mock_run_tmhmm_to_file: Mock run_tmhmm_to_file

In richelbilderbeek/tmhmm: Interface to TMHMM

Mock run_tmhmm_to_file

Description

Mock run_tmhmm_to_file

Usage

mock_run_tmhmm_to_file(
  fasta_filename,
  tmhmm_filename,
  one_protein_fasta_filename = "irrelevant",
  folder_name = "irrelevant"
)

Arguments

fasta_filename	path to a FASTA file
tmhmm_filename	filename to write the TMHMM results to
one_protein_fasta_filename	name of a FASTA file, that contains one name and one sequence
folder_name	superfolder of TMHMM. The superfolder's name is /home/[user_name]/.local/share by default, as can be obtained by get_default_tmhmm_folder

Examples

# Write results to a temporary file
tmhmm_filename <- tempfile()
mock_run_tmhmm_to_file(
  fasta_filename = system.file(
    "extdata", "tmhmm.fasta", package = "tmhmm"
  ),
  tmhmm_filename = tmhmm_filename
)

# Result is written to 'tmhmm_filename', cleaning up
file.remove(tmhmm_filename)

richelbilderbeek/tmhmm documentation built on Sept. 3, 2022, 5:14 p.m.