submit: Submit job to JPred REST interface.
In MoseleyBioinformaticsLab/jpredapir: R Access to JPred API

Description Usage Arguments Value Examples

Submit job to JPred REST API.

submit(mode, user_format, file = NULL, seq = NULL, skipPDB = TRUE,
  email = NULL, name = NULL, silent = FALSE,
  host = "http://www.compbio.dundee.ac.uk/jpred4/cgi-bin/rest",
  suffix = "job")

`mode`	Submission mode, possible values: "single", "batch", "msa".
`user_format`	Submission format, possible values: "raw", "fasta", "msf", "blc".
`file`	File path to a file with the job input (sequence or msa).
`seq`	Alternatively, amino acid sequence passed as string of single-letter code without spaces, e.g. –seq=ATWFGTHY
`skipPDB`	Should the PDB query be skipped? (default = TRUE)
`email`	For a batch job submission, where to send the results?
`name`	A name for the job.
`silent`	Should the work be done silently? (default = FALSE)
`host`	JPred host address.
`suffix`	Host address suffix.

Response.

## Not run: 
## Not run ---
example_path <- system.file("exampledata", package = "jpredapir")
submit(mode = "single", user_format = "raw", seq = "MQVWPIEGIKKFETLSYLPP")
submit(mode = "single", user_format = "raw", 
       file = file.path(example_path, "single_raw.example"))
submit(mode = "single", user_format = "fasta", 
       file = file.path(example_path, "single_fasta.example"))
submit(mode = "batch", user_format = "fasta", 
       file = file.path(example_path, "batch_fasta.example"), email = "name@domain.com")
submit(mode = "msa", user_format = "fasta", 
       file = file.path(example_path, "msa_fasta.example"), email = "name@domain.com")
submit(mode = "msa", user_format = "msf", 
       file = file.path(example_path, "msa_msf.example"), email = "name@domain.com")
submit(mode = "msa", user_format = "blc", 
       file = file.path(example_path, "msa_blc.example"), email = "name@domain.com")

## End(Not run)