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cacheensembl |
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% cacheensembl -servername ensembl -cachefile ~/.embossdata/qatests.server.ensembl -auto ailuropoda_melanoleuca ailuropoda_melanoleuca_otherfeatures anolis_carolinensis anolis_carolinensis_otherfeatures bos_taurus bos_taurus_otherfeatures bos_taurus_variation bos_taurus_funcgen caenorhabditis_elegans caenorhabditis_elegans_funcgen callithrix_jacchus callithrix_jacchus_otherfeatures canis_familiaris canis_familiaris_otherfeatures canis_familiaris_variation canis_familiaris_funcgen cavia_porcellus cavia_porcellus_otherfeatures choloepus_hoffmanni ciona_intestinalis ciona_intestinalis_otherfeatures ciona_intestinalis_funcgen ciona_savignyi ciona_savignyi_otherfeatures danio_rerio danio_rerio_vega danio_rerio_otherfeatures danio_rerio_variation danio_rerio_funcgen dasypus_novemcinctus default_compara default_ontology dipodomys_ordii drosophila_melanogaster drosophila_melanogaster_otherfeatures drosophila_melanogaster_variation drosophila_melanogaster_funcgen echinops_telfairi equus_caballus equus_caballus_otherfeatures equus_caballus_variation erinaceus_europaeus felis_catus felis_catus_variation gallus_gallus gallus_gallus_otherfeatures gallus_gallus_variation gallus_gallus_funcgen gasterosteus_aculeatus gasterosteus_aculeatus_otherfeatures gorilla_gorilla gorilla_gorilla_otherfeatures homo_sapiens homo_sapiens_vega homo_sapiens_otherfeatures homo_sapiens_cdna homo_sapiens_variation homo_sapiens_funcgen loxodonta_africana macaca_mulatta macaca_mulatta_otherfeatures macaca_mulatta_funcgen macropus_eugenii meleagris_gallopavo meleagris_gallopavo_otherfeatures microcebus_murinus monodelphis_domestica monodelphis_domestica_variation mus_musculus mus_musculus_vega mus_musculus_otherfeatures mus_musculus_cdna mus_musculus_variation mus_musculus_funcgen myotis_lucifugus nomascus_leucogenys nomascus_leucogenys_otherfeatures ochotona_princeps ornithorhynchus_anatinus ornithorhynchus_anatinus_otherfeatures ornithorhynchus_anatinus_variation ornithorhynchus_anatinus_funcgen oryctolagus_cuniculus oryctolagus_cuniculus_otherfeatures oryzias_latipes oryzias_latipes_otherfeatures otolemur_garnettii pan_troglodytes pan_troglodytes_otherfeatures pan_troglodytes_variation pan_troglodytes_funcgen pongo_abelii pongo_abelii_otherfeatures pongo_abelii_variation procavia_capensis pteropus_vampyrus rattus_norvegicus rattus_norvegicus_otherfeatures rattus_norvegicus_variation rattus_norvegicus_funcgen saccharomyces_cerevisiae saccharomyces_cerevisiae_otherfeatures saccharomyces_cerevisiae_variation saccharomyces_cerevisiae_funcgen sorex_araneus spermophilus_tridecemlineatus sus_scrofa sus_scrofa_otherfeatures sus_scrofa_variation sus_scrofa_funcgen taeniopygia_guttata taeniopygia_guttata_otherfeatures taeniopygia_guttata_variation takifugu_rubripes takifugu_rubripes_otherfeatures tarsius_syrichta tetraodon_nigroviridis tetraodon_nigroviridis_otherfeatures tetraodon_nigroviridis_variation tupaia_belangeri tursiops_truncatus vicugna_pacos xenopus_tropicalis xenopus_tropicalis_otherfeatures xenopus_tropicalis_funcgen |
Go to the output files for this example
Generates server cache file for an Ensembl server
Version: EMBOSS:6.4.0.0
Standard (Mandatory) qualifiers:
-servername string Server name (Any string)
[-cachefile] outfile [server.$(servername)] Server cache output
file
Additional (Optional) qualifiers:
-outfile outfile [stdout] Output file name
Advanced (Unprompted) qualifiers: (none)
Associated qualifiers:
"-outfile" associated qualifiers
-odirectory string Output directory
"-cachefile" associated qualifiers
-odirectory1 string Output directory
General qualifiers:
-auto boolean Turn off prompts
-stdout boolean Write first file to standard output
-filter boolean Read first file from standard input, write
first file to standard output
-options boolean Prompt for standard and additional values
-debug boolean Write debug output to program.dbg
-verbose boolean Report some/full command line options
-help boolean Report command line options and exit. More
information on associated and general
qualifiers can be found with -help -verbose
-warning boolean Report warnings
-error boolean Report errors
-fatal boolean Report fatal errors
-die boolean Report dying program messages
-version boolean Report version number and exit
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| Qualifier | Type | Description | Allowed values | Default |
|---|---|---|---|---|
| Standard (Mandatory) qualifiers | ||||
| -servername | string | Server name | Any string | |
| [-cachefile] (Parameter 1) |
outfile | Server cache output file | Output file | server.$(servername) |
