Paths.py File Reference

Classes
class	common.Paths.CPaths
	Handling of versioned data files for all modules. More...

Namespaces
	common.Paths
	Provides full path (file) names to modules, handling data versions for a release.

Variables
string	common.Paths.PARAM_ENSEMBL_HS_GENOME_BUILD_VER = "ensembl.hs.genome.build.version";
string	common.Paths.PARAM_ENSEMBL_VER = "ensembl.version";
string	common.Paths.PTH_EBI_BIOMART_HS_ENSG2ENTREZ = "ebi.biomart.hs.e2entrez";
string	common.Paths.PTH_EBI_BIOMART_HS_ENSG2HGNC = "ebi.biomart.hs.e2hgnc";
string	common.Paths.PTH_HGNC_BIOMART_HS_HGNC2ALIASES = "hgnc.biomart.hgnc2aliases";
string	common.Paths.PTH_EBI_BIOMART_HS_ENSG2ENST = "ebi.biomart.hs.e2enst";
string	common.Paths.PTH_EBI_BIOMART_HS_ENST2CCDS = "ebi.biomart.hs.enst2ccds";
string	common.Paths.PTH_EBI_BIOMART_HS_ENST2ENSP = "ebi.biomart.hs.enst2ensp";
string	common.Paths.PTH_EBI_BIOMART_HS_ENSG2UNIPROTSWISSPROT = "ebi.biomart.hs.e2uniprotswissprot";
string	common.Paths.PTH_EBI_BIOMART_HS_ENSG2UNIPROTTREMBL = "ebi.biomart.hs.e2uniprottrembl";
string	common.Paths.PTH_EBI_BIOMART_DM_FBGN2CGID = "ebi.biomart.dm.fbgn2cgid";
string	common.Paths.PTH_UNIPROT_HS_ACCESSION2ENTRYNAME = "uniprot.hs.accession2entryname";
string	common.Paths.PTH_EBI_BIOMART_HS_DM_ORTHOLOGY = "ebi.biomart.hs.dm.orthologs";
string	common.Paths.PTH_EBI_BIOMART_HS_MM_ORTHOLOGY = "ebi.biomart.hs.mm.orthologs";
string	common.Paths.PTH_EBI_BIOMART_HS_CE_ORTHOLOGY = "ebi.biomart.hs.ce.orthologs";
string	common.Paths.PTH_EBI_BIOMART_HS_ENSG = "ebi.biomart.hs.ensg";
string	common.Paths.PTH_VDRC_R57_DM_TRFID2CGID = "vdrc.r57.dm.trfid2cgid";
string	common.Paths.PTH_VDRC_R538_DM_TRFID2CGID = "vdrc.r538.dm.trfid2cgid";
string	common.Paths.PTH_VDRC_R601_DM_TRFID2CGID = "vdrc.r601.dm.trfid2cgid";
string	common.Paths.PTH_EURAC_INTERNAL_GLOBAL_LD_1000G = "eurac.internal.global.ld.1000G";
	common.Paths.PARAM_EURAC_INTERNAL_GLOBAL_LD_1000G_VER = \
string	common.Paths.PTH_GNF_HS_GENEATLAS = "gnf.hs.geneatlas";
string	common.Paths.PARAM_GNF_HS_GENEATLAS_VER = "gnf.hs.geneatlas.version";
string	common.Paths.PTH_MISC_PHARMADME_COREMARKERS = "misc.pharmaadme.coremarkers";
string	common.Paths.PARAM_MISC_PHARMADME_COREMARKERS_VER = "misc.pharmaadme.coremarkers.version";
string	common.Paths.PARAM_CBM_DB_HGMD_USER = "cbm.db.hgmd.user";
string	common.Paths.PARAM_CBM_DB_HGMD_PASSWD = "cbm.db.hgmd.passwd";
string	common.Paths.PARAM_CBM_DB_HGMD_HOST = "cbm.db.hgmd.host";
string	common.Paths.PARAM_CBM_DB_HGMD_SCHEMA = "cbm.db.hgmd.schema";
string	common.Paths.PARAM_CBM_DB_HGMD_VER = "cbm.db.hgmd.version";
string	common.Paths.PARAM_CBM_DB_GO_USER = "cbm.db.go.user";
string	common.Paths.PARAM_CBM_DB_GO_PASSWD = "cbm.db.go.passwd";
string	common.Paths.PARAM_CBM_DB_GO_HOST = "cbm.db.go.host";
string	common.Paths.PARAM_CBM_DB_GO_SCHEMA = "cbm.db.go.schema";
string	common.Paths.PARAM_CBM_DB_GO_PORT = "cbm.db.go.port";
string	common.Paths.PARAM_CBM_DB_GO_VER = "cbm.db.go.version";
string	common.Paths.PTH_NCBI_CLINVAR_DAT = "ncbi.clinvar.dat";
string	common.Paths.PTH_INTERACTION_MITAB = "interactions.mitab"
string	common.Paths.PARAM_INTERACTIONS_PRIMARYIDS = "interactions.primaryids"
string	common.Paths.PARAM_INTERACTIONS_VER = "interactions.version";
string	common.Paths.PARAM_INTERACTIONS_DB = "interactions.db";
string	common.Paths.PTH_WISHART_DRUGBANK_XSD = "wishart.drugbank.xsd";
string	common.Paths.PTH_WISHART_DRUGBANK_XML = "wishart.drugbank.xml";
string	common.Paths.PARAM_WISHART_DRUGBANK_VER = "wishart.drugbank.version";
string	common.Paths.PTH_REACTOME_BIOPAX = "reactome.biopax"
string	common.Paths.PARAM_REACTOME_VER = "reactome.version";
string	common.Paths.PTH_GO_GRAPH_BP_POPULATED = "go.graph.bp.populated";
string	common.Paths.PTH_GO_GRAPH_MF_POPULATED = "go.graph.mf.populated";
string	common.Paths.PTH_GO_GRAPH_CC_POPULATED = "go.graph.cc.populated";
string	common.Paths.PTH_GO_GOA_HUMAN = "go.goa.human";
string	common.Paths.PARAM_CBM_DB_MITAB_USER = "cbm.db.mitab.user";
string	common.Paths.PARAM_CBM_DB_MITAB_PASSWD = "cbm.db.mitab.passwd";
string	common.Paths.PARAM_CBM_DB_MITAB_HOST = "cbm.db.mitab.host";
string	common.Paths.PARAM_CBM_DB_MITAB_PORT = "cbm.db.mitab.port";
string	common.Paths.PARAM_CBM_DB_MITAB_SCHEMA = "cbm.db.mitab.schema";
string	common.Paths.PARAM_CBM_DB_MITAB_SCHEMA_MAPPED = "cbm.db.mitab.schema.mapped";