum frutescens"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; core eudicots; Asteridae; euasterids I; Solanales; Solanaceae; Capsicum"
general_classification="plant:angiosperm:dicot:solanaceae"
common_names="chili pepper, chile peppar"
ncbi_taxonomy_acc="4073"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=4073&lvl=3&keep=1&srchmode=2&unlock"/>
<species classification_group="7"
primary_scientific_name="Lycopersicon esculentum"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; core eudicots; Asteridae; euasterids I; Solanales; Solanaceae; Solanum; Lycopersicon "
general_classification="plant:angiosperm:dicot:solanaceae"
common_names="tomatoes"
ncbi_taxonomy_acc="4081"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=4081&lvl=3&keep=1&srchmode=2&unlock"/>
<species classification_group="7"
primary_scientific_name="Solanum tuberosum"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; core eudicots; Asteridae; euasterids I; Solanales; Solanaceae; Solanum "
general_classification="plant:angiosperm:dicot"
common_names="potatoes"
ncbi_taxonomy_acc="4113"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=4113&lvl=3&keep=1&srchmode=2&unlock"/>
<species classification_group="7"
primary_scientific_name="Solanum melongena"
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; core eudicots; Asteridae; euasterids I; Solanales; Solanaceae; Solanum "
general_classification="plant:angiosperm:dicot"
common_names="eggplant, brinjal, aubergine"
ncbi_taxonomy_acc="4111"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Info&id=4111&lvl=3&keep=1&srchmode=2&unlock"/>
<species classification_group="7"
primary_scientific_name="Zea mays "
full_taxonomy="Eukaryota; Viridiplantae; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; Zea "
general_classification="plant:angiosperm:monocot:grass:cereal"
common_names="maize, Indian corn, corn"
is_sequenced_genome="true"
ncbi_taxonomy_acc="4577"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=4577&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="?"
primary_scientific_name="Hepatitis C virus"
full_taxonomy="Viruses; ssRNA positive-strand viruses, no DNA stage; Flaviviridae; Hepacivirus "
is_sequenced_genome="true"
general_classification="virus"
common_names=""
ncbi_taxonomy_acc="11103"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=11103&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:dicot:legume"
primary_scientific_name="Glycine max"
common_names="soybean"
ncbi_taxonomy_acc="3847"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=3847&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:monocot:grass"
primary_scientific_name="Sorghum bicolor"
common_names="sorghum"
ncbi_taxonomy_acc="4558"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=4558&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:monocot:grass"
primary_scientific_name="Sorghum halepense"
common_names="Johnson grass"
ncbi_taxonomy_acc="4560"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=4560&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:dicot:brassicaceae"
primary_scientific_name="Brassica napus"
common_names="rapeseed"
ncbi_taxonomy_acc="3708"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=4560&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:dicot:brassicaceae"
primary_scientific_name="Brassica rapa"
common_names="field mustard"
ncbi_taxonomy_acc="3711"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=3711&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:gymnosperm:dicot"
primary_scientific_name="Pinus taeda"
common_names="loblolly pine"
ncbi_taxonomy_acc="3352"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=3352&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:gymnosperm:dicot"
primary_scientific_name="Pinus radiata"
common_names="Monterey pine"
ncbi_taxonomy_acc="3347"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=3347&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:gymnosperm:dicot"
primary_scientific_name="Pinus strobus"
common_names="Eastern white pine"
ncbi_taxonomy_acc="3348"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=3348&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:mammal"
primary_scientific_name="Felis catus"
common_names="cat"
scientific_aliases="Felis domesticus"
ncbi_taxonomy_acc="9685"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=9685&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:amphibian"
primary_scientific_name="Xenopus laevis"
common_names="African clawed frog"
ncbi_taxonomy_acc="8355"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=8355&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:dicot"
primary_scientific_name="Quercus alba"
common_names="white oak"
ncbi_taxonomy_acc="3513"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=3513&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:dicot"
primary_scientific_name="Quercus palustris"
common_names="pin oak"
ncbi_taxonomy_acc="73152"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=73152&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="7"
general_classification="plant:angiosperm:dicot"
primary_scientific_name="Helianthus annuus"
common_names="common sunflower"
ncbi_taxonomy_acc="4232"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=4232&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:marsupial"
primary_scientific_name="Macropus sp."
common_names="kangaroo"
ncbi_taxonomy_acc="9322"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=9322&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:marsupial"
primary_scientific_name="Macropus rufus"
common_names="red kangaroo"
ncbi_taxonomy_acc="9321"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=9321&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:monotreme"
primary_scientific_name="Platypus sp. BF-2000"
common_names="platypus, duck-billed platypus"
ncbi_taxonomy_acc="122837"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=122837&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:metazoa:flatworm"
primary_scientific_name="Ligula intestinalis"
common_names="tapeworm"
ncbi_taxonomy_acc="94845"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=94845&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:metazoa:flatworm"
primary_scientific_name="Schistosoma mansoni"
common_names="blood fluke"
ncbi_taxonomy_acc="6183"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=6183&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:metazoa:flatworm"
primary_scientific_name="Dugesia japonica"
common_names="planaria"
ncbi_taxonomy_acc="6161"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=6161&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="1"
general_classification="animal:metazoa:flatworm"
primary_scientific_name="Girardia tigrina"
common_names="brown planaria"
scientific_aliases="Dugesia tigrina"
ncbi_taxonomy_acc="6162"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=6162&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="3"
general_classification="plant:bryophyte"
primary_scientific_name="Lycopodium clavatum"
common_names="stag's-horn clubmoss"
ncbi_taxonomy_acc="3252"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=3252&lvl=3&keep=1&srchmode=1&unlock"/>
<species classification_group="3"
general_classification="plant:bryophyte"
primary_scientific_name="Chondrus crispus"
common_names="carrageen, Irish moss"
ncbi_taxonomy_acc="2769"
relevant_urls="http://www.ncbi.nlm.nih.gov:80/htbin-post/Taxonomy/wgetorg?mode=Tree&id=2769&lvl=3&keep=1&srchmode=1&unlock"/>
</species_list>
scripts/configure.pl.in view on Meta::CPAN
}
} continue {
print OUT;
}
print STDERR "\n";
close(OUT);
close(IN);
# make the perl scripts executable, or any already executable file
if ($outfile =~ m/\.pl$/ || -x $File::Find::name) {
chmod(0775,$outfile);
} else {
chmod(0664,$outfile);
}
}
print STDERR "Substituting parameters in perl scripts and modules\n";
find(\&wanted, cwd());
\%SUBST;
( run in 0.261 second using v1.01-cache-2.11-cpan-496ff517765 )