| Additional (Optional) qualifiers | ||||
| -outfile | outfile | Output file name | Output file | stdout |
| Advanced (Unprompted) qualifiers | ||||
| (none) | ||||
| Associated qualifiers | ||||
| "-outfile" associated outfile qualifiers | ||||
| -odirectory | string | Output directory | Any string | |
| "-cachefile" associated outfile qualifiers | ||||
| -odirectory1 -odirectory_cachefile |
string | Output directory | Any string | |
| General qualifiers | ||||
| -auto | boolean | Turn off prompts | Boolean value Yes/No | N |
| -stdout | boolean | Write first file to standard output | Boolean value Yes/No | N |
| -filter | boolean | Read first file from standard input, write first file to standard output | Boolean value Yes/No | N |
| -options | boolean | Prompt for standard and additional values | Boolean value Yes/No | N |
| -debug | boolean | Write debug output to program.dbg | Boolean value Yes/No | N |
| -verbose | boolean | Report some/full command line options | Boolean value Yes/No | Y |
| -help | boolean | Report command line options and exit. More information on associated and general qualifiers can be found with -help -verbose | Boolean value Yes/No | N |
| -warning | boolean | Report warnings | Boolean value Yes/No | Y |
| -error | boolean | Report errors | Boolean value Yes/No | Y |
| -fatal | boolean | Report fatal errors | Boolean value Yes/No | Y |
| -die | boolean | Report dying program messages | Boolean value Yes/No | Y |
| -version | boolean | Report version number and exit | Boolean value Yes/No | N |
# /homes/pmr/.embossdata/qatests.server.ensembl 2011-07-15 12:00:00 # Automatically generated by cacheensembl for server 'ensembl'. DBNAME ailuropoda_melanoleuca [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/ailuropoda_melanoleuca_core_62_1b" ] ALIAS 9646 ailuropoda_melanoleuca ALIAS ailmel ailuropoda_melanoleuca ALIAS ailmel1 ailuropoda_melanoleuca ALIAS amel ailuropoda_melanoleuca ALIAS amelanoleuca ailuropoda_melanoleuca ALIAS panda ailuropoda_melanoleuca DBNAME ailuropoda_melanoleuca_otherfeatures [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/ailuropoda_melanoleuca_otherfeatures_62_1b" ] DBNAME anolis_carolinensis [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/anolis_carolinensis_core_62_2a" ] ALIAS 28377 anolis_carolinensis ALIAS acar anolis_carolinensis ALIAS acarolinensis anolis_carolinensis ALIAS anocar anolis_carolinensis ALIAS anolis anolis_carolinensis ALIAS anoliscarolinensis anolis_carolinensis ALIAS anolis_lizard anolis_carolinensis DBNAME anolis_carolinensis_otherfeatures [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/anolis_carolinensis_otherfeatures_62_2a" ] DBNAME bos_taurus [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/bos_taurus_core_62_4k" ] ALIAS 9913 bos_taurus ALIAS bostau bos_taurus [Part of this file has been deleted for brevity] release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/tursiops_truncatus_core_62_1h" ] ALIAS 9739 tursiops_truncatus ALIAS dolphin tursiops_truncatus ALIAS ttru tursiops_truncatus ALIAS ttruncatus tursiops_truncatus ALIAS tursiopstruncatus tursiops_truncatus ALIAS turtru tursiops_truncatus ALIAS turtru1 tursiops_truncatus DBNAME vicugna_pacos [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/vicugna_pacos_core_62_1h" ] ALIAS 30538 vicugna_pacos ALIAS alpaca vicugna_pacos ALIAS vicpac vicugna_pacos ALIAS vicpac1 vicugna_pacos ALIAS vicugnapacos vicugna_pacos ALIAS vpac vicugna_pacos ALIAS vpacos vicugna_pacos DBNAME xenopus_tropicalis [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/xenopus_tropicalis_core_62_42" ] ALIAS 8364 xenopus_tropicalis ALIAS xenopus xenopus_tropicalis ALIAS xentro xenopus_tropicalis ALIAS xtro xenopus_tropicalis ALIAS xtropicalis xenopus_tropicalis DBNAME xenopus_tropicalis_otherfeatures [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/xenopus_tropicalis_otherfeatures_62_42" ] DBNAME xenopus_tropicalis_funcgen [ release: "62" server: "ensembl" url: "mysql://anonymous@ensembldb.ensembl.org:5306/xenopus_tropicalis_funcgen_62_42" ] |
| Program name | Description |
|---|---|
| cachedas | Generates server cache file for DAS servers or for the DAS registry |
| cachedbfetch | Generates server cache file for Dbfetch/WSDbfetch data sources |
| cacheebeyesearch | Generates server cache file for EB-eye search domains |
| dbtell | Display information about a public database |
| servertell | Display information about a public server |
| showdb | Displays information on configured databases |
| showserver | Displays information on configured servers |
Please report all bugs to the EMBOSS bug team (emboss-bug © emboss.open-bio.org) not to the original author.