input file [idXML]Filename of a FASTA file containing protein sequences.#br#All peptides that are not referencing a protein in this file are removed.#br#All proteins whose accessions are not present in this file are removed. [fasta,opt.]Only peptides with the same sequence and modification assignment as any peptide in this file are kept. Use with 'whitelist:ignore_modifications' to only compare by sequence.#br# [idXML,opt.]Filename of a FASTA file containing protein sequences.#br#All peptides that are referencing a protein in this file are removed.#br#All proteins whose accessions are present in this file are removed. [fasta,opt.]Peptides with the same sequence and modification assignment as any peptide in this file are filtered out. Use with 'blacklist:ignore_modifications' to only compare by sequence.#br# [idXML,opt.]output file [idXML]The text sent to standard out during the execution of IDFilter.The text sent to standard error during the execution of IDFilter. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)