open and close a remote access to an ACNUC database
These are low level functions to start and stop a remote access to an ACNUC database.
acnucopen(db, socket, challenge = NA)
acnucclose(socket)
clientid(id = paste("seqinr_",
packageDescription("seqinr")$Version, sep = ""),
socket, verbose = FALSE)
quitacnuc(socket)db |
the remote ACNUC database name |
socket |
an object of class |
challenge |
unimplemented yet |
id |
client ID definition defaulting to seqinr + package version number |
verbose |
logical, if TRUE mode verbose is on |
these low level functions are usually not used directly by the user.
Use choosebank to open a remote ACNUC database
and closebank to close it.
For openacnuc a list with the following
components: type : the type of database that was opened.
totseqs, totspec, totkey : total number of seqs, species, keywords in opened database.
ACC\_LENGTH, L\_MNEMO, WIDTH\_KW, WIDTH\_SP, WIDTH\_SMJ, WIDTH\_AUT,
WIDTH\_BIB, lrtxt, SUBINLNG: max lengths of record keys in database.
J.R. Lobry
citation("seqinr")
## Not run: # Need internet connection
mysocket <- socketConnection( host = "pbil.univ-lyon1.fr",
port = 5558, server = FALSE, blocking = TRUE)
readLines(mysocket, n = 1) # OK acnuc socket started
acnucopen("emblTP", socket = mysocket) -> res
expected <- c("EMBL", "14138095", "236401", "1186228", "8",
"16", "40", "40", "20", "20", "40", "60", "504")
stopifnot(all(unlist(res) == expected))
tryalreadyopen <- try(acnucopen("emblTP", socket = mysocket))
stopifnot(inherits(tryalreadyopen, "try-error"))
# Need a fresh socket because acnucopen() close it if error:
mysocket <- socketConnection( host = "pbil.univ-lyon1.fr",
port = 5558, server = FALSE, blocking = TRUE)
tryoff <- try(acnucopen("off", socket = mysocket))
stopifnot(inherits(tryoff, "try-error"))
mysocket <- socketConnection( host = "pbil.univ-lyon1.fr",
port = 5558, server = FALSE, blocking = TRUE)
tryinexistent <- try(acnucopen("tagadatagadatsointsoin", socket = mysocket))
stopifnot(inherits(tryinexistent, "try-error"))
mysocket <- socketConnection( host = "pbil.univ-lyon1.fr",
port = 5558, server = FALSE, blocking = TRUE)
trycloseunopened <- try(acnucclose(mysocket))
stopifnot(inherits(trycloseunopened, "try-error"))
## End(Not run)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.