It looks like finding mass list files goes on in runListsWithParams in ClientManager loadTandemData in FHMSMSCategory. tandemFilesContainedInDirectory in ClientManager At first glance it looks like the code in runListsWithParams in ClientManager is useless… this is also where a bug is popping up. Read More

Jainab and I have discussed this before, but I want to get it down: Taking your peak list, sorting by intensity, then selecting the top X of them can be detrimental for this reason: Some locations where fragments are very likely to occur and with high intensities can act as intensity hogs. They will be [...] Read More

For my reference more than for yours: frenchbroad:gfs.git risk2$ git cvsimport -v -d :local:/Volumes/LabShare/cvsroot GFS-Vec-V2 Initialized empty Git repository in /Users/risk2/Documents/gfs.git/.git/ Running cvsps... cvs_direct initialized to CVSROOT /Volumes/LabShare/cvsroot cvs [rlog aborted]: -t/-f wrappers not supported by this version of CVS A legacy version of cvs with -t/-f wrapper support is available as: /usr/bin/ocvs. Read More

You probably don’t need to. If you have the Git tool installed it is probably one of the tools that comes with it. To check try this on the command line: git help -a | grep cvsimport I got that from this site on how to import CVS into Git. The official Git page on [...] Read More

need to work on getting this method (if that is what it is called) to work. Right now we are having to convert from DTA to PKL. NOTE: reference readPKL — it works with all newline characters. Read More

So MSMSFit may be a good replacement for seqtagscore, but it doesn’t solve the redundant overhead processing that comes with comparing a directory of fasta files to a directory of pkl files. The way we are doing it now is like an individual job for each comparison; that means that if there are 100 pkl [...] Read More