The merged output is in a file called merge.txt. This limitation also means that multiple spectra cannot be merged into a single data file. This limitation also means that multiple spectra cannot be merged into a single data file. Parameters at the head of the data file apply to the entire search and over-ride the default settings provided by the search form fields. Parameter labels are not case sensitive.
Case is preserved for parameter values which are free text strings.
This means that blank lines can be used to improve readability and comments can be included by starting the line with one of these symbols. The default is determined by the search form used to upload the file. This allows for a relaxed syntax in which any line starting with a number is assumed to be a query. This first number is parsed as a peptide mass and the rest of the line is ignored. Fragment ion masses must be positive, non-zero values.