MASTERARBEIT - Fachhochschule Salzburg

B. Umgebung und Applikationen 116B.2 grepseq: Optionsbeschreibungseqgrep Usage:java -jar seqgrep.jar [OPTIONS] fileOptions:Mandatory arguments to long OPTIONS are mandatory for shortOPTIONS too.-b REGEX Record start PATTERN-c FIELD [REGEX] SCORETYPE [SCBOUND]Assign the FIELD to select the score tocalculate the SCORETYPE-e REGEX Record end PATTERN-f FILETYPE Assign the TYPE of input file to parse-h, --helpDisplay this help and exit-l Print order number with output lines-m FIELD REGEX Assign the filter FIELD to match with REGEX-n NUM Output the first/last NUM records-o OUTFILE Place the output into OUTFILE-q, --quiet, --silent Suppress all normal output-r Reverse the result of sort comparisons-s FIELD [REGEX] Assign the FIELD to sort-t OP VALUE Assign the score threshold conditionalOPerator and VALUE-x EXFILE Exclude records has lines start with stringsin EXFILE-y, --contrary Invert the sense of matching--versionOutput version information and exitFile type:Specify the type of file to parse.TYPE File Type Description-------------------------------F[ASTA] FASTA File TypeH[MMOO] HMMOO File Type (default)↩→